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_SOL	TVarCov_SOL	NTotCov_SOL	NVarCov_SOL	dbSNPPopFreq	COSMIC_Gene_Freq
AARS2	57505	bcgsc.ca	37	6	44280885	44280885	+	Missense_Mutation	SNP	A	A	C	rs200552761	byfrequency	TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	AARS2	NM_020745	exon1	c.T176G	p.V59G	.	.	27	13	47	5	A|0.960;C|0.040	91
ABCB1	5243	bcgsc.ca	37	7	87195467	87195467	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ABCB1	NM_000927	exon8	c.A621G	p.G207G	.	.	93	4	176	0	.	582
ABI2	10152	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	2	204193320	204193320	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ABI2	NM_005759	exon1	c.G83T	p.R28L	.	.	80	34	104	0	.	90
ABLIM1	3983	bcgsc.ca	37	10	116417893	116417893	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ABLIM1	NM_002313	exon1	c.T67C	p.S23P	.	.	84	4	191	0	.	153
ACVRL1	94	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	52307458	52307458	+	Silent	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ACVRL1	NM_000020	exon4	c.C429T	p.V143V	.	.	21	7	54	0	.	521
ADAMTS2	9509	ucsc.edu	37	5	178700013	178700013	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ADAMTS2	NM_021599	exon3	c.A587G	p.K196R	.	.	34	5	44	0	.	228
ADAMTSL2	9719	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	136402628	136402628	+	Silent	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ADAMTSL2	NM_014694	exon3	c.G192A	p.G64G	.	.	60	25	115	0	.	91
ADH1B	125	bcgsc.ca	37	4	100239208	100239208	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ADH1B	NM_000668	exon3	c.A254G	p.K85R	.	.	85	4	130	0	.	136
AGL	178	bcgsc.ca	37	1	100358128	100358128	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	AGL	NM_000644	exon24	c.A3224G	p.K1075R	.	.	148	5	207	0	.	92
AIRE	326	bcgsc.ca	37	21	45706552	45706552	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	AIRE	NM_000383	exon2	c.T245C	p.F82S	.	.	72	4	72	0	.	91
AKR1C1	1645	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	5009199	5009199	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	AKR1C1	NM_001353	exon3	c.T333C	p.V111V	.	.	311	137	347	0	.	516
ANKRD11	29123	ucsc.edu;bcgsc.ca	37	16	89351544	89351544	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	ANKRD11,NS,carcinoma,+1	ANKRD11	NM_001256183	exon9	c.T1406C	p.F469S	.	.	42	4	43	0	.	139
ANKRD12	23253	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	18	9182491	9182491	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ANKRD12	NM_001083625	exon2	c.A61G	p.M21V	.	.	53	35	81	0	.	92
ANXA13	312	hgsc.bcm.edu;bcgsc.ca	37	8	124701110	124701112	+	Frame_Shift_Del	DEL	CCG	CCG	-	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	CCG	CCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ANXA13	NM_001003954	exon10	c.840_841del	p.280_281del	.	.	115	16	184	0	.	93
ARAP2	116984	bcgsc.ca	37	4	36168620	36168620	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ARAP2	NM_015230	exon10	c.A1907G	p.N636S	.	.	109	4	121	1	.	93
ARHGAP32	9743	bcgsc.ca	37	11	129062064	129062064	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ARHGAP32	NM_001142685	exon1	c.A30G	p.L10L	.	.	72	4	103	0	.	231
ARHGEF12	23365	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	120317715	120317715	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ARHGEF12	NM_015313	exon18	c.G1510C	p.E504Q	.	.	143	42	217	0	.	661
ARHGEF25	115557	bcgsc.ca	37	12	58008793	58008793	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ARHGEF25	NM_001111270	exon11	c.A1070G	p.D357G	.	.	111	6	137	1	.	653
ARHGEF7	8874	bcgsc.ca	37	13	111862302	111862302	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ARHGEF7	NM_001113511	exon5	c.T484C	p.L162L	.	.	202	7	176	0	.	232
ARMC3	219681	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	23297251	23297251	+	Silent	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ARMC3	NM_173081	exon15	c.C1876A	p.R626R	.	.	138	21	151	0	.	90
ASTE1	28990	bcgsc.ca	37	3	130743361	130743361	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ASTE1	NM_014065	exon3	c.T790C	p.S264P	.	.	76	4	110	0	.	90
ASZ1	136991	bcgsc.ca	37	7	117024783	117024783	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ASZ1	NM_130768	exon6	c.T684C	p.H228H	.	.	189	7	417	2	.	515
ATF7IP	55729	bcgsc.ca	37	12	14578318	14578318	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ATF7IP	NM_018179	exon2	c.A1469G	p.E490G	.	.	79	4	141	0	.	252
ATP13A4	84239	bcgsc.ca	37	3	193176898	193176898	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ATP13A4	NM_032279	exon14	c.A1646G	p.D549G	.	.	136	6	163	0	.	92
ATRIP	84126	broad.mit.edu;bcgsc.ca	37	3	48506379	48506379	+	Silent	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ATRIP	NM_130384	exon12	c.G2205A	p.K735K	.	.	120	7	166	0	.	23
BACE2	25825	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	21	42622762	42622762	+	Silent	SNP	T	T	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	BACE2	NM_138992	exon7	c.T1068A	p.P356P	.	.	209	96	218	0	.	92
BAG6	7917	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	31608198	31608198	+	Silent	SNP	T	T	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	BAG6	NM_004639	exon22	c.A3012T	p.S1004S	.	.	63	35	42	1	.	154
BAIAP2L2	80115	ucsc.edu;bcgsc.ca	37	22	38483254	38483254	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	BAIAP2L2	NM_025045	exon11	c.A1136G	p.E379G	.	.	36	5	63	0	.	91
BCMO1	53630	broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	81303890	81303890	+	Missense_Mutation	SNP	A	A	G	rs144501132	byfrequency	TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	BCMO1	NM_017429	exon7	c.A970G	p.I324V	.	.	50	11	92	0	A|1.000;G|0.000	90
BUB3	9184	broad.mit.edu	37	10	124922238	124922238	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	BUB3	NM_004725	exon7	c.A865G	p.T289A	.	.	94	4	141	0	.	228
C3orf20	84077	bcgsc.ca	37	3	14770106	14770106	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	C3orf20	NM_032137	exon12	c.A1851G	p.A617A	.	.	132	6	157	0	.	94
CACNA1D	776	bcgsc.ca	37	3	53814055	53814055	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CACNA1D	NM_000720	exon39	c.A4650G	p.R1550R	.	.	90	4	156	0	.	100
CCDC60	160777	bcgsc.ca	37	12	119942958	119942958	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CCDC60	NM_178499	exon7	c.A733G	p.S245G	.	.	12	3	54	0	.	93
CCDC85A	114800	ucsc.edu	37	2	56611439	56611439	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CCDC85A	NM_001080433	exon6	c.T1611C	p.C537C	.	.	51	5	80	0	.	73
CCT7	10574	bcgsc.ca	37	2	73476251	73476251	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CCT7	NM_006429	exon8	c.A916G	p.R306G	.	.	88	4	111	0	.	90
CDH22	64405	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	20	44856179	44856179	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CDH22	NM_021248	exon4	c.638delG	p.G213fs	.	.	54	30	62	0	.	95
CEACAM20	125931	bcgsc.ca	37	19	45028228	45028228	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CEACAM20	NM_001102600	exon3	c.T263C	p.F88S	.	.	122	5	168	1	.	67
CECR1	51816	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	17662466	17662466	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CECR1	NM_017424	exon9	c.G1443T	p.K481N	.	.	121	62	164	0	.	91
CHTF18	63922	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	16	845334	845334	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CHTF18	NM_022092	exon16	c.C2153A	p.T718N	.	.	52	27	48	0	.	227
CLDN3	1365	ucsc.edu	37	7	73184249	73184249	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CLDN3	NM_001306	exon1	c.A131G	p.N44S	.	.	42	4	49	0	.	90
CLK4	57396	broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	178040789	178040789	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CLK4	NM_020666	exon6	c.G598A	p.A200T	.	.	168	64	228	1	.	359
CLK4	57396	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	178040784	178040784	+	Silent	SNP	A	A	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CLK4	NM_020666	exon6	c.T603A	p.A201A	.	.	173	65	231	0	.	359
CNTNAP5	129684	broad.mit.edu;bcgsc.ca	37	2	125405370	125405370	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CNTNAP5	NM_130773	exon13	c.A1909G	p.T637A	.	.	191	7	270	1	.	524
COL7A1	1294	bcgsc.ca	37	3	48621153	48621153	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	COL7A1	NM_000094	exon39	c.A4339G	p.K1447E	.	.	92	5	125	0	.	160
COL7A1	1294	broad.mit.edu;mdanderson.org	37	3	48630129	48630129	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	COL7A1	NM_000094	exon7	c.A850G	p.N284D	.	.	28	7	51	2	.	160
COX1	5742	broad.mit.edu;bcgsc.ca	37	MT	6718	6718	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	ENST00000361624	exon1	c.G815A	p.G272D	.	.	151	9	575	0	.	.
