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	COSMIC_Codon	COSMIC_Gene	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	Trna_tot	Trna_ref	Trna_var	Trna_alt1	Trna_alt2
CSMD2	114784	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	34180229	34180229	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	CSMD2-103	NM_052896	exon21	c.G3244A	p.G1082S	GTCTGCCCCCCAG	.	106	71	302	0	.	0	0	0	0	0
FUBP1	8880	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	78444626	78444626	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	FUBP1-227	NM_003902	exon1	c.C63T	p.G21G	ACCACCGCCGCCA	.	42	27	90	1	.	0	0	0	0	0
ENSA	2029	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	150601936	150601936	+	Missense_Mutation	SNP	T	T	G	rs148754482	byfrequency;alternate_allele	TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	ENSA-90	NM_207044	exon1	c.A11C	p.K4T	TCTTGTTTCTGGG	.	76	35	108	0	T|1.000;C|0.000	122	60	61	1	0
HORMAD1	84072	broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	150689613	150689613	+	Splice_Site	SNP	C	C	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	HORMAD1-92	NM_032132	exon4	c.178+1G>A	.	GTATTACCATCTA	.	71	25	95	0	.	0	0	0	0	0
FMO2	2327	broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	171174553	171174553	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	FMO2-91	NM_001460	exon7	c.C963A	p.N321K	GGAGAACATTGAT	.	52	15	51	0	.	7	6	1	0	0
LAMB3	3914	hgsc.bcm.edu	37	1	209801450	209801450	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	LAMB3-156	NM_000228	exon11	c.G1218C	p.Q406H	CTCTCCCTGCACA	.	15	3	12	0	.	17	17	0	0	0
BMS1	9790	ucsc.edu	37	10	43315737	43315737	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	BMS1-93	NM_014753	exon16	c.G2634T	p.E878D	GTATGAGGGTTTT	.	112	6	117	0	.	128	84	44	0	0
SLC16A9	220963	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	61413807	61413807	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	SLC16A9-93	NM_194298	exon5	c.T977C	p.L326P	TCCATAAGTAATG	.	77	29	55	0	.	140	67	73	0	0
PDLIM1	9124	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	96998413	96998413	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PDLIM1-90	NM_020992	exon6	c.A715C	p.S239R	TAACACTTCTGAA	.	66	26	64	0	.	133	54	79	0	0
DNMBP	23268	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	101646325	101646325	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	DNMBP-233	NM_015221	exon13	c.C3350G	p.P1117R	TTATGGGGCCCTG	.	236	80	256	0	.	6	5	1	0	0
SLK	9748	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	105750528	105750528	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	SLK-549	NM_014720	exon2	c.A246G	p.I82M	TGACATATTAGCA	.	69	29	75	0	.	7	6	1	0	0
MUC5B	727897	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	1247945	1247945	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	.	NM_002458	exon4	c.C300G	p.N100K	TTGCAACTACGTG	.	36	7	37	0	.	0	0	0	0	0
PRKRIR	5612	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	76063689	76063689	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PRKRIR-93	NM_004705	exon5	c.C505G	p.L169V	CAAATAGAGATTT	.	29	21	54	0	.	9	2	7	0	0
MLL2	8085	broad.mit.edu	37	12	49436618	49436618	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	MLL2-612	NM_003482	exon26	c.G5688C	p.K1896N	AACATCCTTGAAG	.	61	3	97	0	.	8	8	0	0	0
MON2	23041	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	62959064	62959064	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	MON2-514	NM_015026	exon27	c.A4080G	p.I1360M	AGCTATATTTGAC	.	199	91	227	1	.	14	6	8	0	0
EP400	57634	broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	132472272	132472272	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	EP400-520	NM_015409	exon7	c.T2246A	p.I749N	AGCGCATTGCGGA	.	45	12	74	0	.	9	9	0	0	0
