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
AGMAT	79814	hgsc.bcm.edu	37	1	15911349	15911349	+	Silent	SNP	G	G	A	rs3737705	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	AGMAT-91	NM_024758	exon1	c.C114T	p.D38D	GGGCGCGTCGGAA	.	8	4	0	0	G|0.647;A|0.353	0	0	0	0	0
RPS6KA1	6195	hgsc.bcm.edu	37	1	26856462	26856462	+	Silent	SNP	T	T	G	rs11800553	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	RPS6KA1-510	NM_002953	exon1	c.T51G	p.P17P	AGTGCCTCTGGAC	.	4	4	0	0	T|0.065;G|0.935	0	0	0	0	0
L1TD1	54596	hgsc.bcm.edu	37	1	62675664	62675664	+	Silent	SNP	G	G	A	rs200931139		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	L1TD1-92	NM_001164835	exon5	c.G1218A	p.E406E	GGAGGAGGAGGAA	.	166	22	192	0	.	0	0	0	0	0
L1TD1	54596	ucsc.edu	37	1	62675673	62675673	+	Missense_Mutation	SNP	G	G	T	rs200789118		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	L1TD1-92	NM_001164835	exon5	c.G1227T	p.E409D	GGAAGAGCCCTCA	.	156	36	202	1	.	0	0	0	0	0
ATP1A2	477	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	160105320	160105320	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ATP1A2-518	NM_000702	exon16	c.G2212A	p.V738I	TCTGACGTCTCTA	.	418	60	315	0	.	0	0	0	0	0
TOR3A	64222	hgsc.bcm.edu	37	1	179051300	179051300	+	Missense_Mutation	SNP	T	T	C	rs2296377	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	TOR3A-90	NM_022371	exon1	c.T37C	p.F13L	CTCTTTTTCCTGC	.	5	5	0	0	T|0.229;C|0.771	0	0	0	0	0
C1orf106	55765	hgsc.bcm.edu	37	1	200880978	200880978	+	Missense_Mutation	SNP	C	C	T	rs296520	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	C1orf106-93	NM_018265	exon9	c.C1654T	p.R552C	GAGCTGCGCCGCG	.	26	26	0	0	C|0.242;T|0.758	0	0	0	0	0
C1orf198	84886	broad.mit.edu	37	1	231004230	231004230	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	C1orf198-90	NM_032800	exon1	c.C29A	p.A10D	CGCGAAGCCGCGA	.	91	6	16	0	.	0	0	0	0	0
SH3BP5L	80851	hgsc.bcm.edu	37	1	249106348	249106348	+	Silent	SNP	G	G	C	rs202116012		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SH3BP5L-90	NM_030645	exon7	c.C933G	p.A311A	ACCCTCGGCCCCC	.	45	13	1	0	G|0.991;C|0.008	0	0	0	0	0
PTCHD3	374308	hgsc.bcm.edu;broad.mit.edu	37	10	27702894	27702923	+	In_Frame_Del	DEL	GGGGTGCATCGTCCAGCTCCAGCGGCAGGC	GGGGTGCATCGTCCAGCTCCAGCGGCAGGC	-	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	GGGGTGCATCGTCCAGCTCCAGCGGCAGGC	GGGGTGCATCGTCCAGCTCCAGCGGCAGGC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	PTCHD3-94	NM_001034842	exon1	c.257_286del	p.86_96del	CCGGCAGGGGTGC	.	65	13	6	0	.	0	0	0	0	0
NFKB2	4791	hgsc.bcm.edu	37	10	104159196	104159196	+	Silent	SNP	A	A	G	rs4919633	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	NFKB2-522	NM_001077494	exon13	c.A1269G	p.P423P	GGAGCCAAGCGCC	.	7	7	0	0	A|0.009;G|0.991	0	0	0	0	0
GPR26	2849	hgsc.bcm.edu	37	10	125426253	125426253	+	Silent	SNP	C	C	T	rs62640898	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	GPR26-91	NM_153442	exon1	c.C330T	p.F110F	GGTCTTCCCGCTG	.	19	10	0	0	C|0.997;T|0.003	0	0	0	0	0
PTDSS2	81490	broad.mit.edu	37	11	489952	489952	+	Silent	SNP	C	C	T	rs150531471	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	PTDSS2-90	NM_030783	exon11	c.C1185T	p.I395I	GCTCATCGTGGTG	.	82	4	42	0	C|0.999;T|0.001	0	0	0	0	0
NAP1L4	4676	broad.mit.edu	37	11	2979678	2979678	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	NAP1L4-91	NM_005969	exon10	c.G843A	p.T281T	TTGTTTCGTAATT	.	244	7	226	2	.	0	0	0	0	0
IGSF22	283284	broad.mit.edu	37	11	18728650	18728650	+	Missense_Mutation	SNP	T	T	C	rs2289965	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	IGSF22-140	NM_173588	exon21	c.A3391G	p.I1131V	TGATGATGTAGTG	.	93	4	70	1	T|0.800;C|0.200	0	0	0	0	0