COX1	5742	broad.mit.edu;bcgsc.ca	37	MT	7074	7074	+	Missense_Mutation	SNP	G	G	A	rs9633436		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	ENST00000361624	exon1	c.G1171A	p.G391R	.	.	159	90	472	0	.	.
CPAMD8	27151	ucsc.edu;bcgsc.ca;mdanderson.org	37	19	17081790	17081790	+	Silent	SNP	G	G	A	rs74937996		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CPAMD8	NM_015692	exon18	c.C2265T	p.D755D	.	.	30	14	43	0	G|0.956;A|0.044	141
CPNE5	57699	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	36712088	36712088	+	Silent	SNP	G	G	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CPNE5	NM_020939	exon19	c.C1446A	p.P482P	.	.	80	40	119	0	.	91
CPXM2	119587	bcgsc.ca	37	10	125651004	125651004	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CPXM2	NM_198148	exon1	c.T172C	p.S58P	.	.	2	2	22	0	.	92
CRISPLD2	83716	bcgsc.ca	37	16	84922960	84922960	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CRISPLD2	NM_031476	exon14	c.A1430G	p.Q477R	.	.	68	5	79	0	.	90
CROCC	9696	bcgsc.ca	37	1	17282509	17282509	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CROCC	NM_014675	exon25	c.A3722G	p.E1241G	.	.	111	5	116	0	.	137
CSMD2	114784	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	34312563	34312563	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CSMD2	NM_052896	exon6	c.A835G	p.S279G	.	.	46	12	53	0	.	103
CSTF2T	23283	bcgsc.ca	37	10	53458720	53458720	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CSTF2T	NM_015235	exon1	c.T590C	p.V197A	.	.	161	6	149	3	.	91
CTC1	80169	bcgsc.ca	37	17	8138219	8138219	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CTC1	NM_025099	exon9	c.C1465T	p.H489Y	.	.	60	4	133	0	.	93
CTC1	80169	ucsc.edu;bcgsc.ca	37	17	8131829	8131829	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CTC1	NM_025099	exon22	c.T3506C	p.V1169A	.	.	44	4	99	0	.	93
CTNND2	1501	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	10992757	10992757	+	Silent	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CTNND2	NM_001332	exon19	c.G3117T	p.S1039S	.	.	123	60	159	0	.	293
CUL4B	8450	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	119669737	119669737	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CUL4B	NM_003588	exon18	c.T2162G	p.L721R	.	.	573	136	574	0	.	227
CYFIP1	23191	bcgsc.ca	37	15	22928412	22928412	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CYFIP1	NM_014608	exon5	c.A289G	p.K97E	.	.	87	5	65	0	.	99
CYTH2	9266	ucsc.edu;bcgsc.ca	37	19	48981822	48981822	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	CYTH2	NM_017457	exon11	c.A1088G	p.E363G	.	.	46	4	67	0	.	228
DAAM2	23500	bcgsc.ca	37	6	39851749	39851749	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DAAM2	NM_015345	exon15	c.T1857C	p.P619P	.	.	168	5	164	0	.	228
DDX60	55601	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	169201507	169201507	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DDX60	NM_017631	exon14	c.G1957C	p.E653Q	.	.	247	144	307	0	.	25
DDX60L	91351	broad.mit.edu;bcgsc.ca	37	4	169382864	169382864	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DDX60L	NM_001012967	exon5	c.A592G	p.T198A	.	.	102	5	125	2	.	69
DDX60L	91351	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	4	169382958	169382958	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DDX60L	NM_001012967	exon5	c.G498A	p.W166X	.	.	89	30	114	0	.	69
DERL2	51009	bcgsc.ca	37	17	5383430	5383430	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DERL2	NM_016041	exon6	c.A558G	p.E186E	.	.	68	4	130	0	.	90
DHODH	1723	broad.mit.edu	37	16	72048378	72048378	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DHODH	NM_001361	exon3	c.A241G	p.R81G	.	.	90	4	136	0	.	227
DHX9	1660	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	182823304	182823304	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DHX9	NM_001357	exon6	c.A617G	p.D206G	.	.	166	100	223	0	.	92
DIAPH3	81624	bcgsc.ca	37	13	60490309	60490309	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DIAPH3	NM_001042517	exon19	c.T2245C	p.L749L	.	.	48	4	189	1	.	516
DNAH7	56171	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	196825086	196825086	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DNAH7	NM_018897	exon18	c.T2789C	p.L930S	.	.	98	44	108	0	.	102
DNAH9	1770	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	11775087	11775087	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DNAH9	NM_001372	exon52	c.A10226T	p.Y3409F	.	.	77	66	154	0	.	168
DNAJC6	9829	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	65775451	65775451	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DNAJC6	NM_001256864	exon1	c.G23A	p.R8Q	.	.	120	29	146	0	.	272
DPPA2P3	100128023	broad.mit.edu;bcgsc.ca	37	3	193711192	193711192	+	RNA	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	.	.	.	.	.	.	91	40	114	0	.	.