EP400	57634	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	132472274	132472274	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	EP400-520	NM_015409	exon7	c.G2248C	p.A750P	CGCATTGCGGAGC	.	47	14	82	2	.	9	9	0	0	0
LNX2	222484	bcgsc.ca	37	13	28136576	28136576	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	LNX2-228	NM_153371	exon5	c.C1198T	p.P400S	GCTCCGGAGTTCC	.	134	54	174	0	.	3	3	0	0	0
KBTBD7	84078	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	13	41766948	41766948	+	Silent	SNP	A	A	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	KBTBD7-91	NM_032138	exon1	c.T1446A	p.V482V	GTTCTGAACCACT	.	47	23	57	1	.	4	2	2	0	0
LECT1	11061	ucsc.edu	37	13	53313834	53313834	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	LECT1-92	NM_007015	exon1	c.G3A	p.M1I	CTCTGTCATGTTT	.	37	4	47	0	.	0	0	0	0	0
DOCK9	23348	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	13	99540613	99540613	+	Splice_Site	SNP	C	C	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	DOCK9-90	NM_015296	exon18	c.1980+1G>A	.	CACTCACCTTGGC	.	224	24	227	0	.	0	0	0	0	0
FAM71D	161142	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	67688507	67688507	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	FAM71D-23	NM_173526	exon7	c.C1172A	p.T391N	TGAGAACTGAATC	.	54	11	63	0	.	0	0	0	0	0
DPF3	8110	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	73238479	73238479	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	DPF3-1	NM_012074	exon2	c.A155C	p.N52T	TAGCAGTTGTTCT	.	90	38	158	1	.	0	0	0	0	0
PPP4R4	57718	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	14	94640864	94640864	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PPP4R4-94	NM_058237	exon1	c.T62C	p.M21T	GTTACATGGAGGA	.	49	11	88	1	.	0	0	0	0	0
OCA2	4948	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	28090200	28090200	+	Splice_Site	SNP	T	T	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	OCA2-135	NM_000275	exon24	c.2339-2A>T	.	GTTACCTAAAGTC	.	59	21	74	1	.	0	0	0	0	0
ZNF609	23060	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	64966235	64966235	+	Silent	SNP	G	G	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	ZNF609-92	NM_015042	exon4	c.G1182T	p.G394G	CAAAGGGACCAGT	.	150	55	191	0	.	11	7	4	0	0
THSD4	79875	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	72063439	72063439	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	THSD4-92	NM_024817	exon16	c.G2806C	p.E936Q	GTCCGGGAAGTGC	.	143	63	172	0	.	9	3	6	0	0
BNC1	646	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	83932666	83932666	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	BNC1-93	NM_001717	exon4	c.C1337T	p.T446M	GGGGACGTCACTG	.	71	27	92	0	.	4	3	1	0	0
ADAMTS17	170691	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	100871170	100871170	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	ADAMTS17-228	NM_139057	exon3	c.C540T	p.I180I	GCGCCTGATCAGA	.	87	47	99	0	.	0	0	0	0	0
PCSK6	5046	broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	101933522	101933522	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PCSK6-46	.	.	.	.	GCTGACGGAGATG	.	41	18	57	1	.	1	0	1	0	0
IRX6	79190	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	16	55360382	55360382	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	IRX6-174	NM_024335	exon2	c.G180A	p.A60A	CAGTGCGCGACCG	.	48	28	40	0	.	24	4	20	0	0
CDH5	1003	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	66413245	66413245	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	CDH5-525	NM_001795	exon2	c.A5C	p.Q2P	AGATGCAGAGGCT	.	268	61	231	0	.	1	1	0	0	0
PLCG2	5336	broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	81922847	81922847	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PLCG2-892	NM_002661	exon10	c.A836T	p.E279V	TGCGTGAAACTGC	.	34	10	30	0	.	3	2	1	0	0