KRTAP5-10	387273	hgsc.bcm.edu	37	11	71276876	71276876	+	Silent	SNP	A	A	G	rs12788123		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	KRTAP5-10-91	NM_001012710	exon1	c.A243G	p.K81K	CTCCAAAGGGGGC	.	40	7	25	0	A|0.998;G|0.002	0	0	0	0	0
IQSEC3	440073	bcgsc.ca	37	12	274647	274647	+	Silent	SNP	T	T	C	rs4980859	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	IQSEC3-560	NM_001170738	exon10	c.T2757C	p.F919F	CACCTTTTGCAAG	.	178	7	219	2	T|0.740;C|0.260	0	0	0	0	0
ZNF705A	440077	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	8329841	8329841	+	Missense_Mutation	SNP	C	C	T	rs145286690	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ZNF705A-90	NM_001004328	exon5	c.C565T	p.R189W	CTTAGACGGCACA	.	221	81	157	0	C|1.000;T|0.000	0	0	0	0	0
KLRC2	3822	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	10584764	10584764	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	KLRC2-514	NM_002260	exon5	c.G525A	p.V175V	ACGAAACACACCA	.	138	15	169	0	.	0	0	0	0	0
PIP4K2C	79837	bcgsc.ca	37	12	57985204	57985204	+	Silent	SNP	C	C	T	rs11537654	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	PIP4K2C-689	NM_001146258	exon1	c.C132T	p.A44A	GGCGGCCGACCCG	.	338	11	233	1	C|0.763;T|0.237	0	0	0	0	0
AMDHD1	144193	hgsc.bcm.edu	37	12	96337225	96337225	+	Silent	SNP	C	C	T	rs1436121	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	AMDHD1-90	NM_152435	exon1	c.C49T	p.L17L	GTGGTGCTGGTGT	.	9	8	0	0	C|0.752;T|0.248	0	0	0	0	0
SETD1B	23067	broad.mit.edu	37	12	122243905	122243905	+	Silent	SNP	C	C	T	rs1168666	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SETD1B-86	NM_015048	exon3	c.C438T	p.I146I	GGGCATCGCCAAG	.	315	7	263	1	C|0.273;T|0.727	0	0	0	0	0
SETD1B	23067	broad.mit.edu	37	12	122248078	122248078	+	Silent	SNP	A	A	C	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SETD1B-86	NM_015048	exon5	c.A1227C	p.P409P	CCCTCCACCCCCG	.	86	17	54	6	.	0	0	0	0	0
FBRSL1	57666	hgsc.bcm.edu	37	12	133159733	133159733	+	Missense_Mutation	SNP	C	C	T	rs11550079		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	FBRSL1-70	NM_001142641	exon17	c.C2507T	p.A836V	AGGAGGCCGCCAA	.	11	11	0	0	C|0.470;T|0.530	0	0	0	0	0
SPERT	220082	hgsc.bcm.edu	37	13	46288017	46288017	+	Nonsense_Mutation	SNP	C	C	A	rs79707842		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SPERT-91	NM_152719	exon3	c.C857A	p.S286X	CCCCCTCACCCCA	.	18	6	0	0	C|0.925;A|0.075	0	0	0	0	0
ING1	3621	hgsc.bcm.edu	37	13	111368316	111368316	+	Silent	SNP	C	C	T	rs9555726	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ING1-515	NM_005537	exon1	c.C526T	p.L176L	GCATCTCTGCTGA	.	7	7	0	0	C|0.372;T|0.628	0	0	0	0	0
FRMD6	122786	bcgsc.ca	37	14	52186966	52186966	+	Silent	SNP	G	G	A	rs2277495	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	FRMD6-524	NM_001267046	exon11	c.G1218A	p.T406T	GGACACGGGGCCA	.	198	8	132	1	T|0.062;G|0.558;C|0.194;A|0.186	0	0	0	0	0
EXOC3L4	91828	hgsc.bcm.edu	37	14	103568729	103568729	+	Silent	SNP	A	A	G	rs10142200	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	EXOC3L4-23	NM_001077594	exon2	c.A669G	p.E223E	GGAGGAAGCCCAC	.	6	6	0	0	A|0.486;G|0.514	0	0	0	0	0
ARHGAP11A	9824	broad.mit.edu;bcgsc.ca	37	15	32921898	32921898	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ARHGAP11A-292	NM_199357	exon8	c.A1040G	p.K347R	CCATCAAGCACAA	.	170	27	160	1	.	0	0	0	0	0
LTK	4058	hgsc.bcm.edu	37	15	41803754	41803754	+	Missense_Mutation	SNP	G	G	A	rs55739813	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	LTK-1377	NM_001135685	exon6	c.C680T	p.P227L	AGCAACGGTTCCA	.	14	7	0	0	G|0.962;A|0.038	0	0	0	0	0
LACTB	114294	hgsc.bcm.edu	37	15	63414083	63414083	+	Missense_Mutation	SNP	A	A	C	rs34317102	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	LACTB-90	NM_171846	exon1	c.A13C	p.M5L	CGGCTCATGTCAG	.	7	6	0	0	A|0.226;C|0.774	0	0	0	0	0
