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	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	TTotCov	TVarCov	NTotCov	NVarCov	TVarRat	NVarRat	dbSNP_AF	dbSNP_PopFreq	dbSNP_Strength	COSMIC_Codon	COSMIC_Gene	COSMIC_Gene_Freq	COSMIC_Site_Freq	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	Confidence	Algorithm
TBP	6908	hgsc.bcm.edu	37	6	170871013	170871014	+	In_Frame_Ins	INS	-	-	CAG	rs201732168	by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	64	30	50	0	0.46875	0	-|0.138;CAG|0.862	0.862	strong	TBP,NS,carcinoma,0,5	TBP	58	5	NM_003194	exon3	c.189_190insCAG	p.Q63delinsQQ	.	.	PASS	Atlas-Indel
CA9	768	hgsc.bcm.edu	37	9	35674191	35674208	+	In_Frame_Del	DEL	GGAGAGGAGGATCTACCT	GGAGAGGAGGATCTACCT	-	rs201260414	by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	GGAGAGGAGGATCTACCT	GGAGAGGAGGATCTACCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	98	28	85	0	0.285714	0	GGAGAGGAGGATCTACCT|0.933;-|0.067	0.067	strong	.	CA9	48	.	NM_001216	exon1	c.234_251del	p.78_84del	.	.	PASS	Atlas-Indel
SUPT20HL1	100130302	hgsc.bcm.edu	37	X	24382373	24382374	+	In_Frame_Ins	INS	-	-	TGCTGC	rs371342199	alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	206	37	261	0	0.179612	0	.	.	alt	.	.	.	.	NM_001136234	exon1	c.1496_1497insTGCTGC	p.I499delinsIAA	.	.	PASS	Atlas-Indel
SETD1B	23067	hgsc.bcm.edu	37	12	122248312	122248312	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	80	35	56	0	0.4375	0	.	.	none	.	SETD1B	105	.	NM_015048	exon5	c.1460delC	p.S487fs	.	.	PASS	Atlas-Indel
WDR13	64743	hgsc.bcm.edu	37	X	48462764	48462765	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	45	25	121	.	0.556	.	.	.	none	.	WDR13	96	.	NM_017883	exon8	c.1259_1260insG	p.Q420fs	.	.	PASS	Pindel,Atlas-Indel
KIF1A	547	hgsc.bcm.edu	37	2	241696841	241696843	+	In_Frame_Del	DEL	TCC	TCC	-	rs10594016	bycluster;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	TCC	TCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	68	13	59	.	0.191	.	.	.	strong	.	KIF1A	152	.	NM_001244008	exon27	c.2752_2754del	p.918_918del	.	.	PASS	Pindel
SLC35F5	80255	hgsc.bcm.edu	37	2	114500277	114500277	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	59	11	54	.	0.186	.	.	.	none	SLC35F5,colon,carcinoma,+1,1	SLC35F5	60	1	NM_025181	exon7	c.743delG	p.C248fs	.	.	PASS	Pindel
TMPRSS13	84000	hgsc.bcm.edu	37	11	117789313	117789327	+	In_Frame_Del	DEL	GGGCTGGAGATGCCT	GGGCTGGAGATGCCT	-	rs201746372	by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	GGGCTGGAGATGCCT	GGGCTGGAGATGCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	115	27	97	.	0.235	.	GGGCTGGAGATGCCT|0.257;-|0.743	0.743	strong	TMPRSS13_ENST00000445164,NS,NS,0,3	TMPRSS13	75	3	NM_001206789	exon2	c.249_263del	p.83_88del	.	.	PASS	Pindel
OR2T2	401992	hgsc.bcm.edu	37	1	248616705	248616711	+	Frame_Shift_Del	DEL	TGCTGCG	TGCTGCG	-	rs199823862	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	TGCTGCG	TGCTGCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	258	48	399	.	0.186	.	.	.	weak	.	OR2T2	73	.	NM_001004136	exon1	c.606_612del	p.202_204del	.	.	PASS	Pindel
SETD1B	23067	hgsc.bcm.edu	37	12	122248314	122248314	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	83	26	59	.	0.313	.	.	.	none	.	SETD1B	105	.	NM_015048	exon5	c.1462delT	p.S488fs	.	.	PASS	Pindel
ZNF384	171017	hgsc.bcm.edu	37	12	6777070	6777072	+	In_Frame_Del	DEL	TGC	TGC	-	rs3835029	bycluster;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	TGC	TGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	50	14	55	.	0.280	.	.	.	strong	ZNF384_ENST00000361959,caecum,carcinoma,0,4	ZNF384	102	4	NM_001135734	exon11	c.1543_1545del	p.515_515del	.	.	PASS	Pindel
SMARCA2	6595	hgsc.bcm.edu	37	9	2039777	2039779	+	In_Frame_Del	DEL	CAG	CAG	-	rs376509101		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	71	13	75	.	0.183	.	.	.	weak	SMARCA2_ENST00000349721,NS,carcinoma,0,2	SMARCA2	313	2	NM_139045	exon4	c.666_668del	p.222_223del	.	.	PASS	Pindel
MIR567	693152	hgsc.bcm.edu	37	3	111831724	111831724	+	RNA	DEL	A	A	-	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	120	21	48	.	0.175	.	.	.	none	.	.	.	.	.	.	.	.	.	.	PASS	Pindel
LNPEP	4012	hgsc.bcm.edu	37	5	96315248	96315249	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	174	42	141	.	0.241	.	.	.	none	.	LNPEP	80	.	NM_005575	exon2	c.426_427insA	p.H142fs	.	.	PASS	Pindel
ST8SIA6	338596	hgsc.bcm.edu	37	10	17363043	17363043	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	159	2	143	0	0.0125786	0	.	.	none	ST8SIA6,NS,carcinoma,-1,1	ST8SIA6	85	1	NM_001004470	exon8	c.G1031A	p.W344X	AAGGGCCAGAATC	.	scavenged	Atlas-SNP
OVCH1	341350	hgsc.bcm.edu	37	12	29617550	29617550	+	Missense_Mutation	SNP	G	G	A	rs11050243	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	171	2	190	0	0.0116959	0	G|0.825;A|0.175	0.175	strong	OVCH1,NS,carcinoma,0,1	OVCH1	195	1	NM_183378	exon18	c.C2015T	p.S672F	AGAGGAGAGCTTA	.	scavenged	Atlas-SNP
SPAG17	200162	hgsc.bcm.edu	37	1	118567949	118567949	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	90	44	56	0	0.488889	0	.	.	none	.	SPAG17	263	.	NM_206996	exon27	c.C3821T	p.T1274M	ATCACCGTTTTAT	.	PASS	Atlas-SNP
TCHH	7062	hgsc.bcm.edu	37	1	152081138	152081138	+	Missense_Mutation	SNP	C	C	T	rs189687085	bycluster;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	255	4	155	2	0.0156863	0.0129032	C|1.000;T|0.000	0.000	strong	TCHH,NS,carcinoma,0,1	TCHH	275	1	NM_007113	exon3	c.G4555A	p.E1519K	CCTCCTCGAGGAA	.	scavenged	Atlas-SNP
KAT6B	23522	hgsc.bcm.edu	37	10	76789942	76789942	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	140	2	87	0	0.0142857	0	.	.	none	MYST4,colon,carcinoma,0,1	.	.	1	NM_012330	exon18	c.C5360T	p.T1787M	CCGAGACGAGCAA	.	scavenged	Atlas-SNP
UBB	7314	hgsc.bcm.edu	37	17	16285542	16285542	+	Silent	SNP	G	G	A	rs17052364	byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	174	5	161	1	0.0287356	0.00621118	G|0.540;A|0.460	0.460	strong	UBB,NS,carcinoma,0,1	UBB	30	1	NM_018955	exon2	c.G321A	p.Q107Q	GATCCAGGATAAA	.	scavenged	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144857010	144857010	+	Missense_Mutation	SNP	T	T	C	rs3853916	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	1080	35	825	11	0.0324074	0.0133333	.	.	weak	PDE4DIP,NS,carcinoma,0,1	PDE4DIP	817	1	NM_014644	exon40	c.A6475G	p.T2159A	GAGGGGTCTTCAT	.	scavenged	Atlas-SNP
DRD5	1816	hgsc.bcm.edu	37	4	9783905	9783905	+	Silent	SNP	C	C	T	rs2227848	bycluster;byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	138	12	139	6	0.0869565	0.0431655	C|0.963;T|0.037	0.037	strong	DRD5,colon,carcinoma,+1,1	DRD5	119	1	NM_000798	exon1	c.C252T	p.A84A	TCTGGCCGTGTCA	.	scavenged	Atlas-SNP
CD19	930	hgsc.bcm.edu	37	16	28944721	28944721	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	83	2	91	0	0.0240964	0	.	.	none	CD19,trunk,malignant_melanoma,0,1	CD19	65	1	NM_001178098	exon4	c.G726A	p.M242I	GGTAATGGAGACG	.	scavenged	Atlas-SNP
SRCAP	10847	hgsc.bcm.edu	37	16	30731498	30731498	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	253	3	249	2	0.0118577	0.00803213	.	.	none	SRCAP,NS,carcinoma,0,1	SRCAP	298	1	NM_006662	exon19	c.C2833T	p.R945X	ATGGGTCGATTTG	.	scavenged	Atlas-SNP
BCL3	602	hgsc.bcm.edu	37	19	45261657	45261657	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	82	41	85	0	0.5	0	.	.	none	.	BCL3	28	.	NM_005178	exon7	c.C1046T	p.A349V	TGGTGGCGCGCAG	.	PASS	Atlas-SNP
KRT4	3851	hgsc.bcm.edu	37	12	53207583	53207583	+	Missense_Mutation	SNP	C	C	G	rs76773498	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	62	6	48	0	0.0967742	0	.	.	weak	KRT4,rectum,carcinoma,+1,2	KRT4	110	2	NM_002272	exon1	c.G260C	p.G87A	AATCCACCACCAA	.	scavenged	Atlas-SNP
OR2H1	26716	hgsc.bcm.edu	37	6	29429915	29429915	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	111	6	88	0	0.0540541	0	.	.	none	.	OR2H1	38	.	NM_030883	exon3	c.T369C	p.A123A	CGTGGCTGTCTGC	.	PASS	Atlas-SNP
PLXNB2	23654	hgsc.bcm.edu	37	22	50714348	50714348	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	126	38	138	0	0.301587	0	.	.	none	.	PLXNB2	172	.	NM_012401	exon36	c.C5382T	p.L1794L	TTGGTAGAGCTGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506974	195506974	+	Missense_Mutation	SNP	G	G	A	rs142066159	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	133	12	106	1	0.0902256	0.00943396	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C11477T	p.P3826L	GTGACAGGAAGAG	.	scavenged	Atlas-SNP
LPIN1	23175	hgsc.bcm.edu	37	2	11944623	11944623	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	119	3	130	0	0.0252101	0	.	.	none	LPIN1,caecum,carcinoma,+2,1	LPIN1	99	1	NM_001261428	exon17	c.C2235T	p.R745R	GTGCCGCTGTGAG	.	scavenged	Atlas-SNP
ZNF717	100131827	hgsc.bcm.edu	37	3	75790797	75790797	+	Missense_Mutation	SNP	C	C	T	rs147946451	bycluster;byfrequency;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	13	4	7	0	0.307692	0	C|0.753;T|0.247	0.247	strong	ZNF717,NS,malignant_melanoma,0,1	ZNF717	160	1	NM_001128223	exon3	c.G148A	p.V50M	GCATCACGTCCCT	.	scavenged	Atlas-SNP
TWISTNB	221830	hgsc.bcm.edu	37	7	19738329	19738329	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	49	24	48	0	0.489796	0	.	.	none	.	TWISTNB	63	.	NM_001002926	exon4	c.A627G	p.E209E	AGAAACTTCAGAG	.	PASS	Atlas-SNP
LIPM	340654	hgsc.bcm.edu	37	10	90574359	90574359	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	62	18	61	0	0.290323	0	.	.	none	.	LIPM	17	.	NM_001128215	exon4	c.G537T	p.K179N	GGAAAAGATCTAT	.	PASS	Atlas-SNP
ERBB2IP	55914	hgsc.bcm.edu	37	5	65349497	65349497	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	59	32	48	0	0.542373	0	.	.	none	ERBB2IP,medulla,primitive_neuroectodermal_tumour-medulloblastoma,0,1	ERBB2IP	120	1	NM_001253699	exon21	c.C2351A	p.S784X	AAAGATCAAAAAC	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152188847	152188847	+	Missense_Mutation	SNP	A	A	G	rs145667921		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	726	52	518	47	0.0716253	0.0907336	.	.	weak	HRNR,NS,carcinoma,0,1	HRNR	403	1	NM_001009931	exon3	c.T5258C	p.V1753A	CCAAAGACAGAAG	.	scavenged	Atlas-SNP
GRM8	2918	hgsc.bcm.edu	37	7	126544620	126544620	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	180	4	159	0	0.0222222	0	.	.	none	GRM8,NS,carcinoma,0,1	GRM8	377	1	NM_000845	exon3	c.C845T	p.A282V	TCATTGGCAAACA	.	scavenged	Atlas-SNP
PRKD2	25865	hgsc.bcm.edu	37	19	47207494	47207494	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	240	3	240	2	0.0125	0.00833333	.	.	none	PRKD2,NS,carcinoma,0,1	PRKD2	94	1	NM_016457	exon5	c.G821A	p.R274Q	GTGGGCCGTGTAT	.	scavenged	Atlas-SNP
EXOC3L1	283849	hgsc.bcm.edu	37	16	67220777	67220777	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	28	25	35	0	0.892857	0	.	.	none	.	EXOC3L1	52	.	NM_178516	exon7	c.C1169T	p.S390F	CACTGAGACACAC	.	PASS	Atlas-SNP
KIRREL	55243	hgsc.bcm.edu	37	1	158064854	158064854	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	100	6	81	3	0.06	0.037037	.	.	none	KIRREL_ENST00000368173,NS,carcinoma,-2,3	KIRREL	346	3	NM_018240	exon15	c.T2218C	p.S740P	TACACCTCCCAGC	.	scavenged	Atlas-SNP
ZNF665	79788	hgsc.bcm.edu	37	19	53668754	53668754	+	Missense_Mutation	SNP	C	C	T	rs374379778		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	84	2	85	0	0.0238095	0	.	.	weak	ZNF665,rectum,carcinoma,-1,2	ZNF665	136	2	NM_024733	exon4	c.G989A	p.R330H	CTTGAGCGAACAC	.	scavenged	Atlas-SNP
LRP5	4041	hgsc.bcm.edu	37	11	68171003	68171003	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	192	2	175	0	0.0104167	0	.	.	none	LRP5,NS,carcinoma,-1,1	LRP5	136	1	NM_002335	exon8	c.C1637T	p.P546L	AGCTCCCGCACAT	.	scavenged	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1016770	1016770	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	1279	24	1132	16	0.0187647	0.0141343	.	.	none	MUC6_ENST00000421673,extremity,malignant_melanoma,0,1	MUC6	408	1	NM_005961	exon31	c.C6031T	p.P2011S	AGAAAGGTGGAAC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508902	195508902	+	Silent	SNP	C	C	G	rs79929234		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	108	11	89	8	0.101852	0.0898876	C|0.500;G|0.500	0.500	weak	MUC4_ENST00000463781,NS,malignant_melanoma,-1,2	MUC4	1505	2	NM_018406	exon2	c.G9549C	p.T3183T	AAGAGGCGTGGTG	.	scavenged	Atlas-SNP