DSC2	1824	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	28650707	28650707	+	Silent	SNP	A	A	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DSC2	NM_024422	exon14	c.T2235A	p.P745P	.	.	114	73	166	0	.	517
DST	667	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	56480865	56480865	+	Missense_Mutation	SNP	C	C	T	rs200851382		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DST	NM_001723	exon24	c.G7400A	p.R2467H	.	.	122	30	112	0	C|0.999;T|0.001	523
DTL	51514	bcgsc.ca	37	1	212238306	212238306	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DTL	NM_016448	exon7	c.T574C	p.S192P	.	.	157	6	156	0	.	22
DTNA	1837	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	32438291	32438291	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DTNA	NM_001390	exon15	c.A1494G	p.E498E	.	.	74	42	113	0	.	153
DYTN	391475	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	207530732	207530732	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	DYTN	NM_001093730	exon10	c.C1002A	p.N334K	.	.	283	131	364	1	.	23
ENPP2	5168	bcgsc.ca	37	8	120629466	120629466	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ENPP2	NM_001130863	exon7	c.T595C	p.S199P	.	.	152	6	232	0	.	292
ENPP3	5169	bcgsc.ca	37	6	132061452	132061452	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ENPP3	NM_005021	exon24	c.T2389C	p.C797R	.	.	108	6	119	0	.	95
EPC2	26122	broad.mit.edu	37	2	149542449	149542449	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	EPC2	NM_015630	exon13	c.G2230A	p.V744M	.	.	169	4	187	0	.	137
ERGIC3	51614	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	34130635	34130635	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ERGIC3	NM_015966	exon4	c.C312A	p.F104L	.	.	140	53	150	0	.	585
ESRRA	2101	ucsc.edu	37	11	64081442	64081442	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ESRRA	NM_004451	exon3	c.T345C	p.C115C	.	.	55	7	87	1	.	90
EXOC3	11336	bcgsc.ca	37	5	458057	458057	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	EXOC3	NM_007277	exon6	c.A1207G	p.K403E	.	.	54	4	73	0	.	90
FAM151B	167555	bcgsc.ca	37	5	79817945	79817945	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	FAM151B	NM_205548	exon5	c.A659G	p.K220R	.	.	138	5	142	0	.	68
FAM207A	85395	broad.mit.edu;ucsc.edu;bcgsc.ca	37	21	46396679	46396679	+	Silent	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	NM_058190	exon6	c.G654A	p.L218L	.	.	35	7	27	0	.	.
FARP1	10160	bcgsc.ca	37	13	99100494	99100494	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	FARP1	NM_005766	exon27	c.A3061G	p.M1021V	.	.	90	4	224	1	.	290
FBXO11	80204	bcgsc.ca	37	2	48036742	48036742	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	FBXO11	NM_001190274	exon20	c.A2443G	p.K815E	.	.	103	4	115	0	.	659
FLCN	201163	bcgsc.ca	37	17	17119764	17119764	+	Silent	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	FLCN	NM_144997	exon11	c.G1230A	p.E410E	.	.	57	4	94	0	.	1292
FOXD4L2	100036519	hgsc.bcm.edu	37	9	42718188	42718189	+	In_Frame_Ins	INS	-	-	GAG	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	FOXD4L2	NM_001099279	exon1	c.123_124insGAG	p.D41delinsDE	.	.	390	46	566	0	.	22
FOXD4L2	100036519	hgsc.bcm.edu	37	9	70428763	70428764	+	In_Frame_Ins	INS	-	-	CCT	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	FOXD4L2	NM_001099279	exon1	c.137_138insAGG	p.A46delinsEA	.	.	380	38	585	0	.	22
FOXRED2	80020	bcgsc.ca	37	22	36889847	36889847	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	FOXRED2	NM_001102371	exon8	c.A1628G	p.Q543R	.	.	56	4	80	0	.	92
FREM2	341640	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	39357273	39357273	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	FREM2	NM_207361	exon5	c.C5708T	p.P1903L	.	.	182	120	189	0	.	100
FSTL4	23105	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	132534838	132534838	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	FSTL4	NM_015082	exon16	c.G2478C	p.E826D	.	.	66	25	86	0	.	91
FTX	100302692	bcgsc.ca	37	X	73381299	73381299	+	RNA	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	.	.	.	.	.	.	79	4	62	0	.	.
GAREM	64762	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	29890226	29890226	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	NM_022751	exon3	c.G323T	p.S108I	.	.	179	50	275	0	.	.
GEMIN4	50628	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	648872	648872	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	GEMIN4	NM_015721	exon2	c.A2411G	p.Q804R	.	.	77	25	86	0	.	206
GLI1	2735	bcgsc.ca	37	12	57859438	57859438	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	GLI1	NM_005269	exon6	c.T583C	p.L195L	.	.	79	4	112	0	.	722
GOLGA4	2803	bcgsc.ca	37	3	37396610	37396610	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	GOLGA4	NM_001172713	exon22	c.A6640G	p.T2214A	.	.	132	5	175	1	.	93
GPR151	134391	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	145895523	145895523	+	Missense_Mutation	SNP	C	C	T	rs181265546	alternate_allele	TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	GPR151	NM_194251	exon1	c.G154A	p.V52M	.	.	105	17	134	0	C|0.999;G|0.000	92
GPX2	2877	bcgsc.ca	37	14	65406261	65406261	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	GPX2	.	.	.	.	.	.	194	7	211	0	.	69
GRB14	2888	bcgsc.ca	37	2	165383625	165383625	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	GRB14	NM_004490	exon4	c.G502A	p.E168K	.	.	146	6	201	0	.	420
GRIN2B	2904	bcgsc.ca	37	12	13715770	13715770	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	GRIN2B	NM_000834	exon13	c.T4402C	p.S1468P	.	.	96	4	217	0	.	231
GRIN3A	116443	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	104449365	104449365	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	GRIN3A	NM_133445	exon2	c.G817T	p.D273Y	.	.	212	77	258	0	.	96
GRM1	2911	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	146755325	146755325	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	GRM1	NM_000838	exon9	c.C2978T	p.S993F	.	.	44	11	72	0	.	1080
GSDMC	56169	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	130777987	130777987	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	GSDMC	NM_031415	exon4	c.G457C	p.D153H	.	.	53	18	110	0	.	93
GSE1	23199	bcgsc.ca	37	16	85706072	85706072	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	NM_014615	exon16	c.A3581G	p.D1194G	.	.	57	4	99	0	.	.