P2RX5	5026	broad.mit.edu;bcgsc.ca	37	17	3583061	3583061	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	P2RX5-22	NM_002561	exon11	c.C1082T	p.S361F	TCCTGGGAACTGT	.	32	10	47	0	.	1	0	1	0	0
TVP23C	201158	ucsc.edu	37	17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	.	NM_145301	exon3	c.G152A	p.C51Y	AGAAGACAGACGA	.	371	32	378	24	.	24	5	19	0	0
SREBF1	6720	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	17722461	17722461	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	SREBF1-91	NM_001005291	exon6	c.A1024G	p.S342G	CCTTGCTGCCAGC	.	83	34	92	0	.	28	13	15	0	0
AKAP10	11216	bcgsc.ca	37	17	19845195	19845195	+	Silent	SNP	C	C	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	AKAP10-226	NM_007202	exon6	c.G1005C	p.V335V	GGGATCCACCTGT	.	38	4	61	0	.	15	15	0	0	0
KRTAP4-9	100132386	broad.mit.edu	37	17	39262083	39262083	+	Missense_Mutation	SNP	A	A	C	rs79447029		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	.	NM_001146041	exon1	c.A443C	p.N148T	AGCCCAACTGCTG	.	46	5	36	2	A|0.500;C|0.500	0	0	0	0	0
POLG2	11232	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	62486981	62486981	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	POLG2-227	NM_007215	exon4	c.G901C	p.E301Q	GGGTTTCTATTAA	.	81	39	86	0	.	8	6	2	0	0
RNF213	57674	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	78293016	78293016	+	Silent	SNP	C	C	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	RNF213-577	NM_001256071	exon17	c.C2928G	p.A976A	CACTGCCTACTGC	.	218	79	217	0	.	15	10	5	0	0
SIRT7	51547	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	79870325	79870325	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	SIRT7-204	NM_016538	exon10	c.C1170T	p.C390C	TTTTGTGCAGCCC	.	219	107	271	2	.	29	12	17	0	0
USP14	9097	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	18	163336	163336	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	USP14-659	NM_001037334	exon2	c.T45G	p.F15L	GAAATTTGAAGGT	.	24	17	35	0	.	4	0	4	0	0
EPS15L1	58513	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	16551694	16551694	+	Silent	SNP	A	A	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	EPS15L1-95	NM_021235	exon4	c.T192C	p.G64G	CCCTTTACCTTCT	.	503	186	541	1	.	32	9	23	0	0
ELL	8178	broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	18557590	18557590	+	Silent	SNP	G	G	A	rs200056265		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	ELL-1082	NM_006532	exon9	c.C1500T	p.P500P	GGACGTGGGAACA	.	37	16	69	0	G|0.999;A|0.000	9	4	5	0	0
ZNF708	7562	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	21493348	21493348	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	ZNF708-516	NM_021269	exon2	c.T85C	p.Y29H	TCCTATATAAATT	.	97	46	107	1	.	1	1	0	0	0
ZNF30	90075	hgsc.bcm.edu;broad.mit.edu	37	19	35434184	35434184	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	ZNF30-24	NM_001099438	exon5	c.G317A	p.C106Y	AAAACTGTCCATC	.	44	22	47	0	.	2	2	0	0	0
BCAM	4059	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	45322619	45322619	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	BCAM-91	NM_001013257	exon12	c.C1490T	p.P497L	CAATCCCCGGACG	.	46	22	84	0	.	482	214	268	0	0
ZNF28	7576	ucsc.edu	37	19	53304673	53304673	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	ZNF28-91	NM_006969	exon4	c.T425C	p.L142S	AAGCTTAATCCAA	.	339	14	369	5	.	27	18	9	0	0
MIR516B1	574490	bcgsc.ca	37	19	54240106	54240106	+	RNA	SNP	C	C	A	rs200729527		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	.	.	.	.	.	CTCAGGCTGTGAC	.	170	12	200	1	C|0.999;A|0.001	1	1	0	0	0
FCAR	2204	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	55385758	55385758	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	FCAR-92	NM_133279	exon1	c.C13T	p.Q5X	CCCAAACAGACCA	.	136	59	138	0	.	0	0	0	0	0
