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
ACAD11	84129	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	132349391	132349391	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ACAD11	NM_032169	exon7	c.A853T	p.M285L	.	.	125	22	132	0	.	91
ACADS	35	bcgsc.ca	37	12	121164979	121164979	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ACADS	NM_000017	exon2	c.T197C	p.F66S	.	.	88	5	106	0	.	90
ACAN	176	bcgsc.ca	37	15	89385036	89385036	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ACAN	NM_001135	exon5	c.C695T	p.T232M	.	.	52	4	97	0	.	25
ADAMTS12	81792	bcgsc.ca	37	5	33577210	33577210	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ADAMTS12	NM_030955	exon19	c.A2921G	p.N974S	.	.	91	4	122	2	.	232
ADAMTS20	80070	bcgsc.ca	37	12	43777650	43777650	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ADAMTS20	NM_025003	exon30	c.A4583G	p.Q1528R	.	.	84	4	99	0	.	795
ADAMTS20	80070	broad.mit.edu	37	12	43822569	43822569	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ADAMTS20	NM_025003	exon25	c.C3523T	p.R1175C	.	.	159	5	179	1	.	795
AGK	55750	bcgsc.ca	37	7	141321563	141321563	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	AGK	NM_018238	exon9	c.A550G	p.K184E	.	.	101	4	191	0	.	290
AGMO	392636	bcgsc.ca	37	7	15601396	15601396	+	Silent	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	AGMO	NM_001004320	exon1	c.C75T	p.P25P	.	.	134	7	132	0	.	69
AHI1	54806	bcgsc.ca	37	6	135763794	135763794	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	AHI1	NM_001134832	exon13	c.T1838C	p.F613S	.	.	149	7	171	0	.	227
AKAP4	8852	bcgsc.ca	37	X	49959011	49959011	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	AKAP4	NM_003886	exon5	c.T353C	p.L118P	.	.	162	5	184	0	.	540
AKR1C3	8644	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	5144299	5144299	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	AKR1C3	NM_003739	exon6	c.T577C	p.C193R	.	.	155	60	206	1	.	515
AMER1	139285	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	63413037	63413037	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_152424	exon2	c.C130T	p.P44S	.	.	181	82	205	2	.	.
AMER3	205147	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	131521437	131521437	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_152698	exon2	c.G1792A	p.D598N	.	.	47	21	65	0	.	.
AMY2A	279	broad.mit.edu	37	1	104160105	104160105	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	AMY2A	NM_000699	exon1	c.G43A	p.A15T	.	.	1327	268	1067	1	.	92
ANXA3	306	bcgsc.ca	37	4	79525445	79525445	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ANXA3	NM_005139	exon12	c.T804C	p.D268D	.	.	69	5	82	0	.	90
AOX1	316	bcgsc.ca	37	2	201526321	201526321	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	AOX1	NM_001159	exon30	c.A3395G	p.E1132G	.	.	101	4	98	0	.	96
ARPC1A	10552	bcgsc.ca	37	7	98935830	98935830	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ARPC1A	NM_006409	exon3	c.G91A	p.E31K	.	.	189	6	241	1	.	91
ARX	170302	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	25033826	25033826	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ARX	NM_139058	exon1	c.G29C	p.C10S	.	.	361	83	341	0	.	130
ASB1	51665	ucsc.edu;bcgsc.ca	37	2	239353034	239353034	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ASB1	NM_001040445	exon4	c.T546C	p.P182P	.	.	36	4	63	0	.	226
ASXL1	171023	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	31023622	31023622	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ASXL1	NM_015338	exon12	c.A3107G	p.N1036S	.	.	49	21	53	0	.	2057
ASXL2	55252	bcgsc.ca	37	2	25990561	25990561	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ASXL2	NM_018263	exon7	c.A666G	p.T222T	.	.	76	4	103	0	.	23
ATF4	468	bcgsc.ca	37	22	39917641	39917641	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ATF4	NM_001675	exon1	c.T191C	p.V64A	.	.	63	6	76	0	.	90