DSCAML1	57453	hgsc.bcm.edu	37	11	117374656	117374656	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	134	65	112	0	0.485075	0	.	.	none	DSCAML1,NS,carcinoma,+1,1	DSCAML1	286	1	NM_020693	exon11	c.C2443T	p.R815C	CGTGGCGGATCAG	.	PASS	Atlas-SNP
TBP	6908	hgsc.bcm.edu	37	6	170871040	170871040	+	Silent	SNP	A	A	G	rs55736770	byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	52	16	6	0	0.307692	0	A|0.357;G|0.643	0.643	strong	.	TBP	58	.	NM_003194	exon3	c.A216G	p.Q72Q	GCAGCAACAGCAA	.	PASS	Atlas-SNP
KRTAP5-4	387267	hgsc.bcm.edu	37	11	1643255	1643255	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	165	8	124	2	0.0484848	0.016129	.	.	none	KRTAP5-4,NS,carcinoma,0,1	KRTAP5-4	78	1	NM_001012709	exon1	c.C69T	p.G23G	GCCACAGCCCCCA	.	scavenged	Atlas-SNP
RALGPS1	9649	hgsc.bcm.edu	37	9	129958862	129958862	+	Missense_Mutation	SNP	G	G	T	rs57728614	bycluster;byfrequency;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	134	4	101	0	0.0298507	0	G|0.992;T|0.008	0.008	strong	RALGPS1_ENST00000259351,NS,carcinoma,0,1	RALGPS1	86	1	NM_014636	exon13	c.G1147T	p.G383C	CGAAGGGGCCTGG	.	scavenged	Atlas-SNP
OTOP2	92736	hgsc.bcm.edu	37	17	72923357	72923357	+	Missense_Mutation	SNP	G	G	A	rs374632139		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	185	89	186	0	0.481081	0	.	.	weak	OTOP2,NS,carcinoma,0,1	OTOP2	81	1	NM_178160	exon4	c.G490A	p.V164I	GTTCACGTCCACC	.	PASS	Atlas-SNP
PLD6	201164	hgsc.bcm.edu	37	17	17106253	17106253	+	Missense_Mutation	SNP	C	C	T	rs201208806	bycluster;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	192	3	175	0	0.015625	0	C|1.000;T|0.000	0.000	strong	PLD6,right_upper_lobe,carcinoma,+1,1	PLD6	9	1	NM_178836	exon2	c.G587A	p.R196Q	AAAAGCCGCACGT	.	scavenged	Atlas-SNP
GSTA2	2939	hgsc.bcm.edu	37	6	52616491	52616491	+	Missense_Mutation	SNP	C	C	T	rs377008730		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	139	3	129	1	0.0215827	0.00775194	.	.	weak	GSTA2,trunk,malignant_melanoma,0,2	GSTA2	33	2	NM_000846	exon6	c.G430A	p.G144R	CTTGTCCGTGGCT	.	scavenged	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230371	23230371	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	63	49	131	0	0.777778	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.A138T	p.Q46H	ACCGCAAAGCGGG	.	PASS	Atlas-SNP
CSK	1445	hgsc.bcm.edu	37	15	75090639	75090639	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	78	35	64	0	0.448718	0	.	.	none	.	CSK	43	.	NM_001127190	exon3	c.A1T	p.M1L	GAGAAGATGTCAG	.	PASS	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	37	9	140773504	140773504	+	Splice_Site	SNP	A	A	C	rs77221813	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	77	4	51	5	0.0519481	0.0980392	.	.	weak	CACNA1B,colon,carcinoma,0,1	CACNA1B	266	1	NM_001243812	exon2	c.285-2A>C	.	TCACGCACTCCAT	.	scavenged	Atlas-SNP
C16orf58	64755	hgsc.bcm.edu	37	16	31510677	31510677	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	175	9	156	0	0.0514286	0	.	.	none	.	C16orf58	28	.	NM_022744	exon5	c.T546C	p.S182S	TACAGGAGCCATA	.	PASS	Atlas-SNP
DYNC1H1	1778	hgsc.bcm.edu	37	14	102476412	102476412	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	53	4	38	0	0.0754717	0	.	.	none	.	DYNC1H1	395	.	NM_001376	exon30	c.C6210T	p.V2070V	AATCGTCCCGTTT	.	PASS	Atlas-SNP
ADGB	79747	hgsc.bcm.edu	37	6	147103217	147103217	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	93	4	102	0	0.0430108	0	.	.	none	.	ADGB	93	.	NM_024694	exon30	c.T3924C	p.S1308S	TATTAGTGAGGGA	.	PASS	Atlas-SNP
LURAP1L	286343	hgsc.bcm.edu	37	9	12775861	12775861	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	15	5	12	2	0.333333	0.166667	.	.	none	C9orf150,NS,carcinoma,0,1	.	.	1	NM_203403	exon1	c.T147C	p.G49G	TGGTGGTGGCGGC	.	scavenged	Atlas-SNP
FAM47A	158724	hgsc.bcm.edu	37	X	34148961	34148961	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	84	67	92	0	0.797619	0	.	.	none	.	FAM47A	249	.	NM_203408	exon1	c.C1435T	p.H479Y	CCGGGTGGGGATG	.	PASS	Atlas-SNP
ZNF518B	85460	hgsc.bcm.edu	37	4	10446230	10446230	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	194	3	179	0	0.0154639	0	.	.	none	ZNF518B,NS,carcinoma,+1,1	ZNF518B	116	1	NM_053042	exon3	c.A1723G	p.N575D	TCTGGTTATCTTC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505742	195505742	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	130	8	133	8	0.0615385	0.0601504	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C12709G	p.H4237D	TGGCGTGACCTGT	.	scavenged	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145296403	145296403	+	Silent	SNP	C	C	T	rs4996269	bycluster;byfrequency;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	237	5	130	1	0.021097	0.00769231	T|0.001;G|0.956	0.001	strong	NBPF10,NS,carcinoma,0,1	NBPF10	221	1	NM_001039703	exon3	c.C325T	p.L109L	ACCCAGCTAAGGG	.	scavenged	Atlas-SNP
GALNT16	57452	hgsc.bcm.edu	37	14	69727023	69727023	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	72	4	76	0	0.0555556	0	.	.	none	.	GALNT16	8	.	NM_001168368	exon1	c.G16A	p.A6T	ATCCGCGCCAATG	.	PASS	Atlas-SNP
KIAA1377	57562	hgsc.bcm.edu	37	11	101834522	101834522	+	Missense_Mutation	SNP	C	C	T	rs370774279		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	134	65	133	0	0.485075	0	.	.	weak	KIAA1377,NS,carcinoma,-1,2	KIAA1377	111	2	NM_020802	exon6	c.C2756T	p.P919L	GTTATCCGTCTGT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506746	195506746	+	Missense_Mutation	SNP	G	G	A	rs192522651	bycluster;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	64	7	61	3	0.109375	0.0491803	G|0.951;A|0.049	0.049	strong	MUC4_ENST00000463781,NS,carcinoma,-1,4	MUC4	1505	4	NM_018406	exon2	c.C11705T	p.A3902V	GGGGTGGCGTGAC	.	scavenged	Atlas-SNP
NAT10	55226	hgsc.bcm.edu	37	11	34144051	34144051	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	152	4	132	0	0.0263158	0	.	.	none	NAT10,right_lower_lobe,carcinoma,-2,1	NAT10	78	1	NM_024662	exon9	c.C826T	p.L276L	AAGACCCTGAGGA	.	scavenged	Atlas-SNP
NHSL1	57224	hgsc.bcm.edu	37	6	138745866	138745866	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	85	37	79	0	0.435294	0	.	.	none	.	NHSL1	99	.	NM_020464	exon7	c.C4185T	p.G1395G	GGCAGCGCCGGTG	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82784833	82784833	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	167	9	149	5	0.0538922	0.033557	.	.	none	Q9Y6V0-3,NS,carcinoma,+1,2	PCLO	1506	2	NM_014510	exon2	c.A1124C	p.Q375P	CCAGTCTGCTGAG	.	scavenged	Atlas-SNP
ADAR	103	hgsc.bcm.edu	37	1	154574477	154574477	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	282	5	150	0	0.0177305	0	.	.	none	ADAR,colon,carcinoma,-1,1	ADAR	113	1	NM_015840	exon2	c.A641G	p.D214G	TGACCGTCTGGTC	.	scavenged	Atlas-SNP
SEC24C	9632	hgsc.bcm.edu	37	10	75528653	75528653	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	231	3	211	1	0.012987	0.00473934	.	.	none	SEC24C,colon,carcinoma,+1,1	SEC24C	86	1	NM_198597	exon16	c.G2267A	p.R756Q	GGGTCCGGACAAG	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509374	195509374	+	Missense_Mutation	SNP	T	T	G	rs62282479		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	121	23	115	19	0.190083	0.165217	.	.	weak	MUC4_ENST00000463781,extremity,malignant_melanoma,0,1	MUC4	1505	1	NM_018406	exon2	c.A9077C	p.H3026P	GTGACATGAAGAG	.	scavenged	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100678932	100678932	+	Missense_Mutation	SNP	A	A	G	rs114941002		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	95	7	80	1	0.0736842	0.0125	.	.	weak	MUC17,NS,carcinoma,+1,1	MUC17	804	1	NM_001040105	exon3	c.A4235G	p.E1412G	GTTCTGAGGCTAG	.	scavenged	Atlas-SNP
PRKG2	5593	hgsc.bcm.edu	37	4	82092909	82092909	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	77	5	78	0	0.0649351	0	.	.	none	.	PRKG2	195	.	NM_006259	exon3	c.T678C	p.P226P	CCACATAGGGATG	.	PASS	Atlas-SNP
EML5	161436	hgsc.bcm.edu	37	14	89206866	89206866	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	189	4	161	0	0.021164	0	.	.	none	EML5,NS,carcinoma,-2,1	EML5	141	1	NM_183387	exon5	c.T576C	p.G192G	CGTCTTACCAAAG	.	scavenged	Atlas-SNP
ABLIM2	84448	hgsc.bcm.edu	37	4	8089920	8089920	+	Missense_Mutation	SNP	C	C	T	rs371815593		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	394	190	399	0	0.482233	0	.	.	weak	.	ABLIM2	59	.	NM_001130083	exon4	c.G430A	p.A144T	GGTGCGCGCTGCT	.	PASS	Atlas-SNP
USP6	9098	hgsc.bcm.edu	37	17	5049419	5049419	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	457	172	425	0	0.376368	0	.	.	none	.	USP6	213	.	NM_004505	exon20	c.C2269G	p.L757V	TGTGGACTTAATT	.	PASS	Atlas-SNP
FYB	2533	hgsc.bcm.edu	37	5	39135063	39135063	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	296	3	213	1	0.0101351	0.00469484	.	.	none	FYB_ENST00000540520,NS,carcinoma,-1,4	FYB	354	4	NM_001243093	exon8	c.A1599G	p.K533K	TCCTCCTTTGACA	.	scavenged	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145299808	145299808	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	186	13	106	1	0.0698925	0.00943396	.	.	none	NBPF10_ENST00000369338,extremity,malignant_melanoma,-1,3	NBPF10	221	3	NM_001039703	exon6	c.T857C	p.M286T	CAGAGATGAACAT	.	scavenged	Atlas-SNP
ENPP3	5169	hgsc.bcm.edu	37	6	132043370	132043370	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	112	3	75	0	0.0267857	0	.	.	none	ENPP3,NS,carcinoma,+1,1	ENPP3	117	1	NM_005021	exon18	c.T1571C	p.L524P	CAGATCTTCTACG	.	scavenged	Atlas-SNP
STXBP5	134957	hgsc.bcm.edu	37	6	147612247	147612247	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	97	45	114	0	0.463918	0	.	.	none	.	STXBP5	163	.	NM_139244	exon9	c.G856T	p.G286W	AAGGATGGGAAGA	.	PASS	Atlas-SNP
PAPSS2	9060	hgsc.bcm.edu	37	10	89503202	89503202	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	144	3	133	0	0.0208333	0	.	.	none	PAPSS2,NS,carcinoma,0,1	PAPSS2	46	1	NM_001015880	exon11	c.G1295A	p.R432H	CTCGCCGCAGGCT	.	scavenged	Atlas-SNP
AKR1C4	1109	hgsc.bcm.edu	37	10	5238850	5238850	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	176	4	171	0	0.0227273	0	.	.	none	AKR1C4,NS,carcinoma,+1,3	AKR1C4	57	3	NM_001818	exon1	c.G20A	p.R7H	ATCAGCGTGTAGA	.	scavenged	Atlas-SNP
KRTAP4-8	728224	hgsc.bcm.edu	37	17	39253949	39253949	+	Missense_Mutation	SNP	T	T	A	rs200040006		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	75	7	49	2	0.0933333	0.0408163	.	.	weak	KRTAP4-8,NS,carcinoma,0,4	KRTAP4-8	57	4	NM_031960	exon1	c.A388T	p.S130C	AGATGCTGCAGCT	.	scavenged	Atlas-SNP
SSX2IP	117178	hgsc.bcm.edu	37	1	85116180	85116180	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	103	2	89	0	0.0194175	0	.	.	none	SSX2IP,NS,carcinoma,+1,1	SSX2IP	53	1	NM_001166417	exon14	c.C1535T	p.S512L	TGCCTCGAGTGCA	.	scavenged	Atlas-SNP
ADAM21	8747	hgsc.bcm.edu	37	14	70924294	70924294	+	Silent	SNP	C	C	T	rs61738695	byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	243	7	210	4	0.0288066	0.0190476	C|0.779;T|0.221	0.221	strong	ADAM21_ENST00000267499,NS,malignant_melanoma,+1,4	ADAM21	181	4	NM_003813	exon2	c.C78T	p.S26S	TATTTCCGGCTAC	.	scavenged	Atlas-SNP
HCAR3	8843	hgsc.bcm.edu	37	12	123200477	123200477	+	Missense_Mutation	SNP	G	G	A	rs201423596		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	148	20	118	0	0.135135	0	.	.	weak	.	HCAR3	49	.	NM_006018	exon1	c.C808T	p.R270C	CCGAGCGGTACAC	.	PASS	Atlas-SNP
RAPGEF6	51735	hgsc.bcm.edu	37	5	130764633	130764633	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	168	2	172	1	0.0119048	0.00581395	.	.	none	RAPGEF6_ENST00000509018,NS,carcinoma,-1,1	RAPGEF6	361	1	NM_001164386	exon28	c.A4766G	p.K1589R	CCTAGTTTAGGAT	.	scavenged	Atlas-SNP
LOXHD1	125336	hgsc.bcm.edu	37	18	44140108	44140108	+	Missense_Mutation	SNP	C	C	T	rs374290761	alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	153	4	133	0	0.0261438	0	.	.	alt	LOXHD1_ENST00000398722,colon,carcinoma,-1,2	LOXHD1	367	2	NM_144612	exon19	c.G2999A	p.R1000Q	TTGCCCCGGGCCA	.	scavenged	Atlas-SNP