ASAP2	8853	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	9515020	9515020	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	ASAP2-90	NM_001135191	exon17	c.G1693C	p.A565P	CTCCAAGCTTATG	.	158	60	191	1	.	10	5	5	0	0
HEATR5B	54497	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	37235951	37235951	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	HEATR5B-142	NM_019024	exon28	c.C4325T	p.S1442L	GGTTTTGACTCTG	.	196	83	243	0	.	10	8	2	0	0
CLASP1	23332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	122122716	122122716	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	CLASP1-91	NM_015282	exon35	c.T4031G	p.F1344C	GTCTTGAAGTGCT	.	39	20	40	0	.	17	8	9	0	0
NFE2L2	4780	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	178098800	178098800	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	NFE2L2-90	NM_006164	exon2	c.A245G	p.E82G	AGAAATTCACCTG	.	99	41	118	0	.	61	38	23	0	0
TTN	7273	broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	179550284	179550284	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	TTN-636	NM_001267550	exon128	c.C32353T	p.H10785Y	TAATGTGCAGCTT	.	58	22	83	0	.	0	0	0	0	0
FN1	2335	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	216289927	216289927	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	FN1-584	NM_212476	exon7	c.T926G	p.V309G	TCTGTGACACAGT	.	224	90	267	1	.	58	34	24	0	0
GIGYF2	26058	hgsc.bcm.edu	37	2	233712220	233712220	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	GIGYF2-28	NM_001103147	exon29	c.A3686C	p.Q1229P	AGCAGCAGCTGCC	.	34	2	28	0	.	0	0	0	0	0
BMP7	655	broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	55777539	55777539	+	Missense_Mutation	SNP	G	G	A	rs112344257		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	BMP7-187	NM_001719	exon3	c.C752T	p.T251M	TCCAGCGTCTCCA	.	22	16	41	1	T|0.000;C|0.999	0	0	0	0	0
PLAC4	191585	broad.mit.edu	37	21	42551311	42551311	+	Missense_Mutation	SNP	A	A	G	rs201045863		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	.	NM_182832	exon1	c.T245C	p.I82T	GAGGGTATCCAGG	.	6	2	17	0	.	0	0	0	0	0
SCN5A	6331	hgsc.bcm.edu;bcgsc.ca	37	3	38645417	38645417	+	Missense_Mutation	SNP	G	G	A	rs199473575		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	SCN5A-98	NM_001160160	exon12	c.C1676T	p.T559I	AGTGATGTGTGGT	.	67	35	77	0	.	1	1	0	0	0
PDZRN3	23024	broad.mit.edu;bcgsc.ca	37	3	73440201	73440201	+	Missense_Mutation	SNP	C	C	T	rs200273452		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PDZRN3-232	NM_015009	exon6	c.G1321A	p.D441N	CTTCATCGTCCGT	.	386	15	417	0	.	3	3	0	0	0
ATP2C1	27032	broad.mit.edu;bcgsc.ca	37	3	130673864	130673864	+	Silent	SNP	C	C	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	ATP2C1-91	NM_001199181	exon9	c.C798T	p.V266V	TGTTGTCATTGGA	.	51	16	61	0	.	0	0	0	0	0
AFAP1	60312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	7857226	7857226	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	AFAP1-90	NM_001134647	exon4	c.A301C	p.S101R	CGGGGCTCAGCGG	.	60	26	88	0	.	2	0	2	0	0
SMARCAD1	56916	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	95191935	95191935	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	SMARCAD1-229	NM_001128429	exon11	c.A1538G	p.K513R	TACATAAACATGG	.	123	47	164	0	.	23	9	14	0	0
MYO10	4651	ucsc.edu	37	5	16701576	16701576	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	MYO10-3	NM_012334	exon25	c.C2928T	p.C976C	CTCCTCGCATGCG	.	52	5	75	0	.	27	27	0	0	0
PDZD2	23037	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	32108145	32108145	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PDZD2-563	NM_178140	exon24	c.G8424A	p.L2808L	ACCTCTGGTTGGG	.	125	54	125	0	.	2	2	0	0	0
POLK	51426	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	74872636	74872636	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	POLK-229	NM_016218	exon6	c.A572C	p.N191T	ATCCCAATTTTAT	.	54	24	79	0	.	11	5	6	0	0