GTPBP8	29083	bcgsc.ca	37	3	112714019	112714019	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	GTPBP8	NM_014170	exon3	c.A473G	p.K158R	.	.	320	9	329	1	.	90
GZMA	3001	bcgsc.ca	37	5	54404098	54404098	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	GZMA	NM_006144	exon4	c.A503G	p.E168G	.	.	208	6	211	1	.	94
HBS1L	10767	bcgsc.ca	37	6	135307318	135307318	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	HBS1L	NM_006620	exon11	c.A1309G	p.S437G	.	.	118	5	124	0	.	92
HELLS	3070	bcgsc.ca	37	10	96352173	96352173	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	HELLS	NM_018063	exon17	c.A1873G	p.T625A	.	.	153	5	191	1	.	92
HGD	3081	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	120365198	120365198	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	HGD	NM_000187	exon9	c.A565T	p.S189C	.	.	41	20	45	0	.	68
HGF	3082	broad.mit.edu	37	7	81388108	81388108	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	HGF	NM_000601	exon3	c.T267C	p.F89F	.	.	84	4	150	0	.	516
HIBCH	26275	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	191155206	191155206	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	HIBCH	NM_014362	exon5	c.T310G	p.S104A	.	.	135	58	136	0	.	90
HIST1H3F	8968	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	26250628	26250628	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	HIST1H3F	NM_021018	exon1	c.A206G	p.Q69R	.	.	194	104	191	1	.	68
HOXC4	3221	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	54447739	54447739	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	HOXC4	NM_014620	exon3	c.C33A	p.N11K	.	.	87	20	112	0	.	91
HRH4	59340	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	22057509	22057509	+	Silent	SNP	C	C	A	rs115905515	byfrequency;alternate_allele	TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	HRH4	NM_021624	exon3	c.C1156A	p.R386R	.	.	80	30	83	0	C|0.998;T|0.002	92
HRNR	388697	broad.mit.edu	37	1	152191163	152191163	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	HRNR	NM_001009931	exon3	c.C2942T	p.S981F	.	.	1701	8	283	0	.	93
HRNR	388697	broad.mit.edu	37	1	152195644	152195644	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	HRNR	NM_001009931	exon2	c.A86G	p.N29S	.	.	809	13	139	0	.	93
HSPA1L	3305	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	31777908	31777908	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	HSPA1L	NM_005527	exon2	c.A1842G	p.Q614Q	.	.	413	120	217	0	.	230
IDE	3416	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	94225544	94225544	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	IDE	NM_004969	exon20	c.A2377G	p.I793V	.	.	186	53	282	0	.	92
IDH3G	3421	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	153055245	153055245	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	IDH3G	NM_004135	exon5	c.C268T	p.H90Y	.	.	38	12	66	0	.	90
IL1RAPL2	26280	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	105011223	105011223	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	IL1RAPL2	NM_017416	exon11	c.T1630C	p.L544L	.	.	210	109	246	0	.	194
IL7	3574	bcgsc.ca	37	8	79710362	79710362	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	IL7	NM_000880	exon2	c.G92A	p.G31D	.	.	161	6	355	0	.	226
IRS4	8471	bcgsc.ca	37	X	107978804	107978804	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	IRS4	NM_003604	exon1	c.T771C	p.C257C	.	.	152	6	177	0	.	623
IRX1	79192	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	3599577	3599577	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	IRX1	NM_024337	exon2	c.C515A	p.T172K	.	.	227	116	236	0	.	228
ITGA3	3675	bcgsc.ca	37	17	48133980	48133980	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ITGA3	NM_005501	exon1	c.T177C	p.H59H	.	.	66	4	58	0	.	229
ITGAX	3687	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	31372494	31372494	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ITGAX	NM_000887	exon9	c.T972C	p.D324D	.	.	96	65	128	0	.	229
JMJD7-PLA2G4B	8681	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	42126945	42126945	+	Silent	SNP	C	C	T	rs140704362		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	JMJD7-PLA2G4B	NM_005090	exon2	c.C72T	p.C24C	.	.	54	17	105	0	C|1.000;T|0.000	135
KANSL1	284058	bcgsc.ca	37	17	44109513	44109513	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	NM_001193466	exon14	c.T2990C	p.L997P	.	.	96	5	96	1	.	.
KANSL3	55683	bcgsc.ca	37	2	97279259	97279259	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	NM_001115016	exon6	c.A761G	p.D254G	.	.	132	6	227	1	.	.
KCNC4	3749	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	110775555	110775555	+	Silent	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	KCNC4	NM_001039574	exon4	c.G1842A	p.S614S	.	.	37	25	69	0	.	154
KCNH8	131096	bcgsc.ca	37	3	19551888	19551888	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	KCNH8	NM_144633	exon12	c.T2074C	p.S692P	.	.	248	8	281	0	.	524
KCNJ3	3760	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	155555841	155555841	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	KCNJ3	NM_001260509	exon1	c.C554A	p.S185Y	.	.	79	17	87	0	.	92
KIAA0100	9703	bcgsc.ca	37	17	26969968	26969968	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	KIAA0100	NM_014680	exon5	c.T434C	p.V145A	.	.	117	4	118	0	.	93
KIAA1407	57577	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	113737618	113737618	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	KIAA1407	NM_020817	exon8	c.T1070A	p.L357Q	.	.	74	16	86	0	.	92
KLF16	83855	broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	1863102	1863102	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	KLF16	NM_031918	exon1	c.C395T	p.P132L	.	.	25	5	29	0	.	90
KRT5	3852	ucsc.edu	37	12	52908846	52908846	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	KRT5	NM_000424	exon9	c.T1653C	p.S551S	.	.	57	4	78	0	.	90
LAMA1	284217	bcgsc.ca	37	18	6985293	6985293	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	LAMA1	NM_005559	exon39	c.T5603C	p.V1868A	.	.	110	5	189	0	.	149
LAMA1	284217	bcgsc.ca	37	18	7008498	7008498	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	LAMA1	NM_005559	exon28	c.T4111C	p.F1371L	.	.	69	5	97	0	.	149
LILRA1	11024	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	55111991	55111991	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	LILRA1	NM_006863	exon9	c.C1327A	p.L443I	.	.	62	15	103	0	.	93
LILRA5	353514	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	54823336	54823336	+	Silent	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	LILRA5	NM_181879	exon4	c.G207T	p.G69G	.	.	204	122	297	1	.	91
LINC00862	554279	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	200311816	200311816	+	RNA	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	.	.	.	.	.	.	138	69	142	0	.	.
LOC100131825	0	ucsc.edu	37	1	159166944	159166944	+	RNA	SNP	G	G	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	.	.	.	.	.	.	19	8	33	0	.	.
LOC100653515	0	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	76888033	76888033	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	NM_001243540	exon3	c.G553T	p.G185C	.	.	238	144	179	0	.	.
LOC727924	0	broad.mit.edu;bcgsc.ca	37	15	22332496	22332496	+	RNA	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	.	.	.	.	.	.	581	150	692	0	.	.
LOC728819	0	ucsc.edu;mdanderson.org	37	2	43903342	43903342	+	Silent	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	NM_001101330	exon1	c.C120T	p.H40H	.	.	377	173	448	0	.	.