GPR56	9289	hgsc.bcm.edu	37	16	57691387	57691387	+	Missense_Mutation	SNP	G	G	A	rs147479620	bycluster;byfrequency;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	24	20	49	0	0.833333	0	G|0.999;A|0.001	0.001	strong	.	GPR56	44	.	NM_001145773	exon10	c.G1285A	p.A429T	ATTGCCGCCTACC	.	PASS	Atlas-SNP
MAGEL2	54551	hgsc.bcm.edu	37	15	23890645	23890645	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	88	34	72	0	0.386364	0	.	.	none	MAGEL2_ENST00000532292,colon,carcinoma,0,2	MAGEL2	108	2	NM_019066	exon1	c.C2245T	p.R749C	TCATGCGGTCTTT	.	PASS	Atlas-SNP
BAZ1B	9031	hgsc.bcm.edu	37	7	72873950	72873950	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	149	3	176	1	0.0201342	0.00568182	.	.	none	BAZ1B,NS,carcinoma,0,1	BAZ1B	147	1	NM_032408	exon13	c.G3348A	p.K1116K	CTTTTGCTTGGGA	.	scavenged	Atlas-SNP
GORAB	92344	hgsc.bcm.edu	37	1	170508593	170508593	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	217	3	108	1	0.0138249	0.00925926	.	.	none	GORAB,NS,carcinoma,0,1	GORAB	41	1	NM_152281	exon2	c.G379A	p.G127S	CCACAGGGCATTG	.	scavenged	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152651974	152651974	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	74	34	79	0	0.459459	0	.	.	none	.	SYNE1	3227	.	NM_182961	exon78	c.G13846A	p.E4616K	GATTTTCATATTC	.	PASS	Atlas-SNP
SPPL2C	162540	hgsc.bcm.edu	37	17	43923211	43923211	+	Silent	SNP	G	G	A	rs150961436		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	47	19	33	0	0.404255	0	G|1.000;A|0.000	0.000	weak	IMP5,colon,carcinoma,+1,1	.	.	1	NM_175882	exon1	c.G939A	p.P313P	GCCTCCGCACAGC	.	PASS	Atlas-SNP
KRTAP10-6	386674	hgsc.bcm.edu	37	21	46012354	46012354	+	Silent	SNP	G	G	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	241	3	169	0	0.0124481	0	.	.	none	KRTAP10-6,NS,carcinoma,-1,2	KRTAP10-6	57	2	NM_198688	exon1	c.C12A	p.S4S	CATGGTGGACGCG	.	scavenged	Atlas-SNP
LIMD2	80774	hgsc.bcm.edu	37	17	61775957	61775957	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	55	23	76	0	0.418182	0	.	.	none	.	LIMD2	6	.	NM_030576	exon5	c.G339A	p.E113E	CCAGAGCTCCTTG	.	PASS	Atlas-SNP
ARMC9	80210	hgsc.bcm.edu	37	2	232099952	232099952	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	88	4	61	0	0.0454545	0	.	.	none	.	ARMC9	129	.	NM_025139	exon8	c.T638C	p.L213P	AGCAGCTCCACCA	.	PASS	Atlas-SNP
SNRPE	6635	hgsc.bcm.edu	37	1	203831348	203831348	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	214	3	155	0	0.0140187	0	.	.	none	SNRPE,NS,carcinoma,0,2	SNRPE	8	2	NM_003094	exon2	c.A79G	p.N27D	TTACAAAATGTAC	.	scavenged	Atlas-SNP
SLC35G3	146861	hgsc.bcm.edu	37	17	33520358	33520358	+	Silent	SNP	A	A	G	rs74740601	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	159	2	158	3	0.0125786	0.0189873	.	.	weak	AMAC1,NS,carcinoma,0,1	.	.	1	NM_152462	exon1	c.T969C	p.I323I	GGCTGTAATGATG	.	scavenged	Atlas-SNP
RGPD3	653489	hgsc.bcm.edu	37	2	107049631	107049631	+	Silent	SNP	C	C	T	rs2912696		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	444	10	383	0	0.0225225	0	.	.	weak	RGPD3_ENST00000304514,bladder,carcinoma,0,6	RGPD3	316	6	NM_001144013	exon16	c.G2316A	p.A772A	TGAATCCGCATTT	.	scavenged	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166095	41166095	+	Missense_Mutation	SNP	T	T	C	rs141238140		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	94	6	67	0	0.0638298	0	.	.	weak	.	TREML2	41	.	NM_024807	exon2	c.A128G	p.Y43C	CCCTTATAGGAGC	.	PASS	Atlas-SNP
PAK2	5062	hgsc.bcm.edu	37	3	196529902	196529902	+	Missense_Mutation	SNP	G	G	C	rs201465227	bycluster;byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	107	4	136	3	0.0373832	0.0220588	G|0.914;C|0.086	0.086	strong	PAK2_ENST00000327134,colon,carcinoma,0,4	PAK2	113	4	NM_002577	exon4	c.G303C	p.Q101H	AGAACAGTGGGCT	.	scavenged	Atlas-SNP
FBN1	2200	hgsc.bcm.edu	37	15	48779516	48779516	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	71	38	96	1	0.535211	0.0104167	.	.	none	FBN1,colon,carcinoma,-1,1	FBN1	310	1	NM_000138	exon28	c.G3456A	p.A1152A	GATACACGCGGAG	.	scavenged	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10469677	10469677	+	Missense_Mutation	SNP	C	C	T	rs374296911		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	73	2	150	1	0.0273973	0.00666667	.	.	weak	RP1L1,NS,carcinoma,-1,1	RP1L1	453	1	NM_178857	exon4	c.G1931A	p.R644Q	CTGGCCCGGCTTC	.	scavenged	Atlas-SNP
CACTIN	58509	hgsc.bcm.edu	37	19	3612193	3612193	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	222	107	201	0	0.481982	0	.	.	none	.	.	.	.	NM_021231	exon10	c.C2005T	p.P669S	TGGGCGGTGGGTT	.	PASS	Atlas-SNP
KRTAP4-11	653240	hgsc.bcm.edu	37	17	39274172	39274172	+	Silent	SNP	G	G	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	93	4	78	0	0.0430108	0	.	.	none	KRTAP4-11,NS,carcinoma,-2,2	KRTAP4-11	94	2	NM_033059	exon1	c.C396A	p.P132P	GCAGGTGGGCTGG	.	scavenged	Atlas-SNP
PTN	5764	hgsc.bcm.edu	37	7	136936058	136936058	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	274	131	229	0	0.478102	0	.	.	none	.	PTN	38	.	NM_002825	exon4	c.C370T	p.R124X	GGGCTCGCTTCAG	.	PASS	Atlas-SNP
RBM42	79171	hgsc.bcm.edu	37	19	36124108	36124108	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	32	4	32	0	0.125	0	.	.	none	.	RBM42	40	.	NM_024321	exon6	c.C638T	p.A213V	CTCGGGCTCCAGG	.	PASS	Atlas-SNP
PRR21	643905	hgsc.bcm.edu	37	2	240981668	240981668	+	Silent	SNP	C	C	A	rs199598022	bycluster;byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	3	2	5	1	0.666667	0.2	C|0.678;A|0.322	0.322	strong	PRR21,caecum,carcinoma,0,2	PRR21	53	2	NM_001080835	exon1	c.G732T	p.T244T	AAGGGCCGTGGGT	.	scavenged	Atlas-SNP
SORL1	6653	hgsc.bcm.edu	37	11	121429298	121429298	+	Splice_Site	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	101	37	90	0	0.366337	0	.	.	none	.	SORL1	218	.	NM_003105	exon20	c.2664-2A>G	.	TTCGCTAGGGTGA	.	PASS	Atlas-SNP
KRT24	192666	hgsc.bcm.edu	37	17	38859553	38859553	+	Silent	SNP	G	G	T	rs367736597	alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	69	34	77	0	0.492754	0	.	.	alt	.	KRT24	60	.	NM_019016	exon1	c.C393A	p.G131G	CCCATCGCCAACA	.	PASS	Atlas-SNP
ABCA3	21	hgsc.bcm.edu	37	16	2326687	2326687	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	56	24	55	0	0.428571	0	.	.	none	ABCA3,NS,carcinoma,-2,1	ABCA3	176	1	NM_001089	exon33	c.G5103T	p.E1701D	CCCCTCCTCTGCG	.	PASS	Atlas-SNP
B4GALNT3	283358	hgsc.bcm.edu	37	12	661327	661327	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	171	2	136	0	0.0116959	0	.	.	none	B4GALNT3,NS,carcinoma,+1,1	B4GALNT3	64	1	NM_173593	exon12	c.C1206T	p.D402D	CCAAGACCGGTGA	.	scavenged	Atlas-SNP
KCNC1	3746	hgsc.bcm.edu	37	11	17793670	17793670	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	64	31	51	0	0.484375	0	.	.	none	.	KCNC1	149	.	NM_004976	exon2	c.C1029T	p.N343N	CACCAACGAGTTC	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240805	39240805	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	55	5	64	1	0.0909091	0.015625	.	.	none	KRTAP4-7,caecum,carcinoma,+1,1	KRTAP4-7	49	1	NM_033061	exon1	c.G347T	p.R116L	GCTGCCGCCCCTG	.	scavenged	Atlas-SNP
ZNF746	155061	hgsc.bcm.edu	37	7	149191527	149191527	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	244	4	206	4	0.0163934	0.0194175	.	.	none	ZNF746,colon,carcinoma,+1,2	ZNF746	68	2	NM_001163474	exon2	c.G92A	p.R31H	AGCAGGCGAGCAG	.	scavenged	Atlas-SNP
STAG2	10735	hgsc.bcm.edu	37	X	123182892	123182892	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	256	21	341	0	0.0820312	0	.	.	none	.	STAG2	309	.	NM_001042749	exon10	c.A857T	p.N286I	TGATGAATGCAAT	.	PASS	Atlas-SNP
PSME3	10197	hgsc.bcm.edu	37	17	40985663	40985663	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	160	70	153	0	0.4375	0	.	.	none	.	PSME3	11	.	NM_176863	exon1	c.G15A	p.L5L	GTTGCTGAAGGTG	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54744722	54744722	+	Missense_Mutation	SNP	T	T	C	rs66585874	alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	289	8	213	1	0.0276817	0.00469484	CATCAGGATGTT|0.500;GATCAGGATGTC|0.500	.	alt	LILRA6,NS,carcinoma,+2,1	LILRA6	75	1	NM_024318	exon5	c.A940G	p.N314D	GGATGTTCAGGGG	.	scavenged	Atlas-SNP
LCE1E	353135	hgsc.bcm.edu	37	1	152759850	152759850	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	253	3	215	0	0.0118577	0	.	.	none	LCE1E,NS,carcinoma,+2,1	LCE1E	26	1	NM_178353	exon2	c.C75T	p.P25P	GTGTCCCACCCCC	.	scavenged	Atlas-SNP
IL31RA	133396	hgsc.bcm.edu	37	5	55178961	55178961	+	Missense_Mutation	SNP	G	G	A	rs77015584	bycluster;alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	105	2	86	0	0.0190476	0	.	.	alt	IL31RA,NS,carcinoma,-1,1	IL31RA	84	1	NM_001242637	exon5	c.G544A	p.A182T	GAGTTGGCGCCTG	.	scavenged	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1049321	1049321	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	133	6	132	0	0.0451128	0	.	.	none	.	ABCA7	174	.	NM_019112	exon18	c.G2437A	p.E813K	AGCCTGGAGAAGC	.	PASS	Atlas-SNP
TNFRSF11B	4982	hgsc.bcm.edu	37	8	119938922	119938922	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	106	5	96	0	0.0471698	0	.	.	none	.	TNFRSF11B	87	.	NM_002546	exon4	c.G628T	p.A210S	GAACAGCAAACCT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092885	1092885	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	91	9	70	2	0.0989011	0.0285714	.	.	none	MUC2_ENST00000441003,NS,carcinoma,+1,8	MUC2	614	8	NM_002457	exon30	c.G4704A	p.T1568T	CACCACGGTGACC	.	scavenged	Atlas-SNP
STAB1	23166	hgsc.bcm.edu	37	3	52549477	52549477	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	95	4	108	0	0.0421053	0	.	.	none	.	STAB1	178	.	NM_015136	exon37	c.C3903T	p.F1301F	TGGCTTCTCCTTC	.	PASS	Atlas-SNP
NRP1	8829	hgsc.bcm.edu	37	10	33510716	33510716	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	143	3	89	0	0.020979	0	.	.	none	NRP1,right_upper_lobe,carcinoma,0,1	NRP1	126	1	NM_001244973	exon8	c.C1213T	p.R405X	TGATTCGGACAAA	.	scavenged	Atlas-SNP
PCDHA11	56138	hgsc.bcm.edu	37	5	140250132	140250132	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	122	2	153	0	0.0163934	0	.	.	none	PCDHA11_ENST00000398640,NS,carcinoma,-2,1	PCDHA11	209	1	NM_018902	exon1	c.G1444C	p.D482H	GACGCGGACGCGC	.	scavenged	Atlas-SNP
SUPT5H	6829	hgsc.bcm.edu	37	19	39964876	39964876	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	202	3	181	0	0.0148515	0	.	.	none	SUPT5H,NS,carcinoma,+1,1	SUPT5H	119	1	NM_003169	exon26	c.A2654G	p.Y885C	GCAGGTACAACAC	.	scavenged	Atlas-SNP
RGAG1	57529	hgsc.bcm.edu	37	X	109697658	109697658	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	107	8	161	0	0.0747664	0	.	.	none	.	RGAG1	168	.	NM_020769	exon3	c.G3813A	p.R1271R	TCTACGGACCAGG	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17085373	17085373	+	Missense_Mutation	SNP	C	C	T	rs2092130	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	630	44	600	24	0.0698413	0.04	C|1.000;|0.000	.	weak	Q13209_HUMAN,NS,carcinoma,0,6	.	.	6	NM_001271733	exon10	c.G1318A	p.G440R	TATCCCCATCTGG	.	scavenged	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093365	1093365	+	Silent	SNP	T	T	C	rs56021606	bycluster;byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	92	9	81	14	0.0978261	0.17284	T|0.500;C|0.500	0.500	strong	MUC2_ENST00000441003,NS,carcinoma,+1,6	MUC2	614	6	NM_002457	exon30	c.T5184C	p.T1728T	CACCACTACGGTG	.	scavenged	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32021402	32021402	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	193	2	184	0	0.0103627	0	.	.	none	TNXB_ENST00000375247,NS,carcinoma,0,2	TNXB	553	2	NM_019105	exon25	c.G8548A	p.V2850M	CTGTCACGGTCAG	.	scavenged	Atlas-SNP
VIT	5212	hgsc.bcm.edu	37	2	36970315	36970315	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	101	48	109	0	0.475248	0	.	.	none	.	VIT	138	.	NM_001177969	exon4	c.C191A	p.A64E	GTCCAGCAGGATG	.	PASS	Atlas-SNP