ZNF608	57507	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	123983889	123983889	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	ZNF608-229	NM_020747	exon4	c.T2188A	p.S730T	GTTTAGAGAGGTT	.	47	21	40	1	.	3	2	1	0	0
MAML1	9794	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	179192887	179192887	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	MAML1-848	NM_014757	exon2	c.G876A	p.L292L	CCCCTTGGCACAG	.	146	68	164	0	.	8	7	1	0	0
PRRC2A	7916	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	31595867	31595867	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PRRC2A-156	NM_004638	exon12	c.C1616T	p.A539V	CATCAGCCCCAAC	.	136	55	159	0	.	89	52	36	0	1
C6orf226	441150	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	42858492	42858492	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	.	NM_001008739	exon1	c.C35T	p.P12L	GAGGCCGGGGCCG	.	86	30	128	1	.	29	14	15	0	0
PKHD1	5314	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	51917922	51917922	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PKHD1-603	NM_170724	exon21	c.G2092A	p.G698S	ACAGGCCCGTCTC	.	62	25	85	0	.	14	11	3	0	0
CLIP2	7461	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	73752800	73752800	+	Silent	SNP	A	A	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	CLIP2-93	NM_032421	exon3	c.A144T	p.S48S	ACAGTCATCTGGA	.	29	18	19	0	.	37	8	29	0	0
CHCHD3	54927	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	132754922	132754922	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	CHCHD3-90	NM_017812	exon2	c.C149T	p.S50F	GCACCAGAATACC	.	82	17	71	0	.	99	62	37	0	0
EXOC4	60412	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	133692515	133692515	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	EXOC4-159	NM_021807	exon17	c.A2614G	p.R872G	ATGTGTAGGAACA	.	83	36	63	0	.	62	50	12	0	0
KIAA1549	57670	broad.mit.edu;ucsc.edu	37	7	138595898	138595898	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	KIAA1549-369	NM_020910	exon4	c.C3139A	p.Q1047K	CTGTTTGAACTTG	.	28	9	14	0	.	0	0	0	0	0
MGAM	8972	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	141750617	141750617	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	MGAM-70	NM_004668	exon24	c.G2758T	p.V920F	AATGGTGTCCCAA	.	196	41	147	0	.	0	0	0	0	0
OR2F1	26211	bcgsc.ca	37	7	143657509	143657509	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	OR2F1-71	NM_012369	exon1	c.G446T	p.W149L	CATCCTGGGTCAG	.	145	91	108	4	.	0	0	0	0	0
PTPRN2	5799	broad.mit.edu	37	7	157414139	157414139	+	Silent	SNP	G	G	A	rs77143062		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PTPRN2-295	NM_002847	exon15	c.C2259T	p.C753C	GTAGGCGCACAGC	.	395	15	287	0	G|0.999;A|0.000	0	0	0	0	0
LZTS1	11178	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	8	20107305	20107305	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	LZTS1-91	NM_021020	exon3	c.C1719T	p.A573A	CTCCCCGGCGCTG	.	124	56	132	0	.	1	1	0	0	0
PKHD1L1	93035	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	8	110451259	110451259	+	Silent	SNP	G	G	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PKHD1L1-145	NM_177531	exon32	c.G3894A	p.K1298K	GCCCAAGTTGTCT	.	212	81	249	0	.	0	0	0	0	0
RGS3	5998	broad.mit.edu;ucsc.edu;bcgsc.ca	37	9	116269730	116269730	+	Missense_Mutation	SNP	C	C	T	rs200633658	alternate_allele	TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	RGS3-227	NM_144488	exon14	c.C1249T	p.R417W	CAGGCACGGCCTG	.	47	18	56	1	C|0.999;A|0.001	16	7	9	0	0
NYX	60506	hgsc.bcm.edu	37	X	41333524	41333524	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	NYX-108	NM_022567	exon2	c.G818C	p.W273S	GCGCCTGGTTCGC	.	27	2	20	0	.	0	0	0	0	0
LNX2	222484	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	13	28136573	28136575	+	In_Frame_Del	DEL	CCG	CCG	-	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	CCG	CCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	LNX2-228	NM_153371	exon5	c.1199_1201del	p.400_401del	.	.	143	58	175	0	.	0	0	0	0	0