LPHN3	23284	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	62936605	62936605	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	LPHN3	NM_015236	exon23	c.T4389C	p.A1463A	.	.	86	56	69	0	.	508
LRRC7	57554	bcgsc.ca	37	1	70509645	70509645	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	LRRC7	NM_020794	exon20	c.T3864C	p.A1288A	.	.	110	4	116	0	.	163
LRRIQ3	127255	bcgsc.ca	37	1	74507559	74507559	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	LRRIQ3	NM_001105659	exon7	c.A1056G	p.S352S	.	.	131	5	155	0	.	92
LYSMD1	388695	broad.mit.edu	37	1	151134412	151134412	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	LYSMD1	NM_212551	exon2	c.A345G	p.E115E	.	.	3002	19	628	2	.	90
MAGI2	9863	bcgsc.ca	37	7	77762377	77762377	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MAGI2	NM_012301	exon18	c.A3032G	p.E1011G	.	.	52	4	132	0	.	461
MALT1	10892	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	56401614	56401614	+	Splice_Site	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MALT1	NM_006785	exon12	c.1475+1G>A	.	.	.	117	73	198	0	.	660
MAP7D3	79649	bcgsc.ca	37	X	135313047	135313047	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MAP7D3	NM_024597	exon9	c.T1492C	p.S498P	.	.	230	7	259	1	.	110
MBP	4155	bcgsc.ca	37	18	74817203	74817203	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MBP	NM_001025100	exon2	c.A15G	p.A5A	.	.	138	9	198	1	.	515
MCTP2	55784	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	94901825	94901825	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MCTP2	NM_001159643	exon9	c.G1285C	p.E429Q	.	.	176	95	182	0	.	93
MERTK	10461	bcgsc.ca	37	2	112767561	112767561	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MERTK	NM_006343	exon15	c.A1997G	p.K666R	.	.	203	6	231	0	.	1463
MFSD5	84975	bcgsc.ca	37	12	53647410	53647410	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MFSD5	NM_001170790	exon2	c.T1112C	p.F371S	.	.	59	4	74	0	.	93
MLLT10P1	140678	bcgsc.ca	37	20	29637864	29637864	+	RNA	SNP	G	G	T	rs150499707		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	.	.	.	.	.	.	75	7	63	1	.	.
MMS22L	253714	bcgsc.ca	37	6	97715840	97715840	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MMS22L	NM_198468	exon8	c.A736G	p.S246G	.	.	147	5	222	0	.	92
MPDZ	8777	bcgsc.ca	37	9	13175838	13175838	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MPDZ	NM_003829	exon21	c.T2968C	p.C990R	.	.	67	4	62	0	.	231
MTBP	27085	bcgsc.ca	37	8	121458680	121458680	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MTBP	NM_022045	exon2	c.A126G	p.T42T	.	.	86	4	145	0	.	228
MTMR4	9110	bcgsc.ca	37	17	56586116	56586116	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MTMR4	NM_004687	exon6	c.T380C	p.L127P	.	.	135	6	82	0	.	91
MUC6	4588	bcgsc.ca	37	11	1016801	1016801	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MUC6	NM_005961	exon31	c.C6000G	p.H2000Q	.	.	2371	54	3074	61	.	23
MUSK	4593	bcgsc.ca	37	9	113445065	113445065	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MUSK	NM_001166281	exon2	c.A191G	p.N64S	.	.	67	4	86	0	.	1379
MYH10	4628	bcgsc.ca	37	17	8409726	8409726	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MYH10	NM_001256012	exon27	c.A3296G	p.Q1099R	.	.	149	6	319	0	.	92
MYLK	4638	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	123411616	123411616	+	Silent	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MYLK	NM_053025	exon19	c.C3531T	p.G1177G	.	.	48	24	81	0	.	365
MYO3A	53904	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	26462898	26462898	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MYO3A	NM_017433	exon30	c.T3705C	p.A1235A	.	.	136	61	156	0	.	1007
MYO7A	4647	broad.mit.edu	37	11	76905526	76905526	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MYO7A	NM_000260	exon32	c.C4280T	p.T1427M	.	.	31	3	61	0	.	138
MYOM2	9172	ucsc.edu	37	8	2041829	2041829	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	MYOM2	NM_003970	exon17	c.A2036G	p.Q679R	.	.	30	4	136	2	.	95
NBEAL2	23218	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	47030821	47030821	+	Silent	SNP	C	C	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	NBEAL2	NM_015175	exon5	c.C423G	p.L141L	.	.	74	29	91	0	.	69
NBR1	4077	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	41345518	41345518	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	NBR1	NM_031862	exon12	c.C1387T	p.H463Y	.	.	227	32	182	0	.	130
NCOA4	8031	bcgsc.ca	37	10	51580576	51580576	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	NCOA4	NM_001145261	exon4	c.T210C	p.S70S	.	.	83	5	104	1	.	1042
ND3	0	bcgsc.ca	37	MT	10401	10401	+	Missense_Mutation	SNP	G	G	A	rs28358278	bycluster;alternate_allele	TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	ENST00000361227	exon1	c.G343A	p.E115K	.	.	167	7	623	0	C|1.000;|0.000	.
NID2	22795	ucsc.edu;bcgsc.ca	37	14	52534860	52534860	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	NID2	NM_007361	exon2	c.T250C	p.S84P	.	.	36	4	51	0	.	158
NIN	51199	bcgsc.ca	37	14	51259469	51259469	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	NIN	NM_020921	exon5	c.A396G	p.E132E	.	.	93	6	94	0	.	229
NLRP13	126204	bcgsc.ca	37	19	56423787	56423787	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	NLRP13	NM_176810	exon5	c.A1396G	p.T466A	.	.	50	5	81	0	.	211
NLRX1	79671	bcgsc.ca	37	11	119045213	119045213	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	NLRX1	NM_024618	exon6	c.A901G	p.K301E	.	.	57	4	100	0	.	92
NOP14-AS1	317648	ucsc.edu	37	4	2940462	2940462	+	RNA	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	.	.	.	.	.	.	116	1	99	0	.	.