PHEX	5251	hgsc.bcm.edu	37	X	22117216	22117216	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	64	6	83	0	0.09375	0	.	.	none	.	PHEX	95	.	NM_000444	exon9	c.C1026T	p.R342R	GGTCCGCGTCCCG	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32634341	32634341	+	Missense_Mutation	SNP	A	A	G	rs3189152	bycluster;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	20	20	6	6	1	1	A|0.710;G|0.290	0.290	strong	HLA-DQB1,NS,carcinoma,0,1	HLA-DQB1	15	1	NM_002123	exon1	c.T44C	p.V15A	GTTGCTACCCGAA	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508722	195508722	+	Silent	SNP	G	G	T	rs201248411	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	114	2	93	1	0.0175439	0.0107527	.	.	weak	MUC4_ENST00000463781,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C9729A	p.T3243T	ATGACCGGTGGAT	.	scavenged	Atlas-SNP
SHPRH	257218	hgsc.bcm.edu	37	6	146215303	146215303	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	81	2	62	0	0.0246914	0	.	.	none	SHPRH_ENST00000367505,NS,carcinoma,+1,3	SHPRH	169	3	NM_173082	exon27	c.C4690T	p.R1564C	TAACACGACTGAT	.	scavenged	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093411	1093411	+	Missense_Mutation	SNP	A	A	C	rs55824838	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	89	13	76	2	0.146067	0.0263158	.	.	weak	MUC2_ENST00000441003,NS,lymphoid_neoplasm,-1,4	MUC2	614	4	NM_002457	exon30	c.A5230C	p.T1744P	CCAACCACGACAC	.	scavenged	Atlas-SNP
SNED1	25992	hgsc.bcm.edu	37	2	241992639	241992639	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	46	29	63	0	0.630435	0	.	.	none	.	SNED1	76	.	NM_001080437	exon16	c.C2153T	p.A718V	TGGGCGCGGTGGC	.	PASS	Atlas-SNP
MBD3L2	125997	hgsc.bcm.edu	37	19	7051376	7051376	+	Missense_Mutation	SNP	G	G	A	rs76391970		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	196	191	156	152	0.97449	0.974359	.	.	weak	MBD3L2,cerebellum,glioma,0,1	MBD3L2	2	1	NM_144614	exon2	c.G370A	p.G124S	ACGGCCGGTGAAT	.	scavenged	Atlas-SNP
MTMR10	54893	hgsc.bcm.edu	37	15	31266590	31266590	+	Nonsense_Mutation	SNP	A	A	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	127	70	104	0	0.551181	0	.	.	none	.	MTMR10	74	.	NM_017762	exon5	c.T401G	p.L134X	ATAATTAACTCTG	.	PASS	Atlas-SNP
ATP11A	23250	hgsc.bcm.edu	37	13	113512594	113512594	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	96	2	109	0	0.0208333	0	.	.	none	ATP11A_ENST00000375630,NS,carcinoma,-1,4	ATP11A	225	4	NM_032189	exon22	c.T2657A	p.F886Y	AGTACTTCTTCTA	.	scavenged	Atlas-SNP
DGKH	160851	hgsc.bcm.edu	37	13	42772647	42772647	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	169	2	166	0	0.0118343	0	.	.	none	DGKH,colon,carcinoma,+1,2	DGKH	106	2	NM_001204504	exon19	c.G2201T	p.G734V	TTGCTGGGAGTTC	.	scavenged	Atlas-SNP
PIKFYVE	200576	hgsc.bcm.edu	37	2	209215527	209215527	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	171	3	134	1	0.0175439	0.00746269	.	.	none	PIKFYVE,colon,carcinoma,-1,1	PIKFYVE	223	1	NM_015040	exon37	c.C5467T	p.R1823W	TACTGTCGGCTCT	.	scavenged	Atlas-SNP
OR4C6	219432	hgsc.bcm.edu	37	11	55433434	55433434	+	Silent	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	146	64	106	0	0.438356	0	.	.	none	OR4C6,NS,carcinoma,0,1	OR4C6	114	1	NM_001004704	exon1	c.C792A	p.P264P	TCACCCCATAGAC	.	PASS	Atlas-SNP
MANEA	79694	hgsc.bcm.edu	37	6	96053987	96053987	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	50	28	52	0	0.56	0	.	.	none	.	MANEA	58	.	NM_024641	exon5	c.C1095T	p.I365I	CAGCATCCGTCCA	.	PASS	Atlas-SNP
KLHL29	114818	hgsc.bcm.edu	37	2	23785138	23785138	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	66	26	66	0	0.393939	0	.	.	none	.	KLHL29	47	.	NM_052920	exon3	c.C72T	p.N24N	CGTCAACGGGACG	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100678918	100678918	+	Silent	SNP	G	G	A	rs200627718	byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	90	3	79	0	0.0333333	0	G|0.998;A|0.002	0.002	strong	MUC17,colon,carcinoma,+1,1	MUC17	804	1	NM_001040105	exon3	c.G4221A	p.P1407P	CACGCCGGTAGTC	.	scavenged	Atlas-SNP
MAGI3	260425	hgsc.bcm.edu	37	1	114191926	114191926	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	85	4	42	0	0.0470588	0	.	.	none	.	MAGI3	181	.	NM_152900	exon13	c.A2223G	p.L741L	GGTGCTAGGAGGA	.	PASS	Atlas-SNP
PLAC1	10761	hgsc.bcm.edu	37	X	133700486	133700486	+	Missense_Mutation	SNP	C	C	T	rs200146589	bycluster;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	116	5	207	0	0.0431034	0	C|0.999;T|0.001	0.001	strong	.	PLAC1	17	.	NM_021796	exon3	c.G227A	p.R76H	GTAACACGGTAGG	.	PASS	Atlas-SNP
ANKRD35	148741	hgsc.bcm.edu	37	1	145561400	145561400	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	155	2	96	0	0.0129032	0	.	.	none	ANKRD35,NS,carcinoma,+1,1	ANKRD35	96	1	NM_144698	exon10	c.G1088A	p.R363Q	GTCTCCGGCCTGG	.	scavenged	Atlas-SNP
TONSL	4796	hgsc.bcm.edu	37	8	145659566	145659566	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	129	2	140	0	0.0155039	0	.	.	none	TONSL_ENST00000409379,right_upper_lobe,carcinoma,0,2	TONSL	128	2	NM_013432	exon21	c.C3182T	p.P1061L	AGCAGGGGTGTAA	.	scavenged	Atlas-SNP
PRKCSH	5589	hgsc.bcm.edu	37	19	11558370	11558370	+	Silent	SNP	G	G	A	rs77563879	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	137	3	100	1	0.0218978	0.01	.	.	weak	PRKCSH,caecum,carcinoma,0,1	PRKCSH	55	1	NM_001001329	exon11	c.G966A	p.E322E	GGAGGAGGAAGAA	.	scavenged	Atlas-SNP
CUL7	9820	hgsc.bcm.edu	37	6	43007981	43007981	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	123	5	116	0	0.0406504	0	.	.	none	.	CUL7	133	.	NM_001168370	exon22	c.T4459C	p.S1487P	AGATTGAGGCAAC	.	PASS	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	37	1	154842250	154842250	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	26	5	16	0	0.192308	0	.	.	none	KCNN3,colon,carcinoma,0,1	KCNN3	141	1	NM_001204087	exon1	c.C191A	p.P64Q	AGCTGCGGAGGCT	.	PASS	Atlas-SNP
HYOU1	10525	hgsc.bcm.edu	37	11	118917360	118917360	+	Missense_Mutation	SNP	C	C	T	rs143927145	alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	127	2	138	0	0.015748	0	C|1.000;A|0.000	.	alt	HYOU1,NS,carcinoma,-1,1	HYOU1	88	1	NM_006389	exon23	c.G2750A	p.R917Q	TTAGGCCGGGGCC	.	scavenged	Atlas-SNP
EIF2AK2	5610	hgsc.bcm.edu	37	2	37353531	37353531	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	153	2	137	0	0.0130719	0	.	.	none	EIF2AK2,NS,carcinoma,+1,1	EIF2AK2	54	1	NM_001135651	exon11	c.T809C	p.I270T	AATTCTATTTCTT	.	scavenged	Atlas-SNP
MEA1	4201	hgsc.bcm.edu	37	6	42981024	42981024	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	113	3	104	1	0.0265487	0.00961538	.	.	none	MEA1,NS,carcinoma,-2,1	MEA1	11	1	NM_014623	exon2	c.A132G	p.E44E	AGTGCCTTCTGAA	.	scavenged	Atlas-SNP
SNX13	23161	hgsc.bcm.edu	37	7	17874490	17874490	+	Splice_Site	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	89	4	95	0	0.0449438	0	.	.	none	.	SNX13	113	.	NM_015132	exon15	c.1360-2A>G	.	GATGCCTAACAGA	.	PASS	Atlas-SNP
CYP2A6	1548	hgsc.bcm.edu	37	19	41355765	41355765	+	Nonsense_Mutation	SNP	G	G	A	rs199545200	by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	388	10	361	7	0.0257732	0.0193906	G|1.000;A|0.000	0.000	strong	CYP2A6,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,1	CYP2A6	69	1	NM_000762	exon2	c.C301T	p.R101X	CGCCTCGCCCGCT	.	scavenged	Atlas-SNP
LDOC1	23641	hgsc.bcm.edu	37	X	140271025	140271025	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	35	24	54	0	0.685714	0	.	.	none	.	LDOC1	26	.	NM_012317	exon1	c.G182T	p.S61I	CGGGAGCTCTCGC	.	PASS	Atlas-SNP
KRTAP4-3	85290	hgsc.bcm.edu	37	17	39324104	39324104	+	Silent	SNP	A	A	G	rs368619075		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	314	9	206	6	0.0286624	0.0291262	.	.	weak	KRTAP4-3,colon,carcinoma,0,1	KRTAP4-3	40	1	NM_033187	exon1	c.T321C	p.S107S	GCAACTAGAAATG	.	scavenged	Atlas-SNP
ANAPC1	64682	hgsc.bcm.edu	37	2	112625615	112625615	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	478	39	412	17	0.08159	0.0412621	.	.	none	ANAPC1,NS,other,0,1	ANAPC1	116	1	NM_022662	exon7	c.G670C	p.V224L	TACAAACAAGTGG	.	scavenged	Atlas-SNP
C5orf24	134553	hgsc.bcm.edu	37	5	134190831	134190831	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	125	2	91	0	0.016	0	.	.	none	C5orf24,NS,carcinoma,-2,1	C5orf24	9	1	NM_001135586	exon2	c.A241G	p.K81E	AAGAAAAAGAAGA	.	scavenged	Atlas-SNP
MME	4311	hgsc.bcm.edu	37	3	154856016	154856016	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	153	2	79	0	0.0130719	0	.	.	none	MME,colon,carcinoma,+2,1	MME	133	1	NM_007287	exon9	c.A846G	p.E282E	AAAAGAAATTGCC	.	scavenged	Atlas-SNP
CLIP1	6249	hgsc.bcm.edu	37	12	122862149	122862149	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	118	2	97	0	0.0169492	0	.	.	none	CLIP1,colon,carcinoma,0,1	CLIP1	126	1	NM_002956	exon3	c.G444A	p.P148P	GCACAGCGGTGAA	.	scavenged	Atlas-SNP
COL3A1	1281	hgsc.bcm.edu	37	2	189864021	189864021	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	62	35	54	0	0.564516	0	.	.	none	.	COL3A1	292	.	NM_000090	exon30	c.G2033A	p.G678D	ATGCTGGTGCCCC	.	PASS	Atlas-SNP
ZNF555	148254	hgsc.bcm.edu	37	19	2852470	2852470	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	74	30	70	0	0.405405	0	.	.	none	.	ZNF555	61	.	NM_152791	exon4	c.T407A	p.I136N	AGAAAATTCCACC	.	PASS	Atlas-SNP
GOLGA6B	55889	hgsc.bcm.edu	37	15	72954612	72954612	+	Silent	SNP	G	G	A	rs28436032		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	255	6	237	4	0.0235294	0.0168776	G|0.500;A|0.500	0.500	weak	GOLGA6B,mouth,carcinoma,0,1	GOLGA6B	30	1	NM_018652	exon11	c.G867A	p.A289A	CCTGGCGCCCCCA	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513590	195513590	+	Missense_Mutation	SNP	C	C	T	rs74192533	alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	285	16	303	15	0.0561404	0.049505	CGGTGACAG|0.500;TGGTGACAA|0.500	.	alt	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.G4861A	p.D1621N	AAGTGTCGGTGAC	.	scavenged	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124281312	124281312	+	Missense_Mutation	SNP	G	G	T	rs143386728	bycluster;byfrequency;alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	161	3	119	0	0.0186335	0	G|1.000;A|0.000	.	alt	DNAH10_ENST00000409039,colon,carcinoma,0,4	DNAH10	888	4	NM_207437	exon12	c.G1742T	p.R581L	TCTTTCGGATTAA	.	scavenged	Atlas-SNP
LRRN3	54674	hgsc.bcm.edu	37	7	110764121	110764121	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	64	34	58	0	0.53125	0	.	.	none	.	LRRN3	132	.	NM_018334	exon2	c.T1293C	p.N431N	TTCTAATCTAAAT	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139391655	139391655	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	113	2	86	0	0.0176991	0	.	.	none	NOTCH1_ENST00000277541,NS,carcinoma,0,2	NOTCH1	1980	2	NM_017617	exon34	c.G6536A	p.R2179Q	TTCCTCCGTGCCT	.	scavenged	Atlas-SNP
KCNH7	90134	hgsc.bcm.edu	37	2	163241253	163241253	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	245	3	205	0	0.0122449	0	.	.	none	KCNH7,NS,carcinoma,0,2	KCNH7	378	2	NM_033272	exon13	c.A2907G	p.E969E	CACTGTTTCTTCA	.	scavenged	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49421689	49421689	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	182	65	145	0	0.357143	0	.	.	none	.	MLL2	1173	.	NM_003482	exon47	c.G14540T	p.G4847V	CTCTTGCCTTCCA	.	PASS	Atlas-SNP
C11orf88	399949	hgsc.bcm.edu	37	11	111385703	111385703	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	59	28	50	0	0.474576	0	.	.	none	.	C11orf88	37	.	NM_001100388	exon1	c.C194T	p.P65L	GTCTGCCGGTGGC	.	PASS	Atlas-SNP
C1S	716	hgsc.bcm.edu	37	12	7170336	7170336	+	Missense_Mutation	SNP	G	G	A	rs12146727	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	127	42	141	0	0.330709	0	G|0.885;A|0.115	0.115	strong	.	C1S	93	.	NM_201442	exon4	c.G356A	p.R119H	AAGAGCGTTTTAC	.	PASS	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	37	1	186039814	186039814	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	193	2	98	0	0.0103627	0	.	.	none	HMCN1,NS,carcinoma,+2,1	HMCN1	797	1	NM_031935	exon52	c.A8064G	p.V2688V	CAAAGTAAACAAC	.	scavenged	Atlas-SNP
OR4D1	26689	hgsc.bcm.edu	37	17	56232687	56232687	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	131	64	103	0	0.48855	0	.	.	none	.	OR4D1	48	.	NM_012374	exon1	c.C173A	p.P58H	ACACACCCATGTA	.	PASS	Atlas-SNP