SMAD6	4091	hgsc.bcm.edu	37	15	66995915	66995915	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SMAD6-415	NM_005585	exon1	c.G319T	p.V107L	CTGGACGTGGCGG	.	27	4	0	0	.	0	0	0	0	0
SKOR1	390598	hgsc.bcm.edu	37	15	68120014	68120014	+	Silent	SNP	C	C	T	rs62015251		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SKOR1-90	NM_001258024	exon7	c.C1668T	p.Y556Y	GGCGTACGGCGCG	.	16	13	2	0	C|0.908;T|0.092	0	0	0	0	0
MYO9A	4649	bcgsc.ca	37	15	72193564	72193564	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	MYO9A-93	NM_006901	exon23	c.C3118A	p.L1040I	GATGGAGGAAATG	.	119	5	113	0	.	0	0	0	0	0
ZNF710	374655	broad.mit.edu	37	15	90611149	90611149	+	Silent	SNP	T	T	G	rs201433675		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ZNF710-90	NM_198526	exon2	c.T780G	p.G260G	GGCGGGTTCGACC	.	149	44	108	35	.	0	0	0	0	0
FAM173A	65990	hgsc.bcm.edu	37	16	771286	771286	+	Silent	SNP	C	C	T	rs11540049	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	FAM173A-91	NM_001271285	exon1	c.C12T	p.D4D	GCAGGACGACCCG	.	4	4	0	0	C|0.504;T|0.496	0	0	0	0	0
HAGHL	84264	hgsc.bcm.edu	37	16	779402	779402	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	HAGHL-90	NM_032304	exon8	c.G795A	p.A265A	ACAGGCGCGGGCC	.	28	5	0	0	.	0	0	0	0	0
MRPS34	65993	hgsc.bcm.edu	37	16	1822947	1822947	+	Silent	SNP	C	C	G	rs1076695		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	MRPS34-92	NM_023936	exon1	c.G174C	p.V58V	GCGGCGCACGTCG	.	5	4	0	0	C|0.923;G|0.077	0	0	0	0	0
ZNF598	90850	hgsc.bcm.edu	37	16	2059674	2059674	+	Missense_Mutation	SNP	T	T	C	rs71384660		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ZNF598-432	NM_178167	exon2	c.A74G	p.E25G	CCGCCTTCCCGCT	.	6	6	0	0	T|0.007;C|0.993	0	0	0	0	0
SRRM2	23524	bcgsc.ca	37	16	2812939	2812939	+	Missense_Mutation	SNP	C	C	A	rs2240140	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SRRM2-93	NM_016333	exon11	c.C2410A	p.P804T	TCCCAACCTAAAG	.	65	5	61	0	C|0.569;A|0.431	0	0	0	0	0
USP31	57478	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	16	23079691	23079691	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	USP31-663	NM_020718	exon16	c.C3735A	p.G1245G	TGTCTTGCCAAGA	.	75	6	53	0	.	0	0	0	0	0
ZFPM1	161882	hgsc.bcm.edu	37	16	88599696	88599697	+	Frame_Shift_Del	DEL	GA	GA	-	rs67549438	alternate_allele	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	GA	GA	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ZFPM1-90	NM_153813	exon10	c.1330_1331del	p.444_444del	AGAGCGGAGCCTC	.	14	10	0	0	.	0	0	0	0	0
ZFPM1	161882	hgsc.bcm.edu	37	16	88599697	88599705	+	In_Frame_Del	DEL	AGCCTCTGG	AGCCTCTGG	-	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	AGCCTCTGG	AGCCTCTGG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ZFPM1-90	NM_153813	exon10	c.1331_1339del	p.444_447del	GAGCGGAGCCTCT	.	12	0	0	0	.	0	0	0	0	0
RPL13	6137	hgsc.bcm.edu	37	16	89627671	89627671	+	Silent	SNP	C	C	T	rs174035	bycluster;byfrequency;by1000genomes	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	RPL13-90	NM_001243131	exon3	c.C141T	p.A47A	CATCGCCCCGCGC	.	17	17	0	0	C|0.846;T|0.154	0	0	0	0	0
GLTPD2	388323	hgsc.bcm.edu	37	17	4693342	4693342	+	Missense_Mutation	SNP	C	C	A	rs35910358		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	GLTPD2-68	NM_001014985	exon4	c.C627A	p.D209E	CCCGGACGCGGGC	.	8	8	0	0	C|0.015;A|0.985	0	0	0	0	0
NLGN2	57555	hgsc.bcm.edu	37	17	7320874	7320874	+	Missense_Mutation	SNP	C	C	T	rs62061174		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	NLGN2-90	NM_020795	exon7	c.C2264T	p.A755V	TCGGGGCGGACCC	.	10	8	0	0	C|0.986;T|0.014	0	0	0	0	0
SARM1	23098	hgsc.bcm.edu	37	17	26699121	26699121	+	Missense_Mutation	SNP	G	G	C	rs7212814		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	.	NM_015077	exon1	c.G68C	p.R23P	CACGGCGGGGCGC	.	8	8	0	0	G|0.001;C|0.999	0	0	0	0	0