NPY5R	4889	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	164272591	164272591	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	NPY5R	NM_006174	exon4	c.T1166A	p.V389E	.	.	154	86	207	0	.	523
NRAP	4892	bcgsc.ca	37	10	115391709	115391709	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	NRAP	NM_001261463	exon17	c.A1647G	p.E549E	.	.	78	4	110	0	.	522
NVL	4931	bcgsc.ca	37	1	224484317	224484317	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	NVL	NM_002533	exon11	c.A1066G	p.N356D	.	.	135	5	132	0	.	92
OR10P1	121130	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	56030750	56030750	+	Silent	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	OR10P1	NM_206899	exon1	c.C75A	p.G25G	.	.	105	26	176	1	.	69
OSBPL6	114880	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	179170928	179170928	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	OSBPL6	NM_001201482	exon3	c.A17G	p.K6R	.	.	83	46	110	0	.	69
PCDH7	5099	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	30724910	30724910	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PCDH7	NM_032457	exon1	c.C1866A	p.S622R	.	.	89	36	68	0	.	229
PCDH7	5099	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	30725405	30725405	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PCDH7	NM_032457	exon1	c.T2361A	p.N787K	.	.	89	38	104	0	.	229
PCDH9	5101	bcgsc.ca	37	13	67802254	67802254	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PCDH9	NM_203487	exon2	c.A319G	p.N107D	.	.	85	5	234	1	.	96
PCDHA10	56139	bcgsc.ca	37	5	140236825	140236825	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PCDHA10	NM_031859	exon1	c.T1192C	p.S398P	.	.	83	5	103	0	.	99
PCDHA6	56142	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	140209550	140209550	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PCDHA6	NM_018909	exon1	c.G1874A	p.G625E	.	.	118	49	130	0	.	92
PCDHAC2	56134	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	140347607	140347607	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PCDHAC2	NM_031883	exon1	c.A1256G	p.Y419C	.	.	92	49	61	0	.	26
PCDHB7	56129	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	5	140554546	140554546	+	Silent	SNP	G	G	A	rs145014054	alternate_allele	TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PCDHB7	NM_018940	exon1	c.G2130A	p.R710R	.	.	177	28	198	0	G|1.000;T|0.000	95
PDZRN4	29951	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	41967431	41967431	+	Silent	SNP	G	G	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PDZRN4	NM_001164595	exon10	c.G2850T	p.L950L	.	.	60	14	91	0	.	296
PGD	5226	bcgsc.ca	37	1	10464282	10464282	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PGD	NM_002631	exon5	c.A395G	p.E132G	.	.	136	5	148	1	.	91
PHC1	1911	bcgsc.ca	37	12	9075284	9075284	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PHC1	NM_004426	exon6	c.T512C	p.L171P	.	.	71	5	133	0	.	154
PIGN	23556	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	59768329	59768329	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PIGN	NM_176787	exon22	c.A2056G	p.I686V	.	.	56	37	81	0	.	227
PKD1	5310	broad.mit.edu	37	16	2161020	2161020	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PKD1	NM_000296	exon15	c.T4148C	p.V1383A	.	.	88	4	110	0	.	91
PKHD1	5314	bcgsc.ca	37	6	51907779	51907779	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PKHD1	NM_170724	exon27	c.T2975C	p.M992T	.	.	85	4	101	0	.	603
PLA2G3	50487	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	22	31533849	31533849	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PLA2G3	NM_015715	exon4	c.A913T	p.K305X	.	.	189	101	304	0	.	226
PLEKHO1	51177	broad.mit.edu	37	1	150131350	150131350	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PLEKHO1	NM_016274	exon6	c.C862T	p.Q288X	.	.	315	8	115	0	.	226
PLEKHO1	51177	broad.mit.edu;bcgsc.ca	37	1	150131349	150131349	+	Silent	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PLEKHO1	NM_016274	exon6	c.C861T	p.L287L	.	.	318	10	115	0	.	226
PLEKHO1	51177	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	150131276	150131276	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PLEKHO1	NM_016274	exon6	c.C788T	p.P263L	.	.	303	15	117	0	.	226
PLEKHO1	51177	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	150131673	150131673	+	Silent	SNP	C	C	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PLEKHO1	NM_016274	exon6	c.C1185G	p.L395L	.	.	390	16	165	0	.	226
PLXNA4	91584	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	131912231	131912231	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PLXNA4	NM_020911	exon7	c.C1861T	p.P621S	.	.	46	21	115	0	.	91
POGZ	23126	broad.mit.edu	37	1	151395971	151395971	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	POGZ	NM_015100	exon10	c.A1580G	p.D527G	.	.	1024	14	173	1	.	93
POLR2J4	84820	broad.mit.edu;bcgsc.ca	37	7	44005510	44005510	+	RNA	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	.	.	.	.	.	.	135	36	189	1	.	.
PPP2R2C	5522	bcgsc.ca	37	4	6331076	6331076	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	PPP2R2C	NM_181876	exon8	c.A965G	p.H322R	.	.	93	4	126	0	.	1084
PSG10P	653492	ucsc.edu;bcgsc.ca	37	19	43358117	43358117	+	RNA	SNP	G	G	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	.	.	.	.	.	.	162	58	242	0	.	.
PTPRQ	374462	bcgsc.ca	37	12	80887209	80887209	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	NM_001145026	exon7	c.A999G	p.R333R	.	.	52	4	81	0	.	.
RAB11FIP2	22841	bcgsc.ca	37	10	119768698	119768698	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	RAB11FIP2	NM_014904	exon5	c.T1350C	p.S450S	.	.	147	5	250	0	.	90
RABL3	285282	bcgsc.ca	37	3	120424928	120424928	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	RABL3	NM_173825	exon4	c.A302G	p.K101R	.	.	79	4	94	0	.	227
RANBP2	5903	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	109381074	109381074	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	RANBP2	NM_006267	exon20	c.G4079A	p.S1360N	.	.	112	53	157	0	.	675
RBM33	155435	bcgsc.ca	37	7	155465608	155465608	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	RBM33	NM_053043	exon3	c.A170G	p.K57R	.	.	78	5	147	0	.	23
RECQL	5965	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	21643210	21643210	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	RECQL	NM_032941	exon5	c.G317C	p.G106A	.	.	94	88	175	0	.	228
RELN	5649	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	103276844	103276844	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	RELN	NM_173054	exon18	c.G2141A	p.S714N	.	.	100	39	202	1	.	574
REV3L	5980	bcgsc.ca	37	6	111695564	111695564	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	REV3L	NM_002912	exon13	c.T3994C	p.S1332P	.	.	102	5	83	0	.	294
RIMS1	22999	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	72968729	72968729	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	RIMS1	NM_014989	exon18	c.C2968A	p.P990T	.	.	104	41	98	0	.	144
ROBO2	6092	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	77629195	77629195	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ROBO2	NM_002942	exon16	c.A2426C	p.Q809P	.	.	98	86	206	0	.	328
RP1L1	94137	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	10467732	10467732	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	RP1L1	NM_178857	exon4	c.A3876T	p.L1292F	.	.	49	26	132	0	.	139
RPS27A	6233	ucsc.edu;bcgsc.ca	37	2	55462628	55462628	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	RPS27A	NM_001135592	exon6	c.G386A	p.G129E	.	.	35	4	49	0	.	91
RPS6KB1	6198	broad.mit.edu	37	17	58022825	58022825	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	RPS6KB1	NM_001272043	exon14	c.A1286G	p.E429G	.	.	515	8	286	0	.	1041
RSPH4A	345895	bcgsc.ca	37	6	116950786	116950786	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	RSPH4A	NM_001010892	exon4	c.A1719G	p.E573E	.	.	95	5	107	0	.	90
RWDD2B	10069	bcgsc.ca	37	21	30391583	30391583	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	RWDD2B	NM_016940	exon1	c.T16C	p.S6P	.	.	18	3	26	0	.	68
S100A10	6281	broad.mit.edu	37	1	151955763	151955763	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	S100A10	NM_002966	exon3	c.A170T	p.K57M	.	.	506	15	99	0	.	90
SAA1	6288	hgsc.bcm.edu;broad.mit.edu	37	11	18290820	18290820	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SAA1	NM_199161	exon3	c.170delG	p.R57fs	.	.	209	60	217	0	.	650
SAA2	6289	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	18267513	18267513	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SAA2	NM_030754	exon3	c.174delG	p.G58fs	.	.	372	60	429	0	.	514
