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	TranscriptID	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	COSMIC_Gene_Freq
ABCC8	6833	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	17428453	17428453	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	ABCC8	NM_000352	exon25	c.G3144T	p.R1048S	GCAGTTCCTGGCT	.	87.0	17.0	123.0	0.0	.	91
ARAP3	64411	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	141051870	141051870	+	Splice_Site	SNP	T	T	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	ARAP3	NM_022481	exon11	c.1386-2A>T	.	TGAAGCTGAGGGG	.	152.0	8.0	144.0	0.0	.	291
ARID1A	8289	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	1	27099008	27099008	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	ARID1A	NM_006015	exon13	c.C3424T	p.Q1142X	TCTATGCAGGGGC	.	189.0	79.0	211.0	0.0	.	584
CAPN14	440854	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	31414909	31414909	+	Silent	SNP	G	G	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	.	NM_001145122	exon11	c.C1170A	p.G390G	TCTCCTGCCCTCC	.	114.0	22.0	171.0	0.0	.	.
CAPNS1	826	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	36637097	36637097	+	Splice_Site	SNP	G	G	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	CAPNS1	NM_001749	exon9	c.605-1G>C	.	ATCTTAGGGTTCC	.	57.0	7.0	88.0	0.0	.	90
CCDC64B	146439	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	16	3085397	3085397	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	.	NM_001103175	exon1	c.G101A	p.R34Q	GAGTCCCGCCGCT	.	87.0	37.0	97.0	0.0	.	.
CCDC80	151887	ucsc.edu;bcgsc.ca	37	3	112328903	112328903	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	CCDC80	NM_199511	exon6	c.G2347A	p.V783M	AGATCACCAGCAA	.	44.0	4.0	76.0	0.0	.	92
CCDC88A	55704	broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	55589549	55589549	+	Silent	SNP	T	T	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	CCDC88A	NM_018084	exon7	c.A522G	p.Q174Q	CATCCATTGCAGG	.	268.0	47.0	331.0	1.0	.	94
CD1B	910	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	158299817	158299817	+	Silent	SNP	G	G	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	CD1B	NM_001764	exon3	c.C432A	p.V144V	ATTCTTGACACTC	.	263.0	86.0	238.0	0.0	.	92
CSMD1	64478	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	3267015	3267015	+	Silent	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	CSMD1	NM_033225	exon13	c.G1674A	p.E558E	CACCAGCTCAAAG	.	112.0	55.0	146.0	0.0	.	86
CTCF	10664	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	67660509	67660509	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	CTCF	NM_006565	exon8	c.G1409A	p.R470H	AATGCCGTTACTG	.	98.0	31.0	130.0	0.0	.	91
DCHS1	8642	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	6648374	6648374	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	DCHS1	NM_003737	exon14	c.C5896T	p.R1966C	GTAGGCGCAGAGG	.	123.0	30.0	149.0	0.0	.	73
DHX16	8449	ucsc.edu;bcgsc.ca	37	6	30624171	30624171	+	Silent	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	DHX16	NM_003587	exon15	c.C2427T	p.T809T	CACCGTGGTGAGC	.	45.0	4.0	63.0	0.0	.	228
DHX9	1660	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	182848473	182848473	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	DHX9	NM_001357	exon21	c.G2440A	p.G814S	GGAATTGGCCAAT	.	148.0	29.0	147.0	0.0	.	92
ELL2	22936	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	95224587	95224587	+	Silent	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	ELL2	NM_012081	exon12	c.G1911A	p.E637E	CCATGACTCTGCT	.	81.0	14.0	125.0	0.0	.	90
EME1	146956	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	48452910	48452910	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	EME1	NM_152463	exon2	c.A341G	p.D114G	CTGAGGACTCTAG	.	121.0	55.0	181.0	1.0	.	227
FANCM	57697	ucsc.edu;bcgsc.ca	37	14	45650690	45650690	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	FANCM	NM_020937	exon15	c.T4280C	p.V1427A	GAAAAGTTAAAAG	.	44.0	4.0	85.0	0.0	.	569
FLG2	388698	hgsc.bcm.edu;broad.mit.edu	37	1	152327767	152327767	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	FLG2	NM_001014342	exon3	c.2495delG	p.G832fs	CCAAAGCCAGAGG	.	208.0	18.0	166.0	0.0	.	151
FOLH1	2346	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	11	49229931	49229931	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	FOLH1	NM_004476	exon1	c.G31C	p.A11P	CCACAGCCGAGTC	.	42.0	21.0	45.0	0.0	.	579
FTSJ3	117246	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	61898837	61898837	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	FTSJ3	NM_017647	exon16	c.A1763G	p.Q588R	TCATCTTGGTACA	.	78.0	13.0	72.0	0.0	.	91