OMG	4974	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	29622398	29622398	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	OMG-493	NM_002544	exon2	c.C952G	p.L318V	TGCTTAGAGTGGC	.	235	32	159	0	.	0	0	0	0	0
KRTAP9-1	728318	hgsc.bcm.edu	37	17	39346595	39346595	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	.	NM_001190460	exon1	c.T457A	p.C153S	CCCACCTGCTGTG	.	176	3	111	0	.	0	0	0	0	0
RNF43	54894	ucsc.edu;bcgsc.ca	37	17	56492800	56492800	+	Missense_Mutation	SNP	T	T	C	rs3744093	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	RNF43-92	NM_017763	exon2	c.A139G	p.I47V	TGATAATAGCTTT	.	53	6	48	0	T|0.651;C|0.349	0	0	0	0	0
TMEM200C	645369	hgsc.bcm.edu	37	18	5890571	5890571	+	Missense_Mutation	SNP	T	T	C	rs7506026		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	.	NM_001080209	exon1	c.A1492G	p.S498G	GAGGGCTGGAGTC	.	19	10	2	0	T|0.941;C|0.059	0	0	0	0	0
CBLN2	147381	hgsc.bcm.edu	37	18	70209321	70209321	+	Silent	SNP	C	C	A	rs7237888		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	CBLN2-90	NM_182511	exon3	c.G75T	p.P25P	GCCGCCCGGCTCG	.	6	6	0	0	C|0.390;A|0.610	0	0	0	0	0
ZNF516	9658	hgsc.bcm.edu	37	18	74153712	74153712	+	Silent	SNP	G	G	A	rs113225589		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ZNF516-69	NM_014643	exon3	c.C1299T	p.Y433Y	CTTGAGGTACTCG	.	22	15	0	0	G|0.981;A|0.019	0	0	0	0	0
ARID3A	1820	hgsc.bcm.edu	37	19	929678	929678	+	Silent	SNP	G	G	A	rs3826948		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ARID3A-90	NM_005224	exon2	c.G150A	p.E50E	GCCCGAGAGTGCC	.	4	4	0	0	T|0.495;C|0.504	0	0	0	0	0
ARID3A	1820	hgsc.bcm.edu	37	19	929753	929753	+	Silent	SNP	A	A	G	rs1799595		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ARID3A-90	NM_005224	exon2	c.A225G	p.P75P	ACACCCAGCCAGC	.	9	9	0	0	A|0.114;G|0.886	0	0	0	0	0
NCLN	56926	hgsc.bcm.edu	37	19	3204732	3204732	+	Silent	SNP	C	C	T	rs61745459	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	NCLN-90	NM_020170	exon9	c.C1191T	p.S397S	GCGCAGCAGCATC	.	121	66	1	0	C|0.998;T|0.002	0	0	0	0	0
TNFSF9	8744	hgsc.bcm.edu	37	19	6531171	6531171	+	Missense_Mutation	SNP	G	G	A	rs2234174		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	TNFSF9-227	NM_003811	exon1	c.G124A	p.A42T	CTGCTCGCTGCCG	.	5	4	0	0	G|0.991;A|0.009	0	0	0	0	0
MUC16	94025	bcgsc.ca	37	19	9065632	9065632	+	Missense_Mutation	SNP	T	T	C	rs1867691	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	MUC16-566	NM_024690	exon3	c.A21814G	p.I7272V	CACCAATGGACAC	.	141	5	128	0	T|0.778;C|0.222	0	0	0	0	0
PGLS	25796	hgsc.bcm.edu	37	19	17622614	17622614	+	Silent	SNP	C	C	T	rs11086075	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	PGLS-90	NM_012088	exon1	c.C133T	p.L45L	CTCGGCCTGTCGG	.	4	4	1	0	C|0.617;T|0.383	0	0	0	0	0
CRTC1	23373	broad.mit.edu	37	19	18794517	18794517	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	CRTC1-1361	NM_015321	exon1	c.C5A	p.A2E	AGATGGCGACTTC	.	235	11	108	2	.	0	0	0	0	0
CILP2	148113	hgsc.bcm.edu	37	19	19651140	19651140	+	Silent	SNP	A	A	G	rs4808970	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	CILP2-91	NM_153221	exon3	c.A291G	p.E97E	GCTGGAAGCGCGC	.	18	7	0	0	A|0.873;G|0.127	0	0	0	0	0
SIPA1L3	23094	hgsc.bcm.edu	37	19	38684261	38684261	+	Missense_Mutation	SNP	G	G	C	rs61735490		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SIPA1L3-91	NM_015073	exon18	c.G4681C	p.A1561P	AGCCCCGCTGGCC	.	27	15	2	0	G|0.971;C|0.029	0	0	0	0	0
DYRK1B	9149	hgsc.bcm.edu	37	19	40317436	40317436	+	Silent	SNP	G	G	A	rs201098298		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	DYRK1B-337	NM_004714	exon9	c.C1287T	p.G429G	GAAGAAGCCGTGC	.	29	14	0	0	G|0.999;A|0.000	0	0	0	0	0