SCN10A	6336	bcgsc.ca	37	3	38830481	38830481	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SCN10A	NM_006514	exon3	c.T436C	p.C146R	.	.	148	5	150	0	.	99
SCYL1	57410	broad.mit.edu	37	11	65303777	65303777	+	Silent	SNP	G	G	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SCYL1	NM_020680	exon12	c.G1623T	p.S541S	.	.	59	3	81	0	.	333
SCYL2	55681	bcgsc.ca	37	12	100704965	100704965	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SCYL2	NM_017988	exon5	c.A624G	p.E208E	.	.	135	6	148	0	.	336
SECISBP2	79048	bcgsc.ca	37	9	91965617	91965617	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SECISBP2	NM_024077	exon14	c.T1963C	p.F655L	.	.	171	6	236	0	.	93
SENP2	59343	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	185318579	185318579	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SENP2	NM_021627	exon5	c.G385A	p.D129N	.	.	186	89	166	1	.	658
SGOL2	151246	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	201400832	201400832	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SGOL2	NM_001160046	exon4	c.G354C	p.L118F	.	.	97	40	101	0	.	94
SHC4	399694	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	49148299	49148299	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SHC4	NM_203349	exon8	c.C1093T	p.H365Y	.	.	123	37	163	0	.	95
SHOX2	6474	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	157820591	157820591	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SHOX2	NM_003030	exon3	c.G503A	p.R168Q	.	.	202	95	264	1	.	90
SHPRH	257218	broad.mit.edu;bcgsc.ca	37	6	146248354	146248354	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SHPRH	NM_173082	exon15	c.A3199G	p.K1067E	.	.	111	5	128	0	.	92
SLAIN1	122060	bcgsc.ca	37	13	78337292	78337292	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SLAIN1	NM_001242868	exon7	c.T1710C	p.P570P	.	.	55	4	223	2	.	93
SLC12A5	57468	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	20	44686186	44686186	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SLC12A5	NM_001134771	exon26	c.T3362G	p.L1121R	.	.	174	67	204	0	.	156
SLC39A13	91252	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	47436693	47436693	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SLC39A13	NM_001128225	exon9	c.G1023T	p.L341F	.	.	127	48	136	0	.	90
SLC44A5	204962	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	75805298	75805298	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SLC44A5	NM_152697	exon4	c.G70T	p.D24Y	.	.	65	14	74	0	.	95
SLC4A4	8671	broad.mit.edu;bcgsc.ca	37	4	72412081	72412081	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SLC4A4	NM_001098484	exon19	c.T2457C	p.Y819Y	.	.	149	6	160	1	.	95
SLC4A8	9498	bcgsc.ca	37	12	51851147	51851147	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SLC4A8	NM_001039960	exon6	c.A587G	p.D196G	.	.	82	4	103	0	.	95
SLC9A6	10479	broad.mit.edu	37	X	135126695	135126695	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SLC9A6	NM_001042537	exon16	c.A1918G	p.N640D	.	.	228	7	246	1	.	131
SLFN12	55106	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	33749277	33749277	+	Silent	SNP	G	G	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SLFN12	NM_018042	exon2	c.C771A	p.L257L	.	.	167	60	122	0	.	91
SLITRK4	139065	broad.mit.edu	37	X	142718078	142718078	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SLITRK4	NM_001184750	exon2	c.G847A	p.G283S	.	.	755	6	885	1	.	193
SORL1	6653	ucsc.edu;bcgsc.ca	37	11	121474906	121474906	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SORL1	NM_003105	exon33	c.A4524G	p.T1508T	.	.	50	4	52	0	.	228
SOX5	6660	bcgsc.ca	37	12	23887652	23887652	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SOX5	NM_006940	exon6	c.A776G	p.Q259R	.	.	50	4	94	0	.	655
SPATA20	64847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	48629417	48629417	+	Silent	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SPATA20	NM_022827	exon14	c.G1833A	p.A611A	.	.	248	81	223	0	.	90
SPTBN5	51332	bcgsc.ca	37	15	42175310	42175310	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SPTBN5	NM_016642	exon9	c.T1671C	p.L557L	.	.	36	4	62	0	.	91
SRC	6714	bcgsc.ca	37	20	36031639	36031639	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SRC	NM_005417	exon14	c.T1468C	p.C490R	.	.	50	4	43	1	.	2731
SRGAP1	57522	bcgsc.ca	37	12	64456741	64456741	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SRGAP1	NM_020762	exon7	c.A846G	p.R282R	.	.	200	7	312	0	.	653
SYNE1	23345	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	152583243	152583243	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SYNE1	NM_182961	exon101	c.G18896T	p.W6299L	.	.	212	49	238	0	.	607
SYNE2	23224	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	64518635	64518635	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SYNE2	NM_182914	exon48	c.G8004T	p.L2668F	.	.	252	126	291	0	.	164
SYT3	84258	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	51133064	51133064	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	SYT3	NM_032298	exon3	c.C1039A	p.R347S	.	.	35	6	91	0	.	155
TAS2R30	259293	bcgsc.ca	37	12	11286164	11286164	+	Missense_Mutation	SNP	G	G	A	rs200661425		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	NM_001097643	exon1	c.C680T	p.A227V	.	.	199	21	392	14	.	.
TBC1D14	57533	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	7026792	7026792	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TBC1D14	NM_001113361	exon13	c.T1819C	p.F607L	.	.	203	47	276	1	.	92
TBRG4	9238	ucsc.edu	37	7	45141136	45141136	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TBRG4	NM_001261834	exon9	c.A1678G	p.T560A	.	.	38	4	59	0	.	90
TCF7L1	83439	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	2	85361140	85361140	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TCF7L1	NM_031283	exon2	c.C251A	p.A84E	.	.	41	24	80	0	.	585
TDP1	55775	bcgsc.ca	37	14	90437592	90437592	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TDP1	NM_018319	exon6	c.T733C	p.Y245H	.	.	49	4	69	0	.	92
TDRKH	11022	broad.mit.edu	37	1	151748710	151748710	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TDRKH	NM_001083965	exon8	c.T1079C	p.V360A	.	.	1266	8	231	1	.	92
TELO2	9894	hgsc.bcm.edu;bcgsc.ca	37	16	1551758	1551758	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TELO2	NM_016111	exon11	c.G1456C	p.D486H	.	.	37	12	49	0	.	90
TENC1	23371	mdanderson.org	37	12	53453115	53453115	+	Silent	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TENC1	NM_015319	exon18	c.C1720T	p.L574L	.	.	13	3	23	0	.	92
TENM4	26011	bcgsc.ca	37	11	78369861	78369861	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	NM_001098816	exon34	c.T7552C	p.S2518P	.	.	68	4	76	0	.	.
TMEM175	84286	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	944240	944240	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TMEM175	NM_032326	exon4	c.C224A	p.A75E	.	.	111	44	182	0	.	90
TMPPE	643853	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	33134374	33134374	+	Silent	SNP	C	C	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TMPPE	NM_001039770	exon2	c.G1314C	p.L438L	.	.	79	15	86	0	.	90
TNRC18	84629	bcgsc.ca	37	7	5396607	5396607	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TNRC18	NM_001080495	exon16	c.A5134G	p.R1712G	.	.	197	6	211	0	.	46
TOM1	10043	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	35717981	35717981	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TOM1	NM_001135732	exon3	c.A167G	p.K56R	.	.	71	24	104	0	.	91
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	7577120	7577120	+	Missense_Mutation	SNP	C	C	T	rs28934576		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	TP53,brain,glioma,-1	TP53	NM_000546	exon8	c.G818A	p.R273H	.	.	33	27	61	0	C|0.002;G|0.998	70225
TREM2	54209	broad.mit.edu;bcgsc.ca	37	6	41126794	41126794	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TREM2	NM_018965	exon4	c.G493A	p.E165K	.	.	112	8	142	0	.	91
TRIM13	10206	ucsc.edu;mdanderson.org	37	13	50592279	50592279	+	RNA	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TRIM13	.	.	.	.	.	.	95	69	284	0	.	228
TRIM54	57159	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	27528584	27528584	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TRIM54	NM_032546	exon6	c.G868C	p.G290R	.	.	79	33	100	0	.	227
TRMT44	152992	hgsc.bcm.edu;broad.mit.edu	37	4	8469838	8469838	+	Silent	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	NM_152544	exon9	c.C1692T	p.V564V	.	.	123	5	155	0	.	.