UBXN11	91544	hgsc.bcm.edu	37	1	26608843	26608843	+	Missense_Mutation	SNP	C	C	A	rs6667693	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	17	5	8	2	0.294118	0.25	C|0.500;A|0.500	0.500	weak	UBXN11,NS,carcinoma,0,1	UBXN11	54	1	NM_183008	exon16	c.G1510T	p.G504C	CGGGACCGGGACT	.	scavenged	Atlas-SNP
C2orf53	339779	hgsc.bcm.edu	37	2	27360666	27360666	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	96	7	72	0	0.0729167	0	.	.	none	.	C2orf53	45	.	NM_178553	exon3	c.T532C	p.W178R	GATGCCAGCGCCA	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	37	MT	15622	15622	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	8	8	8	0	1	0	.	.	none	.	.	.	.	ENST00000361789	exon1	c.T876C	p.L292L	CGTCCTTGCCCTA	.	PASS	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	37	1	237944873	237944873	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	99	2	164	0	0.020202	0	.	.	none	RYR2,NS,carcinoma,+1,1	RYR2	1273	1	NM_001035	exon89	c.T11889C	p.S3963S	TTCCAGTCAAATT	.	scavenged	Atlas-SNP
GTPBP10	85865	hgsc.bcm.edu	37	7	90007487	90007487	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	214	5	204	0	0.0233645	0	.	.	none	GTPBP10,NS,carcinoma,-1,2	GTPBP10	31	2	NM_033107	exon8	c.T739C	p.Y247H	ACTCAATACAGGA	.	scavenged	Atlas-SNP
SRGAP2D	100996712	hgsc.bcm.edu	37	1	206566075	206566075	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	681	8	404	2	0.0117474	0.00495049	.	.	none	SRGAP2_ENST00000414007,NS,carcinoma,0,1	.	.	1	NM_001271887	exon2	c.C57T	p.A19A	CAATGCCGACAGC	.	scavenged	Atlas-SNP
NUF2	83540	hgsc.bcm.edu	37	1	163315530	163315530	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	140	4	82	0	0.0285714	0	.	.	none	NUF2_ENST00000271452,mucosal,malignant_melanoma,+2,2	NUF2	138	2	NM_145697	exon11	c.G870A	p.Q290Q	ATGTCAGTTGGAA	.	scavenged	Atlas-SNP
RGL3	57139	hgsc.bcm.edu	37	19	11529920	11529920	+	Splice_Site	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	98	5	76	0	0.0510204	0	.	.	none	.	RGL3	100	.	NM_001161616	exon2	c.33+2T>C	.	CCCCTTACCAGGG	.	PASS	Atlas-SNP
OSBPL9	114883	hgsc.bcm.edu	37	1	52251499	52251499	+	Missense_Mutation	SNP	T	T	C	rs149501959	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	152	2	109	0	0.0131579	0	T|0.998;A|0.002	.	alt	OSBPL9_ENST00000447887,bladder,carcinoma,-1,4	OSBPL9	192	4	NM_148909	exon21	c.T1879C	p.S627P	AAGAAGTCTTTTT	.	scavenged	Atlas-SNP
CTAGE1	64693	hgsc.bcm.edu	37	18	19996983	19996983	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	242	4	192	0	0.0165289	0	.	.	none	CTAGE1_ENST00000391403,NS,carcinoma,-2,2	CTAGE1	146	2	NM_172241	exon1	c.A792G	p.E264E	GTTCATTTCTAAT	.	scavenged	Atlas-SNP
CACNA1D	776	hgsc.bcm.edu	37	3	53757546	53757546	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	321	4	272	0	0.0124611	0	.	.	none	CACNA1D_ENST00000350061,NS,carcinoma,+2,2	CACNA1D	324	2	NM_000720	exon14	c.C1812T	p.V604V	TTTCGTCTCTCTT	.	scavenged	Atlas-SNP
EPHB2	2048	hgsc.bcm.edu	37	1	23236932	23236932	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	78	59	138	0	0.75641	0	.	.	none	EPHB2,colon,carcinoma,0,1	EPHB2	257	1	NM_004442	exon14	c.G2563A	p.A855T	CCGAGCGCCCTGC	.	PASS	Atlas-SNP
MPDZ	8777	hgsc.bcm.edu	37	9	13150599	13150599	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	109	42	91	0	0.385321	0	.	.	none	.	MPDZ	324	.	NM_003829	exon25	c.G3541A	p.V1181M	TCATCACTTCTCC	.	PASS	Atlas-SNP
SETD1B	23067	hgsc.bcm.edu	37	12	122248314	122248314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	81	35	57	0	0.432099	0	.	.	none	.	SETD1B	105	.	NM_015048	exon5	c.C1463T	p.S488F	AGTCGTCCCCTGC	.	PASS	Atlas-SNP
EPHA7	2045	hgsc.bcm.edu	37	6	94120454	94120454	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	178	78	143	0	0.438202	0	.	.	none	.	EPHA7	251	.	NM_004440	exon3	c.A597C	p.K199N	GTACACTTTGACA	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	114111175	114111175	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	80	40	57	0	0.5	0	.	.	none	CSMD3_ENST00000343508,NS,carcinoma,+1,2	CSMD3	2325	2	NM_052900	exon5	c.G727T	p.G243X	TTGTTCCTCCACA	.	PASS	Atlas-SNP
AQP12B	653437	hgsc.bcm.edu	37	2	241621939	241621939	+	Missense_Mutation	SNP	C	C	G	rs150288484	bycluster;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	84	3	79	2	0.0357143	0.0253165	C|0.996;G|0.004	0.004	strong	AQP12B,NS,carcinoma,0,1	AQP12B	33	1	NM_001102467	exon1	c.G316C	p.E106Q	GAGACTCCTCGGC	.	scavenged	Atlas-SNP
ESYT3	83850	hgsc.bcm.edu	37	3	138181019	138181019	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	254	148	130	0	0.582677	0	.	.	none	.	ESYT3	64	.	NM_031913	exon8	c.C886G	p.L296V	CTGGATCTGACCA	.	PASS	Atlas-SNP
ITGB3	3690	hgsc.bcm.edu	37	17	45331302	45331302	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	7	5	4	0	0.714286	0	.	.	none	.	ITGB3	157	.	NM_000212	exon1	c.A75G	p.V25V	TGGCGTAGGAGGT	.	PASS	Atlas-SNP
CPXM1	56265	hgsc.bcm.edu	37	20	2777704	2777704	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	268	3	229	0	0.011194	0	.	.	none	CPXM1,mouth,carcinoma,-1,1	CPXM1	107	1	NM_001184699	exon7	c.G869A	p.G290E	GAGGATCCCGACG	.	scavenged	Atlas-SNP
ZCCHC8	55596	hgsc.bcm.edu	37	12	122975093	122975093	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	78	4	37	0	0.0512821	0	.	.	none	.	ZCCHC8	56	.	NM_017612	exon4	c.G339A	p.E113E	AAATTCCTCTATT	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13721176	13721176	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	77	2	73	0	0.025974	0	.	.	none	DNAH5,NS,adenocarcinoma,-1,2	DNAH5	868	2	NM_001369	exon71	c.G12212A	p.R4071H	ACATAACGGGTTT	.	scavenged	Atlas-SNP
TIMELESS	8914	hgsc.bcm.edu	37	12	56827699	56827699	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	114	2	121	0	0.0175439	0	.	.	none	TIMELESS,right_upper_lobe,carcinoma,0,2	TIMELESS	107	2	NM_003920	exon3	c.G109A	p.D37N	TCAGATCCTTCAC	.	scavenged	Atlas-SNP
HIST1H4F	8361	hgsc.bcm.edu	37	6	26240696	26240696	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	80	37	66	0	0.4625	0	.	.	none	.	HIST1H4F	9	.	NM_003540	exon1	c.G43A	p.G15S	AAGGGAGGCGCCA	.	PASS	Atlas-SNP
DRD5	1816	hgsc.bcm.edu	37	4	9783971	9783971	+	Silent	SNP	C	C	T	rs113695344		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	130	7	115	3	0.0538462	0.026087	C|0.500;T|0.500	0.500	weak	DRD5,rectum,carcinoma,0,1	DRD5	119	1	NM_000798	exon1	c.C318T	p.Y106Y	CGGTTACTGGCCC	.	scavenged	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147470759	147470759	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	26	10	27	0	0.384615	0	.	.	none	.	SPINK5	245	.	NM_001127699	exon8	c.G634A	p.G212S	CGAGAGGGTGAAA	.	PASS	Atlas-SNP
MMP15	4324	hgsc.bcm.edu	37	16	58073912	58073912	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	48	6	84	0	0.125	0	.	.	none	MMP15,NS,malignant_melanoma,0,1	MMP15	58	1	NM_002428	exon4	c.C574T	p.Q192X	CGGCGACAGAAGG	.	PASS	Atlas-SNP
S100A6	6277	hgsc.bcm.edu	37	1	153507187	153507187	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	93	4	89	0	0.0430108	0	.	.	none	.	S100A6	8	.	NM_014624	exon3	c.A258G	p.E86E	GAGGGCTTCATTG	.	PASS	Atlas-SNP
ARFGAP1	55738	hgsc.bcm.edu	37	20	61907883	61907883	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	256	105	207	0	0.410156	0	.	.	none	.	ARFGAP1	38	.	NM_018209	exon4	c.G222A	p.K74K	TGAGAAGATGAAA	.	PASS	Atlas-SNP
IL37	27178	hgsc.bcm.edu	37	2	113674819	113674819	+	Missense_Mutation	SNP	C	C	T	rs370690543		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	127	42	121	0	0.330709	0	.	.	weak	.	IL37	56	.	NM_014439	exon3	c.C259T	p.R87C	TACATACGCCCAG	.	PASS	Atlas-SNP
TAOK1	57551	hgsc.bcm.edu	37	17	27829683	27829683	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	146	65	111	0	0.445205	0	.	.	none	.	TAOK1	151	.	NM_025142	exon13	c.G1280A	p.R427H	TATCTCGTCACAA	.	PASS	Atlas-SNP
IFITM3	10410	hgsc.bcm.edu	37	11	320606	320606	+	Missense_Mutation	SNP	G	G	T	rs199749095	bycluster;byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	122	9	129	2	0.0737705	0.0155039	G|0.936;T|0.064	0.064	strong	IFITM3,caecum,carcinoma,0,13	IFITM3	132	13	NM_021034	exon1	c.C208A	p.P70T	AGCAGGGGTTCAT	.	scavenged	Atlas-SNP
MPP7	143098	hgsc.bcm.edu	37	10	28527517	28527517	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	53	24	49	0	0.45283	0	.	.	none	MPP7,rectum,carcinoma,+1,2	MPP7	60	2	NM_173496	exon4	c.C17T	p.T6M	GATCCCGTTGACA	.	PASS	Atlas-SNP
CC2D2A	57545	hgsc.bcm.edu	37	4	15601207	15601207	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	182	2	148	2	0.010989	0.0135135	.	.	none	CC2D2A_ENST00000424120,NS,carcinoma,0,2	CC2D2A	158	2	NM_001080522	exon37	c.C4552T	p.R1518W	CTGACTCGGTGGA	.	scavenged	Atlas-SNP
T	6862	hgsc.bcm.edu	37	6	166578142	166578142	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	87	4	58	0	0.045977	0	.	.	none	.	T	77	.	NM_003181	exon6	c.A681G	p.K227K	CATCTCTTTGTGA	.	PASS	Atlas-SNP
C1orf112	55732	hgsc.bcm.edu	37	1	169775212	169775212	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	136	4	96	0	0.0294118	0	.	.	none	C1orf112,NS,carcinoma,+1,1	C1orf112	74	1	NM_018186	exon7	c.T546C	p.T182T	CAATACTTGGAAG	.	scavenged	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	37	1	154842243	154842243	+	Silent	SNP	A	A	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	49	30	21	2	0.612245	0.0952381	.	.	none	KCNN3,NS,carcinoma,0,3	KCNN3	141	3	NM_001204087	exon1	c.T198G	p.L66L	CTGCTGAAGCTGC	.	scavenged	Atlas-SNP
HPS3	84343	hgsc.bcm.edu	37	3	148880088	148880088	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	166	3	87	1	0.0180723	0.0114943	.	.	none	HPS3,NS,neuroblastoma,-2,1	HPS3	104	1	NM_032383	exon12	c.A2260G	p.I754V	AACAAAATTGGAA	.	scavenged	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166123	41166123	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	100	6	70	0	0.06	0	.	.	none	.	TREML2	41	.	NM_024807	exon2	c.G100A	p.G34R	TCTCCCCTTCAAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505829	195505829	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	136	21	136	14	0.154412	0.102941	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.C12622T	p.P4208S	GAAGAGGGGTGGC	.	scavenged	Atlas-SNP
TRIP11	9321	hgsc.bcm.edu	37	14	92472695	92472695	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	231	3	192	0	0.012987	0	.	.	none	TRIP11,NS,carcinoma,0,1	TRIP11	184	1	NM_004239	exon11	c.G1625A	p.R542K	TGAACTCTCTTTT	.	scavenged	Atlas-SNP
DST	667	hgsc.bcm.edu	37	6	56335907	56335907	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	110	3	73	1	0.0272727	0.0136986	.	.	none	DST_ENST00000370769,NS,carcinoma,+1,2	DST	1427	2	NM_015548	exon76	c.T14449C	p.S4817P	TACTTGAGGAAAG	.	scavenged	Atlas-SNP
PSPH	5723	hgsc.bcm.edu	37	7	56085002	56085002	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	464	6	443	1	0.012931	0.00225734	.	.	none	PSPH,NS,carcinoma,0,2	PSPH	23	2	NM_004577	exon6	c.G346A	p.V116I	GCTCTACAATACT	.	scavenged	Atlas-SNP
THOC5	8563	hgsc.bcm.edu	37	22	29908012	29908012	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	173	2	170	0	0.0115607	0	.	.	none	THOC5,rectum,carcinoma,+1,2	THOC5	58	2	NM_001002878	exon19	c.C1795T	p.R599W	TTACCCGAATGTT	.	scavenged	Atlas-SNP
SPRED1	161742	hgsc.bcm.edu	37	15	38643716	38643716	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	205	3	165	0	0.0146341	0	.	.	none	SPRED1,NS,carcinoma,-2,1	SPRED1	51	1	NM_152594	exon7	c.A1186G	p.S396G	GACACTAGCGACG	.	scavenged	Atlas-SNP
OR52E8	390079	hgsc.bcm.edu	37	11	5878458	5878458	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	171	4	146	4	0.0233918	0.0273973	.	.	none	OR52E8,NS,carcinoma,0,1	OR52E8	54	1	NM_001005168	exon1	c.C475T	p.L159L	TGTACAGGCTCCT	.	scavenged	Atlas-SNP
HNRNPCL1	343069	hgsc.bcm.edu	37	1	12907708	12907708	+	Silent	SNP	A	A	G	rs4026149	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	198	9	182	18	0.0454545	0.0989011	A|0.667;G|0.333	0.333	strong	HNRNPCL1,NS,carcinoma,-1,1	HNRNPCL1	68	1	NM_001013631	exon2	c.T435C	p.R145R	ACGTTGACGTTTC	.	scavenged	Atlas-SNP
ONECUT2	9480	hgsc.bcm.edu	37	18	55103350	55103350	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	25	9	27	0	0.36	0	.	.	none	.	ONECUT2	42	.	NM_004852	exon1	c.C402T	p.S134S	CATGTCCTGCGAC	.	PASS	Atlas-SNP