VN1R4	317703	bcgsc.ca	37	19	53770764	53770764	+	Missense_Mutation	SNP	G	G	A	rs74429916		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	VN1R4-92	NM_173857	exon1	c.C155T	p.A52V	AAGTTGGCTACAA	.	236	8	219	0	.	0	0	0	0	0
ZNF845	91664	broad.mit.edu	37	19	53854397	53854397	+	Missense_Mutation	SNP	G	G	C	rs10415799	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	.	NM_138374	exon4	c.G469C	p.E157Q	CAGACCGAAGGGA	.	205	4	219	1	G|0.643;C|0.357	0	0	0	0	0
TMEM247	388946	bcgsc.ca	37	2	46707808	46707808	+	Missense_Mutation	SNP	C	C	G	rs74318890		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	.	NM_001145051	exon2	c.C382G	p.Q128E	CAGCGGCAGCGGC	.	311	30	107	1	G|1.000;|0.000	0	0	0	0	0
C2orf81	388963	broad.mit.edu	37	2	74642280	74642280	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	.	NM_001145054	exon4	c.A943C	p.T315P	GGCGGGTGGCGCC	.	122	43	37	4	.	0	0	0	0	0
RPIA	22934	hgsc.bcm.edu	37	2	88991242	88991242	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	RPIA-91	NM_144563	exon1	c.C26G	p.T9S	TCAGCACCCTCTA	.	22	13	0	0	.	0	0	0	0	0
SOWAHC	65124	hgsc.bcm.edu	37	2	110372192	110372192	+	Silent	SNP	A	A	G	rs6594048		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	.	NM_023016	exon1	c.A126G	p.L42L	CGCCCTAGGCGGC	.	4	4	0	0	A|0.029;G|0.971	0	0	0	0	0
TNS1	7145	bcgsc.ca	37	2	218669225	218669225	+	Missense_Mutation	SNP	T	T	C	rs61741262	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	TNS1-156	NM_022648	exon33	c.A5165G	p.N1722S	ACGAAGTTGACGA	.	361	8	250	0	T|0.921;C|0.079	0	0	0	0	0
SPEG	10290	hgsc.bcm.edu	37	2	220348518	220348518	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SPEG-383	NM_005876	exon30	c.G6333A	p.E2111E	CAGCGAGGCAGCG	.	9	6	0	0	.	0	0	0	0	0
ECEL1	9427	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	233347170	233347170	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ECEL1-90	NM_004826	exon12	c.C1754T	p.A585V	ATGCCCGCGGGGA	.	164	20	129	0	.	0	0	0	0	0
SLC23A2	9962	broad.mit.edu;bcgsc.ca	37	20	4893560	4893560	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SLC23A2-92	NM_203327	exon4	c.C173T	p.A58V	TAGATCGCCATGA	.	147	7	106	0	.	0	0	0	0	0
ACTR5	79913	hgsc.bcm.edu	37	20	37377139	37377139	+	Silent	SNP	C	C	T	rs2254105	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ACTR5-90	NM_024855	exon1	c.C18T	p.F6F	CGTGTTCCCGTTC	.	9	7	0	0	C|0.769;T|0.231	0	0	0	0	0
CLIC6	54102	hgsc.bcm.edu	37	21	36042579	36042579	+	Missense_Mutation	SNP	C	C	G	rs13049028	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	CLIC6-91	NM_053277	exon1	c.C892G	p.Q298E	CCGCAGCAATCGG	.	25	15	2	0	C|0.802;G|0.198	0	0	0	0	0
CLIC6	54102	hgsc.bcm.edu	37	21	36042584	36042584	+	Silent	SNP	G	G	A	rs13049239	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	CLIC6-91	NM_053277	exon1	c.G897A	p.S299S	GCAATCGGGGGAC	.	27	16	2	0	G|0.803;A|0.197	0	0	0	0	0
CHEK2	11200	broad.mit.edu	37	22	29091841	29091841	+	Silent	SNP	G	G	A	rs79357544		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	CHEK2-1515	NM_001005735	exon12	c.C1245T	p.S415S	AATCTTGGAGTGC	.	136	13	174	2	.	0	0	0	0	0
TRIOBP	11078	hgsc.bcm.edu	37	22	38122462	38122462	+	Missense_Mutation	SNP	A	A	G	rs739138	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	TRIOBP-136	NM_001039141	exon7	c.A3899G	p.H1300R	GCACCCACAGCCC	.	10	10	0	0	A|0.354;G|0.646	0	0	0	0	0
TMEM42	131616	hgsc.bcm.edu	37	3	44903434	44903434	+	Silent	SNP	G	G	C	rs2292181	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	TMEM42-90	NM_144638	exon1	c.G18C	p.G6G	GCCGGGGCCTCCG	.	13	10	0	0	G|0.938;C|0.062	0	0	0	0	0
SACM1L	22908	hgsc.bcm.edu;bcgsc.ca	37	3	45751105	45751105	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SACM1L-91	NM_014016	exon5	c.G449T	p.S150I	ACACTAGTCCTGA	.	71	4	129	0	.	0	0	0	0	0