TRPM3	80036	bcgsc.ca	37	9	73235249	73235249	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TRPM3	NM_001007471	exon15	c.A1836G	p.T612T	.	.	238	10	338	0	.	521
TSC1	7248	broad.mit.edu	37	9	135778027	135778027	+	Nonsense_Mutation	SNP	G	G	A	rs118203682		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TSC1	NM_000368	exon18	c.C2356T	p.R786X	.	.	196	5	284	1	.	1906
TSKS	60385	bcgsc.ca	37	19	50249950	50249950	+	Missense_Mutation	SNP	C	C	T	rs76911687		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TSKS	NM_021733	exon6	c.G769A	p.E257K	.	.	12	0	32	1	.	154
TSPAN3	10099	bcgsc.ca	37	15	77339244	77339244	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TSPAN3	NM_005724	exon7	c.T695C	p.I232T	.	.	77	4	73	1	.	90
TTLL5	23093	bcgsc.ca	37	14	76286491	76286491	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TTLL5	NM_015072	exon28	c.T3313C	p.S1105P	.	.	63	4	123	0	.	92
TTN	7273	ucsc.edu;bcgsc.ca;mdanderson.org	37	2	179644160	179644160	+	Silent	SNP	T	T	C	rs2291308	byfrequency	TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TTN	NM_001267550	exon23	c.A3759G	p.R1253R	.	.	236	61	265	0	T|0.932;C|0.068	636
TUBA1C	84790	ucsc.edu	37	12	49666152	49666152	+	Silent	SNP	G	G	A	rs199599214	byfrequency	TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TUBA1C	NM_032704	exon4	c.G492A	p.K164K	.	.	280	12	422	34	G|0.998;A|0.002	90
TYRO3	7301	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	41865515	41865515	+	Silent	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	TYRO3	NM_006293	exon17	c.G1995A	p.E665E	.	.	62	12	115	0	.	1388
UBTF	7343	bcgsc.ca	37	17	42289759	42289759	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	UBTF	NM_014233	exon8	c.A724G	p.R242G	.	.	89	4	75	0	.	90
UNC13B	10497	bcgsc.ca	37	9	35381195	35381195	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	UNC13B	NM_006377	exon18	c.T2227C	p.Y743H	.	.	79	4	87	0	.	157
UPF2	26019	broad.mit.edu	37	10	11990489	11990489	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	UPF2	NM_080599	exon16	c.A3053G	p.D1018G	.	.	190	5	182	0	.	515
USH1C	10083	bcgsc.ca	37	11	17542443	17542443	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	USH1C	NM_153676	exon14	c.A1184C	p.H395P	.	.	238	41	285	14	.	91
USP44	84101	bcgsc.ca	37	12	95926881	95926881	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	USP44	NM_032147	exon2	c.A1152G	p.E384E	.	.	111	5	166	0	.	658
UTRN	7402	bcgsc.ca	37	6	144843286	144843286	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	UTRN	NM_007124	exon39	c.T5712C	p.S1904S	.	.	179	6	237	0	.	95
VPS13A	23230	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	9	79824389	79824389	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	VPS13A	NM_001018038	exon6	c.C436T	p.Q146X	.	.	233	127	332	0	.	161
VWA5B1	127731	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	20657389	20657389	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	NM_001039500	exon11	c.C1485A	p.N495K	.	.	145	81	204	0	.	.
WAPAL	23063	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	88206050	88206050	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	WAPAL	NM_015045	exon16	c.G3271A	p.E1091K	.	.	180	104	261	0	.	91
WIF1	11197	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	65448938	65448938	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	WIF1	NM_007191	exon9	c.C978G	p.C326W	.	.	95	24	149	0	.	1110
XIRP2	129446	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	168100239	168100239	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	XIRP2	NM_152381	exon9	c.G2337T	p.L779F	.	.	230	114	305	0	.	104
XRN2	22803	bcgsc.ca	37	20	21346337	21346337	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	XRN2	NM_012255	exon26	c.T2451C	p.T817T	.	.	232	6	218	0	.	515
ZBTB40	9923	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	22816452	22816452	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ZBTB40	NM_001083621	exon3	c.C11G	p.P4R	.	.	53	25	47	0	.	91
ZFHX4	79776	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	77618337	77618337	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ZFHX4	NM_024721	exon2	c.G2014A	p.G672S	.	.	52	8	96	0	.	98
ZFP64	55734	bcgsc.ca	37	20	50769374	50769374	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ZFP64	NM_018197	exon6	c.A1357G	p.S453G	.	.	131	5	140	1	.	155
ZFR2	23217	ucsc.edu	37	19	3810799	3810799	+	Silent	SNP	G	G	A	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ZFR2	NM_015174	exon16	c.C2382T	p.V794V	.	.	45	4	69	0	.	70
ZNF229	7772	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	44934591	44934591	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ZNF229	NM_014518	exon6	c.G365C	p.C122S	.	.	106	25	169	0	.	94
ZNF251	90987	bcgsc.ca	37	8	145948611	145948611	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ZNF251	NM_138367	exon5	c.A434G	p.E145G	.	.	86	5	150	0	.	68
ZNF470	388566	bcgsc.ca	37	19	57088922	57088922	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ZNF470	NM_001001668	exon6	c.A1125G	p.K375K	.	.	75	5	93	0	.	92
ZNF521	25925	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	22806650	22806650	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ZNF521	NM_015461	exon4	c.A1232G	p.N411S	.	.	197	112	275	2	.	275
ZNF544	27300	bcgsc.ca	37	19	58773328	58773328	+	Silent	SNP	T	T	C	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ZNF544	NM_014480	exon7	c.T1356C	p.I452I	.	.	89	6	155	0	.	91
ZNF570	148268	bcgsc.ca	37	19	37975721	37975721	+	Silent	SNP	A	A	G	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	ZNF570	NM_144694	exon5	c.A1197G	p.S399S	.	.	72	5	102	0	.	91
RP5-1051H14.1	0	bcgsc.ca	37	10	9765356	9765357	+	RNA	DNP	TC	TC	GA	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	TC	TC	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	.	.	.	.	.	.	.	.	.	.	.	
HGF	3082	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	81339555	81339556	+	Missense_Mutation	DNP	GG	GG	TT	novel		TCGA-BC-A217-01A-11D-A152-10	TCGA-BC-A217-10A-01D-A152-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	2bff30d5-be79-4686-8164-7a7d9619d3c0	b12f2a60-b900-4c83-9b9e-d1f6bbd469f9	.	.	.	.	.	p.P483Q	.	.	.	.	.	.	.	