DNAH1	25981	hgsc.bcm.edu	37	3	52400534	52400534	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	114	48	117	0	0.421053	0	.	.	none	.	DNAH1	534	.	NM_015512	exon35	c.C5580T	p.L1860L	CATGCTCGTCGGG	.	PASS	Atlas-SNP
FANCD2	2177	hgsc.bcm.edu	37	3	10108913	10108913	+	Missense_Mutation	SNP	G	G	T	rs80258959	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	79	3	65	0	0.0379747	0	.	.	weak	FANCD2,NS,carcinoma,0,2	FANCD2	253	2	NM_001018115	exon26	c.G2406T	p.Q802H	CTGCCAGGAAACA	.	scavenged	Atlas-SNP
MAS1	4142	hgsc.bcm.edu	37	6	160328730	160328730	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	196	3	157	0	0.0153061	0	.	.	none	MAS1,right_upper_lobe,carcinoma,-1,1	MAS1	42	1	NM_002377	exon1	c.A743G	p.Y248C	TCCTTTACCTGCT	.	scavenged	Atlas-SNP
PRB2	653247	hgsc.bcm.edu	37	12	11546395	11546395	+	Missense_Mutation	SNP	G	G	T	rs11054277		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	286	5	253	2	0.0174825	0.00790514	.	.	weak	PRB2_ENST00000389362,NS,carcinoma,0,2	PRB2	168	2	NM_006248	exon3	c.C617A	p.P206Q	CCTTGTGGGGGTG	.	scavenged	Atlas-SNP
HCAR2	338442	hgsc.bcm.edu	37	12	123187023	123187023	+	Missense_Mutation	SNP	G	G	A	rs201423596		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	285	67	238	0	0.235088	0	.	.	weak	.	HCAR2	36	.	NM_177551	exon1	c.C808T	p.R270C	CCGAGCGGTACAC	.	PASS	Atlas-SNP
TTC17	55761	hgsc.bcm.edu	37	11	43425620	43425620	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	211	3	164	1	0.014218	0.00609756	.	.	none	TTC17,NS,carcinoma,-1,1	TTC17	112	1	NM_018259	exon11	c.A1405G	p.N469D	GATATCAATGATT	.	scavenged	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155411418	155411418	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	10	7	31	0	0.7	0	.	.	none	.	DCHS2	594	.	NM_001142552	exon1	c.G1090A	p.V364M	GCACCACGCCGCT	.	PASS	Atlas-SNP
CLASP1	23332	hgsc.bcm.edu	37	2	122135079	122135079	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	157	70	165	0	0.44586	0	.	.	none	.	CLASP1	135	.	NM_015282	exon33	c.A3638G	p.D1213G	ACAATATCACACT	.	PASS	Atlas-SNP
NEB	4703	hgsc.bcm.edu	37	2	152536281	152536281	+	Missense_Mutation	SNP	G	G	A	rs371710158	alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	149	60	132	1	0.402685	0.00757576	.	.	alt	NEB,NS,carcinoma,0,1	NEB	1697	1	NM_004543	exon32	c.C3209T	p.A1070V	GGAATCGCATCAG	.	scavenged	Atlas-SNP
DSG3	1830	hgsc.bcm.edu	37	18	29045363	29045363	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	124	2	112	0	0.016129	0	.	.	none	DSG3,NS,carcinoma,-1,1	DSG3	172	1	NM_001944	exon10	c.C1354T	p.R452X	ATGAACCGAGATT	.	scavenged	Atlas-SNP
KLHL6	89857	hgsc.bcm.edu	37	3	183273170	183273170	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	282	99	172	0	0.351064	0	.	.	none	.	KLHL6	100	.	NM_130446	exon1	c.C272T	p.A91V	GCTGCGGCAAGCA	.	PASS	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	37	2	109371659	109371659	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	752	9	675	2	0.0119681	0.00296296	.	.	none	RANBP2_ENST00000283195,NS,carcinoma,0,2	RANBP2	488	2	NM_006267	exon17	c.G2410A	p.A804T	CGATGGGCAGAAG	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512263	195512263	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	186	3	144	1	0.016129	0.00694444	.	.	none	MUC4_ENST00000463781,rectum,carcinoma,+1,1	MUC4	1505	1	NM_018406	exon2	c.C6188T	p.T2063M	AGAGGCGTGGTGT	.	scavenged	Atlas-SNP
GCC2	9648	hgsc.bcm.edu	37	2	109088188	109088188	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	380	4	308	2	0.0105263	0.00649351	.	.	none	GCC2,NS,carcinoma,+1,1	GCC2	129	1	NM_181453	exon6	c.T2403C	p.A801A	CCTGGCTTTTCAG	.	scavenged	Atlas-SNP
CUX2	23316	hgsc.bcm.edu	37	12	111779831	111779831	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	163	2	166	0	0.0122699	0	.	.	none	CUX2,caecum,carcinoma,0,1	CUX2	145	1	NM_015267	exon21	c.C3633T	p.T1211T	CAACACCGTCATC	.	scavenged	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32010286	32010286	+	Silent	SNP	G	G	C	rs6457479	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	343	120	326	108	0.349854	0.331288	G|0.980;C|0.020	0.020	strong	TNXB_ENST00000375247,NS,carcinoma,-2,3	TNXB	553	3	NM_019105	exon40	c.C12150G	p.R4050R	CCGCTCGCGGTTG	.	scavenged	Atlas-SNP
GRM7	2917	hgsc.bcm.edu	37	3	7721909	7721909	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	154	2	135	0	0.012987	0	.	.	none	GRM7,NS,carcinoma,+2,1	GRM7	223	1	NM_000844	exon9	c.G2625A	p.R875R	ATCGAGGCTGTCA	.	scavenged	Atlas-SNP
KIF1A	547	hgsc.bcm.edu	37	2	241696843	241696843	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	49	4	42	0	0.0816327	0	.	.	none	.	KIF1A	152	.	NM_001244008	exon27	c.G2751T	p.E917D	CTCATCCTCCTCC	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017974	1017974	+	Missense_Mutation	SNP	C	C	G	rs200353019	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	586	12	553	13	0.0204778	0.0235081	.	.	weak	MUC6_ENST00000421673,colon,carcinoma,0,2	MUC6	408	2	NM_005961	exon31	c.G4827C	p.Q1609H	TGTGGTCTGAGGG	.	scavenged	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32497975	32497975	+	Silent	SNP	A	A	G	rs114195860	bycluster;byfrequency;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	67	65	37	36	0.970149	0.972973	A|0.546;G|0.454	0.454	strong	HLA-DRB5,NS,carcinoma,0,1	HLA-DRB5	31	1	NM_002125	exon1	c.T27C	p.G9G	GTAGGAACCTCCA	.	scavenged	Atlas-SNP
CCDC130	81576	hgsc.bcm.edu	37	19	13873535	13873535	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	38	14	36	0	0.368421	0	.	.	none	CCDC130,NS,carcinoma,-1,1	CCDC130	25	1	NM_030818	exon10	c.G844A	p.A282T	AGAACCGCGCTTG	.	PASS	Atlas-SNP
UBR5	51366	hgsc.bcm.edu	37	8	103269903	103269903	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	76	40	72	0	0.526316	0	.	.	none	.	UBR5	285	.	NM_015902	exon58	c.G8144A	p.W2715X	ATTGACCAGAACC	.	PASS	Atlas-SNP
POTEC	388468	hgsc.bcm.edu	37	18	14513764	14513764	+	Missense_Mutation	SNP	C	C	T	rs79575795		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	427	10	332	3	0.0234192	0.00903614	.	.	weak	POTEC,NS,carcinoma,0,17	POTEC	129	17	NM_001137671	exon10	c.G1430A	p.R477Q	TGTTTCCGGGTAT	.	scavenged	Atlas-SNP
FOXP4	116113	hgsc.bcm.edu	37	6	41557528	41557528	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	107	35	70	0	0.327103	0	.	.	none	.	FOXP4	83	.	NM_001012426	exon10	c.G1085A	p.R362Q	GCGAGCGGCTGCA	.	PASS	Atlas-SNP
BPNT1	10380	hgsc.bcm.edu	37	1	220232323	220232323	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	147	3	58	0	0.0204082	0	.	.	none	BPNT1,colon,carcinoma,0,1	BPNT1	29	1	NM_006085	exon9	c.G790T	p.D264Y	GGATATCGGTTAA	.	scavenged	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	37	16	71025245	71025245	+	Silent	SNP	C	C	T	rs1774516	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	96	28	147	17	0.291667	0.115646	C|0.977;T|0.023	0.023	strong	LOC652153,NS,carcinoma,-1,2	HYDIN	788	2	NM_001270974	exon25	c.G3840A	p.T1280T	AGCTTTCGTTTTT	.	scavenged	Atlas-SNP
HORMAD1	84072	hgsc.bcm.edu	37	1	150680879	150680879	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	158	2	112	0	0.0126582	0	.	.	none	HORMAD1,colon,carcinoma,+1,5	HORMAD1	59	5	NM_032132	exon9	c.A400G	p.N134D	TTTGGTTTTTACT	.	scavenged	Atlas-SNP
CD109	135228	hgsc.bcm.edu	37	6	74524771	74524771	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	72	2	59	0	0.0277778	0	.	.	none	CD109,colon,carcinoma,+1,1	CD109	170	1	NM_133493	exon30	c.A3836G	p.E1279G	ATCAAGAAGCCTT	.	scavenged	Atlas-SNP
C3orf79	152118	hgsc.bcm.edu	37	3	153203809	153203809	+	Silent	SNP	C	C	T	rs57748412	bycluster;byfrequency;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	95	4	53	0	0.0421053	0	C|0.985;T|0.015	0.015	strong	.	C3orf79	13	.	NM_001101337	exon2	c.C138T	p.S46S	GACTTCCGGTTGT	.	PASS	Atlas-SNP
CHAD	1101	hgsc.bcm.edu	37	17	48543124	48543124	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	92	40	119	0	0.434783	0	.	.	none	.	CHAD	36	.	NM_001267	exon2	c.C882T	p.T294T	GGCGAGGGTCTCC	.	PASS	Atlas-SNP
TNFRSF14	8764	hgsc.bcm.edu	37	1	2488105	2488105	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	73	69	73	0	0.945205	0	.	.	none	.	TNFRSF14	89	.	NM_003820	exon1	c.T2C	p.M1T	GAGGCATGGAGCC	.	PASS	Atlas-SNP
PSG2	5670	hgsc.bcm.edu	37	19	43585253	43585253	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	201	6	196	7	0.0298507	0.0357143	.	.	none	PSG2,NS,carcinoma,0,2	PSG2	84	2	NM_031246	exon2	c.G210A	p.G70G	GATTTGCCCTTTG	.	scavenged	Atlas-SNP
MTMR1	8776	hgsc.bcm.edu	37	X	149896262	149896262	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	67	50	110	0	0.746269	0	.	.	none	.	MTMR1	82	.	NM_003828	exon5	c.A530G	p.K177R	TGTGCAAGGTATA	.	PASS	Atlas-SNP
POTEC	388468	hgsc.bcm.edu	37	18	14542654	14542654	+	Silent	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	558	9	567	5	0.016129	0.00881834	.	.	none	POTEC,NS,carcinoma,-1,5	POTEC	129	5	NM_001137671	exon1	c.G492T	p.T164T	CATGTCCGTGTCC	.	scavenged	Atlas-SNP
JMY	133746	hgsc.bcm.edu	37	5	78587039	78587039	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	65	4	49	0	0.0615385	0	.	.	none	.	JMY	82	.	NM_152405	exon4	c.T1444C	p.Y482H	CTCCAGTATGCAG	.	PASS	Atlas-SNP
GLB1L3	112937	hgsc.bcm.edu	37	11	134188798	134188798	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	80	30	100	0	0.375	0	.	.	none	.	GLB1L3	102	.	NM_001080407	exon20	c.G1924A	p.G642S	ATGAGTGGCTCAG	.	PASS	Atlas-SNP
PAK2	5062	hgsc.bcm.edu	37	3	196530022	196530022	+	Silent	SNP	C	C	T	rs115224945	bycluster;byfrequency;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	68	3	74	0	0.0441176	0	C|0.986;T|0.015	0.015	strong	PAK2_ENST00000327134,rectum,carcinoma,0,2	PAK2	113	2	NM_002577	exon4	c.C423T	p.S141S	TCTGAGCTTTACT	.	scavenged	Atlas-SNP
XIRP1	165904	hgsc.bcm.edu	37	3	39228103	39228103	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	92	2	71	0	0.0217391	0	.	.	none	XIRP1,NS,carcinoma,0,2	XIRP1	173	2	NM_001198621	exon2	c.G2834T	p.R945L	TCCCACCGCAGAC	.	scavenged	Atlas-SNP
SND1	27044	hgsc.bcm.edu	37	7	127447592	127447592	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	88	4	101	0	0.0454545	0	.	.	none	.	SND1	104	.	NM_014390	exon11	c.C1207T	p.R403W	GAGGCCCGGGAAT	.	PASS	Atlas-SNP
ZP3	7784	hgsc.bcm.edu	37	7	76058885	76058885	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	127	54	136	0	0.425197	0	.	.	none	.	ZP3	32	.	NM_001110354	exon2	c.C366T	p.P122P	CCGCCCCGTGGGA	.	PASS	Atlas-SNP
GOLGA6L6	727832	hgsc.bcm.edu	37	15	20739874	20739874	+	Missense_Mutation	SNP	C	C	T	rs59357493	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	31	2	32	0	0.0645161	0	.	.	weak	GOLGA6L6,caecum,carcinoma,0,1	GOLGA6L6	37	1	NM_001145004	exon8	c.G1876A	p.E626K	TCTTCTCCTCCTG	.	scavenged	Atlas-SNP
NUP50	10762	hgsc.bcm.edu	37	22	45574145	45574145	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	249	17	240	6	0.0682731	0.025	.	.	none	NUP50,hand,carcinoma,0,2	NUP50	24	2	NM_007172	exon5	c.A367G	p.T123A	CCTACCACCTTGG	.	scavenged	Atlas-SNP
ASS1	445	hgsc.bcm.edu	37	9	133374905	133374905	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	155	2	161	0	0.0129032	0	.	.	none	ASS1,upper_leg,malignant_melanoma,0,1	ASS1	37	1	NM_054012	exon14	c.G1141A	p.G381S	GTGCAGGGTGATT	.	scavenged	Atlas-SNP
COPB1	1315	hgsc.bcm.edu	37	11	14504615	14504615	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	40	4	53	0	0.1	0	.	.	none	.	COPB1	81	.	NM_001144062	exon8	c.A920G	p.E307G	TTTAATTCTATCA	.	PASS	Atlas-SNP
FKBP9	11328	hgsc.bcm.edu	37	7	33014908	33014908	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	121	7	98	1	0.0578512	0.0102041	.	.	none	FKBP9,brain,glioma,0,9	FKBP9	335	9	NM_007270	exon3	c.G482A	p.R161Q	GCCCTCGGACCAT	.	scavenged	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240804	39240804	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	54	5	63	1	0.0925926	0.015873	.	.	none	KRTAP4-7,caecum,carcinoma,0,1	KRTAP4-7	49	1	NM_033061	exon1	c.C346A	p.R116S	TGCTGCCGCCCCT	.	scavenged	Atlas-SNP