GABPA	2551	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	21	27141414	27141414	+	Silent	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	GABPA	NM_001197297	exon10	c.G1236A	p.A412A	TGCAGCGGAGTTG	.	225.0	89.0	334.0	0.0	.	227
GALNT6	11226	broad.mit.edu;bcgsc.ca	37	12	51758083	51758083	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	GALNT6	NM_007210	exon6	c.A871G	p.T291A	CCACTGTCTTGTC	.	130.0	6.0	198.0	1.0	.	92
GPR98	84059	ucsc.edu;bcgsc.ca	37	5	90124798	90124798	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	GPR98	NM_032119	exon77	c.A16406G	p.Y5469C	AACTATATGAAGC	.	39.0	4.0	49.0	0.0	.	103
HKDC1	80201	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	71008284	71008284	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	HKDC1	NM_025130	exon10	c.C1370T	p.T457I	TGGTGACCGCGGT	.	115.0	52.0	110.0	0.0	.	95
HNF1A	6927	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	121431424	121431424	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	HNF1A	NM_000545	exon3	c.T628A	p.S210T	CCAGCATCCCAGC	.	109.0	21.0	131.0	0.0	.	1745
HPS3	84343	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	148868468	148868468	+	Splice_Site	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	HPS3	NM_032383	exon6	c.1245+1G>A	.	CTGAAGGTAAGAA	.	110.0	18.0	131.0	0.0	.	158
ITGB4	3691	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	73723530	73723530	+	Missense_Mutation	SNP	G	G	A	rs137971337		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	ITGB4	NM_001005731	exon4	c.G208A	p.A70T	CTGGCCGCGGGCT	.	132.0	36.0	155.0	0.0	G|1.000;A|0.000	227
KPNA7	402569	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	98792911	98792911	+	Missense_Mutation	SNP	G	G	T	rs183241291	by1000genomes;alternate_allele	TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	KPNA7	NM_001145715	exon4	c.C335A	p.A112E	AGGCCCGCTTCAA	.	67.0	24.0	62.0	0.0	G|0.999;A|0.000	158
KRTAP5-3	387266	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	11	1629410	1629410	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	KRTAP5-3	NM_001012708	exon1	c.C206A	p.S69Y	CCACAAGAGCCAC	.	239.0	34.0	237.0	0.0	.	92
LHFP	10186	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	40175212	40175212	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	LHFP	NM_005780	exon2	c.C142T	p.R48W	ACCTCCGGAAGGT	.	134.0	23.0	181.0	0.0	.	683
LIG3	3980	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	33310396	33310396	+	Silent	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	LIG3	NM_013975	exon2	c.C372T	p.P124P	GGTGCCCAATCCC	.	81.0	14.0	131.0	0.0	.	728
MAL	4118	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	95713853	95713853	+	Silent	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	MAL	NM_022438	exon2	c.G243A	p.E81E	TGGAGAGACTTCC	.	179.0	64.0	267.0	0.0	.	514
MIR520D	574482	broad.mit.edu;ucsc.edu;mdanderson.org	37	19	54223426	54223426	+	RNA	SNP	A	A	G	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	.	.	.	.	.	TGGGTTACGGTTT	.	62.0	7.0	82.0	0.0	.	.
MRVI1	10335	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	10602112	10602112	+	Silent	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	MRVI1	NM_130385	exon20	c.C2385T	p.T795T	TTCTTTGGTCTTC	.	59.0	5.0	87.0	0.0	.	25
MSN	4478	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	X	64955217	64955217	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	MSN	NM_002444	exon8	c.G884A	p.R295H	GCCGTCGCAAGCC	.	223.0	9.0	287.0	0.0	.	1086
MUC17	140453	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	100686943	100686943	+	Silent	SNP	G	G	A	rs201108444		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	MUC17	NM_001040105	exon3	c.G12246A	p.T4082T	CTCCACGACTGTG	.	191.0	40.0	245.0	0.0	.	95
NIPBL	25836	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	37007558	37007558	+	Silent	SNP	A	A	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	NIPBL	NM_015384	exon18	c.A4221C	p.T1407T	TCTTACAGACACA	.	118.0	51.0	162.0	0.0	.	293
NIPBL	25836	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	37007562	37007562	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	NIPBL	NM_015384	exon18	c.A4225G	p.T1409A	ACAGACACAACAA	.	117.0	51.0	158.0	0.0	.	293
OR12D3	81797	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	29342651	29342651	+	Silent	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	OR12D3	NM_030959	exon1	c.G414A	p.V138V	AATACACACCTGG	.	81.0	34.0	90.0	0.0	.	133
OR2J3	442186	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	29080097	29080097	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	OR2J3	NM_001005216	exon1	c.T430G	p.C144G	CGTTTCTGCCACC	.	331.0	132.0	450.0	1.0	.	90
P4HTM	54681	broad.mit.edu;bcgsc.ca	37	3	49038898	49038898	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	P4HTM	NM_177938	exon3	c.A464G	p.E155G	ATGAAGAGTGTCG	.	99.0	6.0	132.0	1.0	.	205