SEMA5B	54437	hgsc.bcm.edu	37	3	122631896	122631896	+	Missense_Mutation	SNP	A	A	T	rs2276782	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SEMA5B-157	NM_001256347	exon18	c.T2681A	p.V894D	AGGAGGACCTCCA	.	9	9	0	0	T|0.412;A|0.588	0	0	0	0	0
VWA5B2	90113	broad.mit.edu;bcgsc.ca	37	3	183951431	183951431	+	Missense_Mutation	SNP	C	C	T	rs902417	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	.	NM_138345	exon4	c.C598T	p.P200S	GCTGCCCCTCGGG	.	231	10	116	1	C|0.788;T|0.212	0	0	0	0	0
MUC4	4585	hgsc.bcm.edu;mdanderson.org	37	3	195508187	195508187	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	MUC4-90	NM_018406	exon2	c.G10264A	p.A3422T	GGGTGGCGTGACC	.	46	8	36	0	.	0	0	0	0	0
IDUA	3425	broad.mit.edu	37	4	996204	996204	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	IDUA-91	NM_000203	exon8	c.A1120C	p.T374P	AACAACACCCGCC	.	213	89	38	5	.	0	0	0	0	0
TNIP2	79155	hgsc.bcm.edu	37	4	2757800	2757800	+	Missense_Mutation	SNP	G	G	C	rs74548850	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	TNIP2-90	NM_024309	exon1	c.C217G	p.R73G	GGAAGCGCGCAAC	.	6	4	0	0	G|0.957;C|0.043	0	0	0	0	0
WDR1	9948	bcgsc.ca	37	4	10099340	10099340	+	Missense_Mutation	SNP	T	T	C	rs13441	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	WDR1-48	NM_017491	exon5	c.A553G	p.I185V	CGCCAATTGTGAA	.	136	5	127	1	T|0.401;C|0.599	0	0	0	0	0
FAM184B	27146	hgsc.bcm.edu	37	4	17643848	17643848	+	Missense_Mutation	SNP	G	G	A	rs2286771	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	FAM184B-23	NM_015688	exon13	c.C2350T	p.R784W	CGCCCCGCTCCTG	.	10	7	0	0	G|0.440;A|0.560	0	0	0	0	0
SLIT2	9353	broad.mit.edu	37	4	20525746	20525746	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SLIT2-521	NM_004787	exon14	c.C1384T	p.R462C	CCCCGCCGCCTGG	.	89	4	78	0	.	0	0	0	0	0
SOD3	6649	hgsc.bcm.edu	37	4	24801354	24801354	+	Silent	SNP	C	C	T	rs8192291	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SOD3-90	NM_003102	exon2	c.C211T	p.L71L	GCCACGCTGGACG	.	19	8	1	0	C|0.777;T|0.223	0	0	0	0	0
SHROOM3	57619	hgsc.bcm.edu	37	4	77662309	77662309	+	Silent	SNP	C	C	T	rs344143	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SHROOM3-93	NM_020859	exon5	c.C2983T	p.L995L	GGCGACCTGGCCA	.	34	32	0	0	C|0.604;T|0.396	0	0	0	0	0
DSPP	1834	bcgsc.ca	37	4	88537027	88537027	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	DSPP-90	NM_014208	exon5	c.C3213T	p.D1071D	CAGTGACAGCAGT	.	806	30	574	12	.	0	0	0	0	0
SRD5A1	6715	hgsc.bcm.edu	37	5	6633779	6633779	+	Silent	SNP	C	C	G	rs248793	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SRD5A1-90	NM_001047	exon1	c.C90G	p.R30R	CGCGCGCAATCGT	.	9	8	0	0	C|0.454;G|0.546	0	0	0	0	0
FAM170A	340069	bcgsc.ca	37	5	118969960	118969960	+	Missense_Mutation	SNP	C	C	T	rs328694	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	FAM170A-91	NM_182761	exon3	c.C517T	p.P173S	ACTCCCCCCTCTG	.	211	7	178	2	C|0.562;T|0.438	0	0	0	0	0
FBN2	2201	broad.mit.edu	37	5	127727722	127727722	+	Missense_Mutation	SNP	C	C	G	rs34450503	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	FBN2-146	NM_001999	exon11	c.G1592C	p.G531A	CAATCTCCATTTG	.	86	3	86	2	C|0.999;G|0.001	0	0	0	0	0
SOWAHA	134548	hgsc.bcm.edu	37	5	132149684	132149684	+	Missense_Mutation	SNP	G	G	C	rs40274	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	.	NM_175873	exon1	c.G371C	p.R124P	TGGTCCGGGTGCC	.	7	7	0	0	G|0.980;C|0.020	0	0	0	0	0
PPP1R3G	648791	hgsc.bcm.edu	37	6	5086070	5086070	+	Silent	SNP	A	A	G	rs667752		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	PPP1R3G-136	NM_001145115	exon1	c.A351G	p.A117A	GGACGCACAGCTC	.	8	8	0	0	A|0.006;G|0.994	0	0	0	0	0