CDC42BPG	55561	hgsc.bcm.edu	37	11	64597205	64597205	+	Silent	SNP	G	G	T	rs7936466	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	8	5	0	0	0.625	.	G|0.734;T|0.266	0.266	strong	.	CDC42BPG	101	.	NM_017525	exon30	c.C3705A	p.G1235G	CCGGTCGCCCAGC	.	PASS	Atlas-SNP
ARMC8	25852	hgsc.bcm.edu	37	3	138009387	138009387	+	Splice_Site	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	147	44	83	0	0.29932	0	.	.	none	.	ARMC8	79	.	NM_015396	exon22	c.1853-1G>A	.	CGTTTAGGTTCAC	.	PASS	Atlas-SNP
UBE2A	7319	hgsc.bcm.edu	37	X	118708868	118708868	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	106	81	183	0	0.764151	0	.	.	none	.	UBE2A	43	.	NM_003336	exon2	c.C49T	p.Q17X	AGGTTGCAGGAGG	.	PASS	Atlas-SNP
DDX52	11056	hgsc.bcm.edu	37	17	36003419	36003419	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	53	4	40	0	0.0754717	0	.	.	none	.	DDX52	40	.	NM_007010	exon1	c.G31A	p.G11S	CCGCGCCGAGCCG	.	PASS	Atlas-SNP
ZNF33A	7581	hgsc.bcm.edu	37	10	38345000	38345000	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	53	2	60	0	0.0377358	0	.	.	none	ZNF33A,NS,carcinoma,-1,1	ZNF33A	103	1	NM_006954	exon5	c.T1948C	p.S650P	CATAAGTCAGCTC	.	scavenged	Atlas-SNP
PHACTR2	9749	hgsc.bcm.edu	37	6	144104401	144104401	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	132	2	102	0	0.0151515	0	.	.	none	PHACTR2_ENST00000440869,colon,carcinoma,+1,2	PHACTR2	99	2	NM_001100164	exon10	c.G1691A	p.R564H	TTAAACGCAGACT	.	scavenged	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145293535	145293535	+	Missense_Mutation	SNP	C	C	G	rs55936365		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	142	7	98	1	0.0492958	0.0102041	.	.	weak	NBPF10,NS,carcinoma,0,2	NBPF10	221	2	NM_001039703	exon1	c.C130G	p.L44V	TGTTTTCTAACTC	.	scavenged	Atlas-SNP
PLEKHO2	80301	hgsc.bcm.edu	37	15	65157677	65157677	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	29	14	22	0	0.482759	0	.	.	none	.	PLEKHO2	50	.	NM_025201	exon6	c.C1063G	p.P355A	GCCAAGCCCTCTC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509579	195509579	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	153	3	123	1	0.0196078	0.00813008	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G8872A	p.A2958T	AGGTGGCGTGACC	.	scavenged	Atlas-SNP
DOCK9	23348	hgsc.bcm.edu	37	13	99537314	99537314	+	Missense_Mutation	SNP	C	C	T	rs370847473		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	60	3	57	0	0.05	0	.	.	weak	DOCK9_ENST00000448493,left_upper_lobe,carcinoma,+1,3	DOCK9	311	3	NM_001130049	exon21	c.G2296A	p.G766R	CCCTTCCGTCTTT	.	scavenged	Atlas-SNP
MYC	4609	hgsc.bcm.edu	37	8	128750820	128750820	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	122	60	94	0	0.491803	0	.	.	none	.	MYC	168	.	NM_002467	exon2	c.G357A	p.E119E	GACCGAGCTGCTG	.	PASS	Atlas-SNP
FAM72B	653820	hgsc.bcm.edu	37	1	120839839	120839839	+	Silent	SNP	T	T	C	rs530681	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	1083	14	817	5	0.0129271	0.00611995	T|0.500;C|0.500	0.500	weak	FAM72B,NS,carcinoma,0,1	FAM72B	10	1	NM_001100910	exon1	c.T6C	p.S2S	CATGTCTACCAAC	.	scavenged	Atlas-SNP
AP2S1	1175	hgsc.bcm.edu	37	19	47342811	47342811	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	96	3	66	0	0.03125	0	.	.	none	AP2S1,NS,lymphoid_neoplasm,+1,1	AP2S1	12	1	NM_004069	exon3	c.C178A	p.R60S	AGCGGCGGTAAAT	.	scavenged	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45234463	45234463	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	45	3	31	0	0.0666667	0	.	.	none	CDC27_ENST00000531206,NS,carcinoma,0,2	CDC27	337	2	NM_001114091	exon7	c.T658G	p.S220A	AATTGGAAGATTC	.	scavenged	Atlas-SNP
POTEC	388468	hgsc.bcm.edu	37	18	14542916	14542916	+	Missense_Mutation	SNP	G	G	T	rs4429251	bycluster;by2hit2allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	423	10	413	4	0.0236407	0.00968523	G|1.000;|0.000	.	weak	POTEC,NS,carcinoma,+1,1	POTEC	129	1	NM_001137671	exon1	c.C230A	p.T77K	TTGCTCGTGCCGC	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152280691	152280691	+	Missense_Mutation	SNP	A	A	T	rs117945779		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	591	70	328	33	0.118443	0.10061	.	.	weak	FLG,NS,malignant_melanoma,+1,1	FLG	900	1	NM_002016	exon3	c.T6671A	p.L2224Q	CCCACCAGTGAGT	.	scavenged	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145323656	145323656	+	Missense_Mutation	SNP	A	A	T	rs75252120	bycluster;byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	71	12	43	1	0.169014	0.0232558	A|0.625;T|0.375	0.375	strong	NBPF10,NS,carcinoma,0,7	NBPF10	221	7	NM_001039703	exon27	c.A3493T	p.I1165F	GCAGGAATTAAAA	.	scavenged	Atlas-SNP
OR52R1	119695	hgsc.bcm.edu	37	11	4825192	4825192	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	56	27	52	0	0.482143	0	.	.	none	.	OR52R1	81	.	NM_001005177	exon1	c.C419T	p.T140I	GATGGGGTCAGGA	.	PASS	Atlas-SNP
ARHGAP28	79822	hgsc.bcm.edu	37	18	6882194	6882194	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	101	83	172	0	0.821782	0	.	.	none	.	ARHGAP28	181	.	NM_001010000	exon10	c.T872A	p.M291K	ACAAAATGTGCCA	.	PASS	Atlas-SNP
EEF2K	29904	hgsc.bcm.edu	37	16	22291669	22291669	+	Nonsense_Mutation	SNP	C	C	A	rs150317840	alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	91	2	59	0	0.021978	0	C|1.000;T|0.000	.	alt	EEF2K_ENST00000263026,NS,carcinoma,0,2	EEF2K	142	2	NM_013302	exon17	c.C2040A	p.Y680X	AGGCTACGGGCTG	.	scavenged	Atlas-SNP
PIWIL1	9271	hgsc.bcm.edu	37	12	130847589	130847589	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	130	43	139	0	0.330769	0	.	.	none	.	PIWIL1	157	.	NM_004764	exon18	c.G2095A	p.V699M	ATCATCGTGTACC	.	PASS	Atlas-SNP
SLC35F4	341880	hgsc.bcm.edu	37	14	58060834	58060834	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	74	2	81	1	0.027027	0.0123457	.	.	none	SLC35F4_ENST00000339762,NS,carcinoma,0,2	SLC35F4	105	2	NM_001206920	exon2	c.A112T	p.R38X	ATGATCTGGAGGT	.	scavenged	Atlas-SNP
TRMT13	54482	hgsc.bcm.edu	37	1	100606488	100606488	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	77	2	143	1	0.025974	0.00699301	.	.	none	CCDC76,NS,carcinoma,+2,1	.	.	1	NM_019083	exon7	c.A582G	p.G194G	AAAGGGAAAATTA	.	scavenged	Atlas-SNP
KIAA1244	57221	hgsc.bcm.edu	37	6	138531058	138531058	+	Silent	SNP	G	G	A	rs138636575		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	174	4	175	0	0.0229885	0	G|1.000;A|0.000	0.000	weak	KIAA1244,NS,carcinoma,0,1	KIAA1244	236	1	NM_020340	exon4	c.G231A	p.S77S	TCTGTCGGAAGAG	.	scavenged	Atlas-SNP
MAPK8IP1	9479	hgsc.bcm.edu	37	11	45926727	45926727	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	120	4	72	0	0.0333333	0	.	.	none	MAPK8IP1,hand,carcinoma,-1,3	MAPK8IP1	51	3	NM_005456	exon11	c.C1990T	p.P664S	AAGCACCCCGCCG	.	scavenged	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166119	41166119	+	Missense_Mutation	SNP	T	T	C	rs76984414	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	99	9	70	1	0.0909091	0.0142857	.	.	weak	TREML2,colon,carcinoma,0,2	TREML2	41	2	NM_024807	exon2	c.A104G	p.E35G	AGAGTCTCCCCTT	.	scavenged	Atlas-SNP
MED27	9442	hgsc.bcm.edu	37	9	134736013	134736013	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	121	9	141	0	0.0743802	0	.	.	none	.	MED27	37	.	NM_004269	exon8	c.G848A	p.R283H	CCGCAGCGCTGGC	.	PASS	Atlas-SNP
ABLIM1	3983	hgsc.bcm.edu	37	10	116331143	116331143	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	106	52	85	0	0.490566	0	.	.	none	.	ABLIM1	131	.	NM_002313	exon4	c.C586T	p.R196X	TGACTCGGTCTCC	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093072	1093072	+	Missense_Mutation	SNP	G	G	C	rs12575990	bycluster;byhapmap	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	69	12	39	9	0.173913	0.230769	.	.	weak	MUC2_ENST00000441003,NS,carcinoma,0,2	MUC2	614	2	NM_002457	exon30	c.G4891C	p.A1631P	CCAACAGCCATCA	.	scavenged	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179398481	179398481	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	136	2	91	0	0.0147059	0	.	.	none	TTN_ENST00000359218,NS,carcinoma,-1,4	TTN	18412	4	NM_001267550	exon358	c.T102861C	p.P34287P	TACATGAGGCTCT	.	scavenged	Atlas-SNP
WIPI1	55062	hgsc.bcm.edu	37	17	66449072	66449072	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	68	4	66	0	0.0588235	0	.	.	none	.	WIPI1	46	.	NM_017983	exon2	c.C142T	p.L48L	GATCCAGCTGCTC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509622	195509622	+	Silent	SNP	G	G	C	rs199744021	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	185	19	150	6	0.102703	0.04	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C8829G	p.T2943T	AAGAGGGGTGGTG	.	scavenged	Atlas-SNP
CYP2F1	1572	hgsc.bcm.edu	37	19	41633809	41633809	+	Missense_Mutation	SNP	G	G	A	rs139951793	bycluster;byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	197	16	225	24	0.0812183	0.106667	G|0.994;A|0.006	0.006	strong	CYP2F1,NS,lymphoid_neoplasm,0,2	CYP2F1	60	2	NM_000774	exon10	c.G1298A	p.R433H	CAGGGCGCCGTCT	.	scavenged	Atlas-SNP
TM9SF2	9375	hgsc.bcm.edu	37	13	100204538	100204538	+	Silent	SNP	G	G	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	234	25	177	0	0.106838	0	.	.	none	.	TM9SF2	52	.	NM_004800	exon13	c.G1446C	p.V482V	ATCTGTGCCTCTG	.	PASS	Atlas-SNP
NEK1	4750	hgsc.bcm.edu	37	4	170400567	170400567	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	109	92	152	0	0.844037	0	.	.	none	.	NEK1	203	.	NM_001199397	exon24	c.A2126T	p.K709I	ACTTCTTTCAAAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508418	195508418	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	171	10	151	7	0.0584795	0.0463576	.	.	none	MUC4_ENST00000463781,rectum,carcinoma,+2,1	MUC4	1505	1	NM_018406	exon2	c.G10033C	p.V3345L	CAGGCACAGGGGT	.	scavenged	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166098	41166098	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	93	6	66	0	0.0645161	0	.	.	none	TREML2,colon,carcinoma,0,1	TREML2	41	1	NM_024807	exon2	c.C125T	p.S42F	TTATAGGAGCACT	.	PASS	Atlas-SNP
USP18	11274	hgsc.bcm.edu	37	22	18650682	18650682	+	Missense_Mutation	SNP	C	C	T	rs3180408	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	254	3	225	1	0.011811	0.00444444	C|0.674;N|0.000	.	strong	USP18,NS,carcinoma,0,1	USP18	22	1	NM_017414	exon6	c.C506T	p.T169M	TGTATACGATCCG	.	scavenged	Atlas-SNP
MLL	4297	hgsc.bcm.edu	37	11	118371761	118371761	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	121	25	112	0	0.206612	0	.	.	none	.	MLL	548	.	NM_001197104	exon25	c.A6218G	p.K2073R	CATGCAAGATAGT	.	PASS	Atlas-SNP
CNNM3	26505	hgsc.bcm.edu	37	2	97483238	97483238	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	66	3	70	1	0.0454545	0.0142857	.	.	none	CNNM3,NS,carcinoma,0,1	CNNM3	33	1	NM_199078	exon1	c.A1224G	p.R408R	CAAGCGAGGTAAC	.	scavenged	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152186042	152186042	+	Missense_Mutation	SNP	A	A	G	rs12751022	bycluster;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	83	15	80	5	0.180723	0.0625	A|0.478;G|0.522	0.522	strong	HRNR,NS,carcinoma,0,1	HRNR	403	1	NM_001009931	exon3	c.T8063C	p.L2688S	TGACCCAAGCGAG	.	scavenged	Atlas-SNP
C21orf2	755	hgsc.bcm.edu	37	21	45753051	45753051	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	129	56	100	0	0.434109	0	.	.	none	.	C21orf2	10	.	NM_004928	exon4	c.C238T	p.L80F	AGAAGAGCTCAGC	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230278	23230278	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	75	65	159	0	0.866667	0	.	.	none	IGLL5,NS,lymphoid_neoplasm,0,1	IGLL5	26	1	NM_001178126	exon1	c.G45A	p.E15E	TGAGGAGCTGGGC	.	PASS	Atlas-SNP
RAD51AP1	10635	hgsc.bcm.edu	37	12	4668142	4668142	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	70	29	68	0	0.414286	0	.	.	none	.	RAD51AP1	30	.	NM_001130862	exon10	c.A1042G	p.N348D	CATCCAAATGCCA	.	PASS	Atlas-SNP
UBB	7314	hgsc.bcm.edu	37	17	16285491	16285491	+	Silent	SNP	C	C	T	rs16962973	bycluster;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	130	3	137	1	0.0230769	0.00729927	C|0.996;T|0.004	0.004	strong	UBB,bladder,carcinoma,0,2	UBB	30	2	NM_018955	exon2	c.C270T	p.T90T	CATCACCCTGGAA	.	scavenged	Atlas-SNP