PCDHB12	56124	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	140589809	140589809	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	PCDHB12	NM_018932	exon1	c.G1330A	p.V444I	TCCGACGTCAATG	.	165.0	9.0	135.0	0.0	.	93
PCDHGA5	56110	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	140744161	140744161	+	Silent	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	PCDHGA5	NM_032054	exon1	c.C264T	p.G88G	CGCGGGCAGGATA	.	161.0	57.0	111.0	0.0	.	35
PHPT1	29085	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	9	139744952	139744958	+	Frame_Shift_Del	DEL	CAGCAGA	CAGCAGA	-	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	CAGCAGA	CAGCAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	PHPT1	NM_001135861	exon3	c.286_286del	p.96_96del	AACCACCAGCAGA	.	48.0	10.0	98.0	0.0	.	90
PPARA	5465	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	46611213	46611213	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	PPARA	NM_001001928	exon4	c.G352T	p.A118S	GTCCACGCGTGTG	.	80.0	27.0	119.0	0.0	.	611
PTK2	5747	ucsc.edu;bcgsc.ca	37	8	141774380	141774380	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	PTK2	NM_005607	exon15	c.A1253G	p.D418G	GCATAATCATCTG	.	43.0	4.0	44.0	0.0	.	1517
PTPN14	5784	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	214542934	214542934	+	Missense_Mutation	SNP	G	G	T	rs61749333	byfrequency;alternate_allele	TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	PTPN14	NM_005401	exon17	c.C3137A	p.T1046K	GAATCCGTTCGAA	.	323.0	18.0	299.0	0.0	G|0.999;C|0.001	290
RNF214	257160	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	117150670	117150670	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	RNF214	NM_207343	exon7	c.G1006A	p.E336K	GATGGCGAAATAA	.	61.0	21.0	81.0	0.0	.	90
RPS6KA3	6197	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	20227476	20227476	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	RPS6KA3	NM_004586	exon3	c.A173T	p.E58V	TGTCCTTCCTTTA	.	102.0	33.0	177.0	0.0	.	1504
SAMD5	389432	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	6	147830139	147830139	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	SAMD5	NM_001030060	exon1	c.C75A	p.N25K	GGATAACGGCTAC	.	211.0	63.0	223.0	0.0	.	68
STEAP3	55240	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	2	120012401	120012401	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	STEAP3	NM_182915	exon5	c.1192delT	p.W398fs	CTCAACTGGAGGG	.	104.0	39.0	170.0	0.0	.	91
THSD7A	221981	broad.mit.edu;bcgsc.ca	37	7	11486897	11486897	+	Silent	SNP	T	T	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	THSD7A	NM_015204	exon12	c.A2760G	p.G920G	ACAGTCTCCATTG	.	106.0	6.0	146.0	0.0	.	71
TMEM95	339168	broad.mit.edu;bcgsc.ca	37	17	7259754	7259754	+	Silent	SNP	C	C	T	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	TMEM95	NM_198154	exon6	c.C477T	p.I159I	CTCCATCTTCGGA	.	95.0	5.0	139.0	0.0	.	90
TTC28	23331	ucsc.edu;bcgsc.ca	37	22	28379795	28379795	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	.	NM_001145418	exon23	c.T5860C	p.S1954P	CGAGGGAGGAGGA	.	43.0	4.0	40.0	0.0	.	.
WDR45B	56270	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	17	80576976	80576976	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	.	NM_019613	exon7	c.C647G	p.S216X	CCTGATGAAGTAT	.	76.0	17.0	113.0	0.0	.	.
WFDC5	149708	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	20	43743715	43743715	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	WFDC5	NM_145652	exon1	c.C10T	p.Q4X	GGCTCTGGGTCCT	.	36.0	7.0	42.0	0.0	.	91
YWHAE	7531	broad.mit.edu;bcgsc.ca	37	17	1265253	1265253	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	YWHAE	NM_006761	exon3	c.A314G	p.D105G	TGTTTGTCCAGTA	.	78.0	6.0	95.0	0.0	.	659
ZNF583	147949	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	56934521	56934521	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	ZNF583	NM_001159861	exon5	c.T494G	p.F165C	AAACATTCCACCA	.	42.0	17.0	39.0	0.0	.	91
FAM186A	121006	broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	50746361	50746362	+	Missense_Mutation	DNP	TT	TT	GG	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	TT	TT	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	.	.	.	.	p.E1418A	CCCCAATTCCTGA	.	168.0	65.0	230.0	2.0	.	.
ADAM28	10863	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	8	24170902	24170903	+	Missense_Mutation	DNP	GG	GG	TT	novel		TCGA-DD-A39W-01A-11D-A20W-10	TCGA-DD-A39W-11A-11D-A20W-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	394130eb-5ab8-4437-8d73-d17f4db7ac24	a7177a22-2989-4bc0-a618-67ca2b279962	.	.	.	.	.	p.G129F	TTCAGGGGCTACT	.	123.0	10.0	153.0	0.0	.	.