RREB1	6239	hgsc.bcm.edu	37	6	7230680	7230680	+	Missense_Mutation	SNP	G	G	T	rs9502564	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	RREB1-144	NM_001003700	exon10	c.G2348T	p.G783V	GCGGGGGCCACAA	.	8	8	0	0	G|0.546;T|0.454	0	0	0	0	0
HLA-A	3105	hgsc.bcm.edu	37	6	29911239	29911261	+	Frame_Shift_Del	DEL	TTGAGAGCCTACCTGGATGGCAC	TTGAGAGCCTACCTGGATGGCAC	-	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	TTGAGAGCCTACCTGGATGGCAC	TTGAGAGCCTACCTGGATGGCAC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	HLA-A-92	NM_001242758	exon3	c.538_560del	p.180_187del	GAGCAGTTGAGAG	.	288	0	152	0	.	0	0	0	0	0
HLA-B	3106	hgsc.bcm.edu	37	6	31324599	31324599	+	Missense_Mutation	SNP	T	T	G	rs1050538	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	HLA-B-90	NM_005514	exon2	c.A209C	p.E70A	CGCGGCTCCTCTC	.	109	20	60	0	T|0.972;G|0.028	0	0	0	0	0
GPR111	222611	broad.mit.edu	37	6	47624239	47624239	+	Missense_Mutation	SNP	A	A	G	rs1485784	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	GPR111-91	.	.	.	.	CTGCCTATGGGAA	.	84	3	78	1	A|0.462;G|0.538	0	0	0	0	0
KCNQ5	56479	hgsc.bcm.edu	37	6	73332121	73332121	+	Silent	SNP	C	C	T	rs34821312	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	KCNQ5-158	NM_001160132	exon1	c.C204T	p.L68L	CACGCTCGGTGGC	.	12	9	1	0	C|0.884;T|0.116	0	0	0	0	0
MTHFD1L	25902	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	151293139	151293139	+	Silent	SNP	T	T	C	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	MTHFD1L-292	NM_001242767	exon20	c.T2073C	p.S691S	CAACTCTTCAGTG	.	115	14	102	0	.	0	0	0	0	0
SP8	221833	broad.mit.edu	37	7	20824941	20824943	+	In_Frame_Del	DEL	GCC	GCC	-	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SP8-91	NM_182700	exon2	c.493_495del	p.165_165del	GGAGGAGCCGCCG	.	26	7	10	0	.	0	0	0	0	0
GARS	2617	hgsc.bcm.edu	37	7	30634661	30634661	+	Missense_Mutation	SNP	C	C	G	rs1049402	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	GARS-91	NM_002047	exon1	c.C124G	p.P42A	TCCTGCCCCCCGA	.	5	5	0	0	C|0.329;G|0.671	0	0	0	0	0
PON1	5444	bcgsc.ca	37	7	94937446	94937446	+	Missense_Mutation	SNP	T	T	C	rs662	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	PON1-91	NM_000446	exon6	c.A575G	p.Q192R	CAGGATTGTAAGT	.	131	6	106	1	T|0.544;C|0.456	0	0	0	0	0
SLC26A3	1811	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	107408290	107408290	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SLC26A3-94	NM_000111	exon19	c.T2126G	p.F709C	AAGAAAAATATTG	.	92	20	118	0	.	0	0	0	0	0
CYP7B1	9420	broad.mit.edu	37	8	65537031	65537031	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	CYP7B1-93	NM_004820	exon2	c.G188A	p.R63Q	TCTTTTCGTAAGT	.	110	5	102	0	.	0	0	0	0	0
E2F5	1875	hgsc.bcm.edu	37	8	86089787	86089787	+	Silent	SNP	C	C	G	rs12926	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	E2F5-415	NM_001083588	exon1	c.C132G	p.A44A	GGGCGCCGGGGGC	.	8	8	0	0	C|0.434;G|0.566	0	0	0	0	0
EPPK1	83481	bcgsc.ca	37	8	144940290	144940290	+	Missense_Mutation	SNP	C	C	G	rs201976887		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	EPPK1-25	NM_031308	exon1	c.G7132C	p.D2378H	TGGGGTCGGCCAG	.	370	16	108	0	.	0	0	0	0	0
ERMP1	79956	hgsc.bcm.edu	37	9	5832728	5832728	+	Silent	SNP	G	G	C	rs1131727	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ERMP1-69	NM_024896	exon1	c.C300G	p.A100A	TCCAGCGGCCCCG	.	11	10	0	0	G|0.572;C|0.428	0	0	0	0	0
MLLT3	4300	broad.mit.edu	37	9	20414340	20414340	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	MLLT3-660	NM_004529	exon5	c.C504T	p.S168S	GCTGCTGCTACTG	.	58	3	41	1	.	0	0	0	0	0
DMRTA1	63951	hgsc.bcm.edu	37	9	22447523	22447523	+	Silent	SNP	C	C	T	rs34336274	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	DMRTA1-578	NM_022160	exon1	c.C459T	p.A153A	CGAAGCCCGGGGG	.	14	10	0	0	C|0.987;T|0.013	0	0	0	0	0