LNX2	222484	hgsc.bcm.edu	37	13	28136573	28136576	+	Frame_Shift_Del	DEL	CCGG	CCGG	-	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	CCGG	CCGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	LNX2-228	NM_153371	exon5	c.1198_1201del	p.400_401del	.	.	154	30	181	0	.	0	0	0	0	0
C15orf43	145645	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	15	45270783	45270783	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	C15orf43-90	NM_152448	exon7	c.620delA	p.E207fs	.	.	44	18	52	0	.	0	0	0	0	0
NF1	4763	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	29490388	29490388	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	NF1-3353	NM_001128147	exon4	c.473delC	p.S158fs	.	.	104	56	110	0	.	0	0	0	0	0
NF1	4763	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	29552188	29552189	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	NF1-3353	NM_000267	exon17	c.1921_1922del	p.641_641del	.	.	177	70	171	0	.	0	0	0	0	0
C19orf45	374877	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	19	7570473	7570475	+	In_Frame_Del	DEL	CGG	CGG	-	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	CGG	CGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	C19orf45-90	NM_198534	exon6	c.966_968del	p.322_323del	.	.	71	25	97	0	.	0	0	0	0	0
PARD6B	84612	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	20	49366983	49366991	+	In_Frame_Del	DEL	TCAAAAACT	TCAAAAACT	-	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	TCAAAAACT	TCAAAAACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PARD6B-91	NM_032521	exon3	c.1077_1085del	p.359_362del	.	.	74	22	66	0	.	0	0	0	0	0
PLAC4	191585	broad.mit.edu	37	21	42551313	42551313	+	Nonsense_Mutation	DEL	C	C	-	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	.	NM_182832	exon1	c.243delG	p.W81X	GGGTATCCAGGGT	.	6	2	17	0	.	0	0	0	0	0
UFSP1	402682	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	100486530	100486530	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	UFSP1-22	NM_001015072	exon1	c.363delC	p.P121fs	.	.	197	106	153	0	.	0	0	0	0	0
PPP2R2A	5520	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	8	26227846	26227849	+	Frame_Shift_Del	DEL	CACA	CACA	-	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	CACA	CACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PPP2R2A-659	NM_001177591	exon10	c.1291_1294del	p.431_432del	.	.	47	12	54	0	.	0	0	0	0	0
KAT6A	7994	broad.mit.edu	37	8	41798420	41798422	+	In_Frame_Del	DEL	CTC	CTC	-	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	.	NM_001099412	exon16	c.2977_2979del	p.993_993del	TTCCGGCTCCTCC	.	185	7	175	0	.	0	0	0	0	0
PORCN	64840	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	X	48371012	48371012	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	PORCN-133	NM_203475	exon5	c.591delG	p.L197fs	.	.	11	11	15	0	.	0	0	0	0	0
ITPKA	3706	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	15	41794669	41794670	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	ITPKA-226	NM_002220	exon5	c.1078_1079insA	p.E360fs	.	.	80	29	67	0	.	0	0	0	0	0
SLC10A4	201780	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	4	48490947	48490948	+	Frame_Shift_Ins	INS	-	-	TC	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	SLC10A4-90	NM_152679	exon3	c.1305_1306insTC	p.T435fs	.	.	67	16	63	0	.	0	0	0	0	0
EPS15L1	58513	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	16503123	16503124	+	Missense_Mutation	DNP	GT	GT	AA	novel		TCGA-BQ-7044-01A-11D-1961-08	TCGA-BQ-7044-11A-01D-1961-08	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f0589e51-4685-4613-8004-44efad45180f	12341a8c-b9d0-445d-b2fd-ed077738ba31	.	EPS15L1		exon19	c.A2094T	p.LP698FS	CGAAGGTAAGGAA	.	79.0	43.0	84.0	0.0	.	0	0	0	0	0