FANCM	57697	hgsc.bcm.edu	37	14	45624650	45624650	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	128	40	119	0	0.3125	0	.	.	none	.	FANCM	225	.	NM_020937	exon8	c.A1384T	p.K462X	CACTTCAAGTCAT	.	PASS	Atlas-SNP
CBWD3	445571	hgsc.bcm.edu	37	9	70871857	70871857	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	484	112	399	0	0.231405	0	.	.	none	.	CBWD3	10	.	NM_201453	exon5	c.T451A	p.W151R	ATGTTTTGGGTTG	.	PASS	Atlas-SNP
IL18RAP	8807	hgsc.bcm.edu	37	2	103040530	103040530	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	244	4	183	0	0.0163934	0	.	.	none	IL18RAP,NS,carcinoma,+1,1	IL18RAP	102	1	NM_003853	exon4	c.C330T	p.T110T	ATGTACCCTTCAC	.	scavenged	Atlas-SNP
COL6A1	1291	hgsc.bcm.edu	37	21	47423737	47423737	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	88	39	95	0	0.443182	0	.	.	none	.	COL6A1	101	.	NM_001848	exon35	c.G2897A	p.G966D	GGGCAGGCATCGA	.	PASS	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	37	1	154842244	154842244	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	50	30	21	2	0.6	0.0952381	.	.	none	KCNN3,NS,carcinoma,+1,3	KCNN3	141	3	NM_001204087	exon1	c.T197A	p.L66H	TGCTGAAGCTGCG	.	scavenged	Atlas-SNP
FNDC7	163479	hgsc.bcm.edu	37	1	109270645	109270645	+	Silent	SNP	C	C	A	rs200404056	bycluster;by1000genomes;alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	166	2	140	0	0.0120482	0	C|1.000;T|0.000	.	alt	FNDC7_ENST00000370017,NS,malignant_melanoma,-1,4	FNDC7	113	4	NM_001144937	exon7	c.C1327A	p.R443R	GAAGTCCGAGGCA	.	scavenged	Atlas-SNP
ARID3B	10620	hgsc.bcm.edu	37	15	74836319	74836319	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	178	9	132	6	0.0505618	0.0454545	.	.	none	ARID3B,right_lower_lobe,carcinoma,0,1	ARID3B	35	1	NM_006465	exon2	c.A42G	p.Q14Q	GCAACAACAGAAG	.	scavenged	Atlas-SNP
RIMBP3	85376	hgsc.bcm.edu	37	22	20457413	20457413	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	271	2	233	1	0.00738007	0.00429185	.	.	none	RIMBP3,NS,carcinoma,+1,1	RIMBP3	42	1	NM_015672	exon1	c.A3889G	p.N1297D	TGTGGTTCTGGGG	.	scavenged	Atlas-SNP
LINS	55180	hgsc.bcm.edu	37	15	101110302	101110302	+	Missense_Mutation	SNP	C	C	G	rs2411837	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	6	6	2	1	1	0.5	C|0.688;G|0.310	0.310	strong	LINS,NS,carcinoma,0,1	LINS	62	1	NM_001040616	exon7	c.G1415C	p.S472T	GTCAAGCTTTCAG	.	scavenged	Atlas-SNP
ZNF648	127665	hgsc.bcm.edu	37	1	182025500	182025500	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	277	4	196	0	0.0144404	0	.	.	none	ZNF648,colon,carcinoma,-1,1	ZNF648	111	1	NM_001009992	exon2	c.G1646A	p.R549Q	CGGTGTCGTTGGA	.	scavenged	Atlas-SNP
PTH2R	5746	hgsc.bcm.edu	37	2	209345848	209345848	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	202	3	206	0	0.0148515	0	.	.	none	PTH2R,NS,carcinoma,+1,2	PTH2R	92	2	NM_005048	exon10	c.G1035A	p.W345X	AATCTGGGAGACC	.	scavenged	Atlas-SNP
PABPC1	26986	hgsc.bcm.edu	37	8	101724606	101724606	+	Missense_Mutation	SNP	G	G	A	rs202060459		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	253	4	170	0	0.0158103	0	.	.	weak	PABPC1,NS,carcinoma,0,2	PABPC1	76	2	NM_002568	exon7	c.C956T	p.T319I	GTGATTGTACCAA	.	scavenged	Atlas-SNP
TUBA3C	7278	hgsc.bcm.edu	37	13	19751463	19751463	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	309	4	331	1	0.012945	0.00302115	.	.	none	TUBA3C,NS,carcinoma,-2,1	TUBA3C	166	1	NM_006001	exon4	c.G660A	p.E220E	GGGACGCTCGATG	.	scavenged	Atlas-SNP
KRTAP4-11	653240	hgsc.bcm.edu	37	17	39274214	39274214	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	76	9	56	1	0.118421	0.0178571	.	.	none	KRTAP4-11,right_upper_lobe,carcinoma,-1,2	KRTAP4-11	94	2	NM_033059	exon1	c.C354G	p.S118R	GCAGCAGCTGGAC	.	scavenged	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129903685	129903685	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	589	7	490	0	0.0118845	0	.	.	none	MKI67,NS,carcinoma,0,1	MKI67	363	1	NM_002417	exon13	c.T6419C	p.L2140P	TGTGTGAGCTGCT	.	scavenged	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45219311	45219311	+	Missense_Mutation	SNP	T	T	C	rs140737545		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	39	3	36	1	0.0769231	0.0277778	.	.	weak	CDC27_ENST00000531206,NS,carcinoma,0,20	CDC27	337	20	NM_001114091	exon12	c.A1477G	p.I493V	TCAAAATATTTAT	.	scavenged	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	37	8	77766731	77766731	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	105	12	81	0	0.114286	0	.	.	none	.	ZFHX4	878	.	NM_024721	exon10	c.A7574T	p.H2525L	TCCTTCACTCTCC	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240790	39240790	+	Missense_Mutation	SNP	G	G	A	rs11650261	bycluster;byhapmap;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	52	2	68	3	0.0384615	0.0441176	G|0.932;A|0.068	0.068	strong	KRTAP4-9_ENST00000377734,NS,carcinoma,0,3	KRTAP4-7	49	3	NM_033061	exon1	c.G332A	p.R111H	GCTGCCGCCCCAG	.	scavenged	Atlas-SNP
KRTAP4-3	85290	hgsc.bcm.edu	37	17	39324333	39324333	+	Missense_Mutation	SNP	T	T	A	rs12953139	bycluster;byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	210	49	128	2	0.233333	0.015625	A|0.046;T|0.954	0.046	strong	KRTAP4-3,NS,carcinoma,0,1	KRTAP4-3	40	1	NM_033187	exon1	c.A92T	p.Q31L	GTGGTCTGGCAGC	.	scavenged	Atlas-SNP
KRTAP4-8	728224	hgsc.bcm.edu	37	17	39254126	39254126	+	Missense_Mutation	SNP	C	C	T	rs202107241	bycluster	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	62	2	56	4	0.0322581	0.0714286	.	.	weak	KRTAP4-8,colon,carcinoma,+2,2	KRTAP4-8	57	2	NM_031960	exon1	c.G211A	p.V71M	TGGACACACAGCA	.	scavenged	Atlas-SNP
DIAPH1	1729	hgsc.bcm.edu	37	5	140953563	140953563	+	Silent	SNP	T	T	A	rs374236039		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	35	8	16	1	0.228571	0.0625	.	.	weak	DIAPH1,NS,carcinoma,0,1	DIAPH1	64	1	NM_005219	exon16	c.A1854T	p.P618P	AGGAGGTGGAGGA	.	scavenged	Atlas-SNP
CTNND2	1501	hgsc.bcm.edu	37	5	11732341	11732341	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	58	25	45	0	0.431034	0	.	.	none	.	CTNND2	289	.	NM_001332	exon2	c.G81T	p.K27N	ACTCGTCTTCTCT	.	PASS	Atlas-SNP
MST1	4485	hgsc.bcm.edu	37	3	49723296	49723296	+	Missense_Mutation	SNP	G	G	A	rs80308386	byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	113	10	113	6	0.0884956	0.0530973	G|0.375;A|0.625	0.625	strong	MST1,trunk,malignant_melanoma,0,3	MST1	84	3	NM_020998	exon10	c.C1247T	p.P416L	CACTGCGGCTTGT	.	scavenged	Atlas-SNP
SLC27A5	10998	hgsc.bcm.edu	37	19	59010920	59010920	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	76	28	64	0	0.368421	0	.	.	none	.	SLC27A5	58	.	NM_012254	exon7	c.G1606A	p.V536I	CCAGTACGTCCCC	.	PASS	Atlas-SNP
MTMR1	8776	hgsc.bcm.edu	37	X	149896207	149896207	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	122	92	196	0	0.754098	0	.	.	none	.	MTMR1	82	.	NM_003828	exon5	c.A475C	p.K159Q	GTGGAGAAGATTG	.	PASS	Atlas-SNP
KIAA1244	57221	hgsc.bcm.edu	37	6	138583857	138583857	+	Missense_Mutation	SNP	G	G	A	rs149573553	bycluster;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	127	49	116	0	0.385827	0	G|0.999;A|0.001	0.001	strong	.	KIAA1244	236	.	NM_020340	exon12	c.G1237A	p.E413K	ATGACCGAAGCAT	.	PASS	Atlas-SNP
KRT6A	3853	hgsc.bcm.edu	37	12	52885485	52885485	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	172	3	172	1	0.0174419	0.00581395	.	.	none	KRT6A,NS,haematopoietic_neoplasm,0,1	KRT6A	89	1	NM_005554	exon2	c.A576C	p.E192D	CTTTGTTTCCAGA	.	scavenged	Atlas-SNP
TDRD6	221400	hgsc.bcm.edu	37	6	46656149	46656149	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	23	12	18	0	0.521739	0	.	.	none	.	TDRD6	205	.	NM_001168359	exon1	c.G284A	p.R95H	AGAGCCGTGTCTT	.	PASS	Atlas-SNP
MAP2K3	5606	hgsc.bcm.edu	37	17	21208440	21208440	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	124	17	101	0	0.137097	0	.	.	none	.	MAP2K3	135	.	NM_145109	exon9	c.G774A	p.M258I	CACCATGGTACTG	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124399057	124399057	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	60	2	52	1	0.0333333	0.0192308	.	.	none	DNAH10_same_name,colon,carcinoma,0,2	DNAH10	888	2	NM_207437	exon60	c.C10180T	p.R3394W	CCTTTCCGGCTGG	.	scavenged	Atlas-SNP
ADAMTS2	9509	hgsc.bcm.edu	37	5	178552090	178552090	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	103	2	146	2	0.0194175	0.0136986	.	.	none	ADAMTS2,caecum,carcinoma,0,2	ADAMTS2	190	2	NM_014244	exon19	c.G2842A	p.D948N	TGTTGTCGTGTAG	.	scavenged	Atlas-SNP
UPF3A	65110	hgsc.bcm.edu	37	13	115057219	115057219	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	103	5	67	0	0.0485437	0	.	.	none	.	UPF3A	47	.	NM_023011	exon7	c.A798G	p.K266K	AAAAAAAGAGACA	.	PASS	Atlas-SNP
KCNS3	3790	hgsc.bcm.edu	37	2	18112978	18112978	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	167	2	130	0	0.011976	0	.	.	none	KCNS3,caecum,carcinoma,-1,2	KCNS3	85	2	NM_002252	exon3	c.G703A	p.G235R	TTCACCGGGGAGC	.	scavenged	Atlas-SNP
SPTBN2	6712	hgsc.bcm.edu	37	11	66472275	66472275	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	20	2	11	0	0.1	0	.	.	none	SPTBN2,right_lower_lobe,carcinoma,0,1	SPTBN2	188	1	NM_006946	exon14	c.G2472A	p.Q824Q	CCGGCTCTGCACC	.	scavenged	Atlas-SNP
DMKN	93099	hgsc.bcm.edu	37	19	36002404	36002404	+	Missense_Mutation	SNP	C	C	T	rs138902616		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	36	17	24	13	0.472222	0.541667	.	.	weak	DMKN,NS,carcinoma,0,2	DMKN	116	2	NM_001126058	exon5	c.G827A	p.S276N	CTGCTGCTGCCAC	.	scavenged	Atlas-SNP
KRTAP4-6	81871	hgsc.bcm.edu	37	17	39296167	39296167	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	194	5	147	3	0.0257732	0.0204082	.	.	none	KRTAP4-6,bladder,carcinoma,0,9	KRTAP4-6	46	9	NM_030976	exon1	c.T573C	p.I191I	GGTGGAAATGACA	.	scavenged	Atlas-SNP
NELL1	4745	hgsc.bcm.edu	37	11	21594748	21594748	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	148	3	133	0	0.0202703	0	.	.	none	NELL1,NS,carcinoma,0,1	NELL1	179	1	NM_006157	exon19	c.C2175T	p.C725C	AGATTGCTGGCCA	.	scavenged	Atlas-SNP
AP5Z1	9907	hgsc.bcm.edu	37	7	4823361	4823361	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	83	39	101	0	0.46988	0	.	.	none	.	.	.	.	NM_014855	exon5	c.C553T	p.R185C	TGGCTGCGCTACG	.	PASS	Atlas-SNP
OR4C6	219432	hgsc.bcm.edu	37	11	55433333	55433333	+	Missense_Mutation	SNP	C	C	T	rs140747151	bycluster;byfrequency;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	172	68	109	0	0.395349	0	C|0.999;T|0.001	0.001	strong	OR4C6,middle_lobe,carcinoma,0,4	OR4C6	114	4	NM_001004704	exon1	c.C691T	p.R231W	AAAGGGCGGCACA	.	PASS	Atlas-SNP
HSPA12A	259217	hgsc.bcm.edu	37	10	118464772	118464772	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	119	45	103	0	0.378151	0	.	.	none	.	HSPA12A	81	.	NM_025015	exon3	c.C144T	p.N48N	TGAGACGTTGGAG	.	PASS	Atlas-SNP
LIMD2	80774	hgsc.bcm.edu	37	17	61776164	61776164	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	91	39	93	0	0.428571	0	.	.	none	.	LIMD2	6	.	NM_030576	exon4	c.G219A	p.K73K	CCTGAGCTTGGTG	.	PASS	Atlas-SNP
TAS1R2	80834	hgsc.bcm.edu	37	1	19175988	19175988	+	Silent	SNP	G	G	A	rs146531311	byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	125	54	113	0	0.432	0	G|1.000;A|0.000	0.000	strong	TAS1R2,NS,carcinoma,0,1	TAS1R2	134	1	NM_152232	exon4	c.C1314T	p.F438F	CGGGTCGAAGAAG	.	PASS	Atlas-SNP
UFSP2	55325	hgsc.bcm.edu	37	4	186329507	186329507	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	73	4	127	0	0.0547945	0	.	.	none	.	UFSP2	33	.	NM_018359	exon8	c.G914A	p.R305Q	AGAGATCGATAAG	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45234327	45234327	+	Missense_Mutation	SNP	C	C	T	rs7350889	bycluster;byhapmap	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	58	5	40	1	0.0862069	0.025	C|1.000;|0.000	.	weak	CDC27_ENST00000531206,NS,adenoma,0,4	CDC27	337	4	NM_001114091	exon7	c.G794A	p.G265D	CTTCGACCAGTTT	.	scavenged	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230380	23230380	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	63	50	123	0	0.793651	0	.	.	none	.	IGLL5	26	.	NM_001256296	exon1	c.C41T	p.T14I	CGGGGACCCAGAC	.	PASS	Atlas-SNP