TUSC1	286319	hgsc.bcm.edu	37	9	25678122	25678122	+	Silent	SNP	G	G	C	rs72631814	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	TUSC1-90	NM_001004125	exon1	c.C198G	p.A66A	CAGGTCGGCAAAC	.	22	12	0	0	G|0.807;C|0.193	0	0	0	0	0
AQP7	364	ucsc.edu	37	9	33385287	33385287	+	Missense_Mutation	SNP	T	T	C	rs74557595		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	AQP7-90	NM_001170	exon8	c.A745G	p.N249D	CCCCATTGCTGCA	.	41	14	47	2	.	0	0	0	0	0
SH2D3C	10044	broad.mit.edu	37	9	130504196	130504196	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SH2D3C-228	NM_170600	exon9	c.C1959A	p.G653G	GGTGCAGCCCAGG	.	149	12	31	0	.	0	0	0	0	0
C9orf172	389813	hgsc.bcm.edu	37	9	139740630	139740630	+	Silent	SNP	C	C	A	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	.	NM_001080482	exon1	c.C1764A	p.V588V	CCTGGTCATCGAC	.	16	8	0	0	.	0	0	0	0	0
DCAF8L2	347442	hgsc.bcm.edu	37	X	27765408	27765408	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	DCAF8L2-42	NM_001136533	exon1	c.G396A	p.E132E	GGAGGAGGAGGAG	.	53	6	37	0	.	0	0	0	0	0
FAM47C	442444	broad.mit.edu	37	X	37028425	37028425	+	Missense_Mutation	SNP	A	A	G	rs145580328	byfrequency	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	FAM47C-111	NM_001013736	exon1	c.A1942G	p.N648D	CCTCCCAATACTG	.	111	4	132	1	A|1.000;G|0.000	0	0	0	0	0
SRPX	8406	broad.mit.edu	37	X	38079976	38079978	+	In_Frame_Del	DEL	GCA	GCA	-	rs35523939	alternate_allele	TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	SRPX-130	NM_001170751	exon1	c.68_70del	p.23_24del	GGACGCGCAGCAG	.	36	15	5	0	-|1.000;|0.000	0	0	0	0	0
CCDC120	90060	broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	48921925	48921925	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	CCDC120-131	NM_001163321	exon6	c.C454T	p.R152C	CTGGAACGCGAGG	.	93	20	55	1	.	0	0	0	0	0
MECP2	4204	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	153295874	153295874	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	MECP2-226	NM_001110792	exon3	c.C1441T	p.P481S	TGTTTGGCCTTGG	.	188	44	152	0	.	0	0	0	0	0
JPH4	84502	broad.mit.edu	37	14	24044983	24044984	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	JPH4-92	NM_001146028	exon3	c.1062_1063insG	p.G354fs	AACCTTGCCCCGC	.	194	6	6	0	.	0	0	0	0	0
C16orf3	750	hgsc.bcm.edu	37	16	90095597	90095598	+	In_Frame_Ins	INS	-	-	GGGGCAGCCTACGGGGCAGGCTGC	rs71137702		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	C16orf3-90	NM_001214	exon1	c.154_155insGCAGCCTGCCCCGTAGGCTGCCCC	p.I52delinsAACPVGCPI	AGGCTATGGGGCA	.	157	0	68	0	GGGGCAGCCTACGGGGCAGGCTGC|1.000;|0.000	0	0	0	0	0
ATXN1	6310	hgsc.bcm.edu	37	6	16327909	16327910	+	In_Frame_Ins	INS	-	-	TGC	rs71806515		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	ATXN1-93	NM_001128164	exon7	c.633_634insGCA	p.H211delinsQH	CTGCTGATGCTGA	.	52	39	12	0	.	0	0	0	0	0
FZD1	8321	hgsc.bcm.edu	37	7	90894459	90894460	+	In_Frame_Ins	INS	-	-	CCG	rs139480179		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	FZD1-658	NM_003505	exon1	c.264_265insCCG	p.Q88delinsQP	GCAGCAACCGCCG	.	33	33	2	2	-|0.606;CCG|0.394	0	0	0	0	0
SPATA31C1	441452	hgsc.bcm.edu	37	9	90534192	90534193	+	In_Frame_Ins	INS	-	-	TCTTGTCTCCCAGCGTCA	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	.	NM_001145124	exon2	c.212_213insTCTTGTCTCCCAGCGTCA	p.H71delinsHLVSQRH	AGCGTCATCTTGT	.	378	0	293	0	.	0	0	0	0	0
OBSCN	84033	hgsc.bcm.edu	37	1	228504669	228504670	+	Missense_Mutation	DNP	GC	GC	AT	novel		TCGA-OR-A5KQ-01A-11D-A30A-10	TCGA-OR-A5KQ-10A-01D-A30A-10	GC	GC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	71ee860b-0b75-498c-a470-f1022b5155e0	c748e192-64b2-4316-bf62-5f40129b4743	.	OBSCN-403	NM_001271223	exon62	c.C16417T	p.R5228W	TCTGCGCGGCTCA	.	19	1	0	0	C|0.643;T|0.357	0	0	0	0	0