ATG4C	84938	broad.mit.edu	37	1	63299786	63299786	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ATG4C	NM_178221	exon8	c.A1011G	p.Q337Q	.	.	200	5	140	0	.	91
ATP13A4	84239	bcgsc.ca	37	3	193210909	193210909	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ATP13A4	NM_032279	exon4	c.A422G	p.N141S	.	.	107	5	149	0	.	92
AUTS2	26053	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	70252291	70252291	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	AUTS2	NM_015570	exon18	c.C2405T	p.S802L	.	.	73	31	81	0	.	92
B3GNT2	10678	bcgsc.ca	37	2	62449936	62449936	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	B3GNT2	NM_006577	exon2	c.T581C	p.L194P	.	.	66	5	76	1	.	23
BCORL1	63035	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	129159156	129159156	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	BCORL1	NM_021946	exon6	c.C3880T	p.H1294Y	.	.	109	35	134	1	.	294
BIRC6	57448	bcgsc.ca	37	2	32658785	32658785	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	BIRC6	NM_016252	exon13	c.T3322C	p.F1108L	.	.	248	6	256	0	.	233
BMX	660	bcgsc.ca	37	X	15555350	15555350	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	BMX	NM_001721	exon14	c.A1316G	p.Q439R	.	.	168	5	180	1	.	541
BNC2	54796	bcgsc.ca	37	9	16437219	16437219	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	BNC2	NM_017637	exon6	c.T973C	p.F325L	.	.	227	7	235	0	.	92
BRD2	6046	bcgsc.ca	37	6	32944552	32944552	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	BRD2	NM_005104	exon7	c.T1039C	p.S347P	.	.	101	4	99	0	.	398
C10orf137	26098	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	127426555	127426555	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	C10orf137	NM_001202438	exon14	c.A1827G	p.L609L	.	.	246	87	284	0	.	590
C2orf73	129852	broad.mit.edu	37	2	54562130	54562130	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_001100396	exon2	c.A203G	p.Y68C	.	.	428	8	420	2	.	.
CA4	762	ucsc.edu;bcgsc.ca	37	17	58235786	58235786	+	Silent	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CA4	NM_000717	exon7	c.C723T	p.P241P	.	.	33	4	22	0	.	226
CACNA1F	778	bcgsc.ca	37	X	49076224	49076224	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CACNA1F	NM_005183	exon20	c.A2445G	p.E815E	.	.	57	4	63	0	.	176
CAMTA2	23125	bcgsc.ca	37	17	4882993	4882993	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CAMTA2	NM_001171167	exon9	c.T1693C	p.W565R	.	.	35	4	50	0	.	91
CCDC155	147872	ucsc.edu;bcgsc.ca	37	19	49901246	49901246	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CCDC155	NM_144688	exon7	c.A475G	p.T159A	.	.	56	5	50	0	.	69
CCDC47	57003	bcgsc.ca	37	17	61830112	61830112	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CCDC47	NM_020198	exon10	c.T1082C	p.F361S	.	.	81	5	102	0	.	90
CCDC96	257236	ucsc.edu;bcgsc.ca	37	4	7043800	7043800	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CCDC96	NM_153376	exon1	c.G866A	p.G289D	.	.	48	4	62	0	.	90
CCND1	595	bcgsc.ca	37	11	69462837	69462837	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CCND1	NM_053056	exon4	c.T650C	p.L217P	.	.	51	4	39	0	.	1270
CCNT2	905	bcgsc.ca	37	2	135696634	135696634	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CCNT2	NM_001241	exon4	c.430+2T>C	.	.	.	90	4	137	0	.	417
CD109	135228	bcgsc.ca	37	6	74519828	74519828	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CD109	NM_133493	exon27	c.T3477C	p.S1159S	.	.	141	5	145	0	.	155
CDCA7	83879	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	174224139	174224139	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CDCA7	NM_031942	exon3	c.G304A	p.E102K	.	.	210	64	177	1	.	91
CDH18	1016	bcgsc.ca	37	5	19503168	19503168	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CDH18	NM_001167667	exon11	c.A1563G	p.P521P	.	.	94	5	100	0	.	159
CDK5	1020	bcgsc.ca	37	7	150753668	150753668	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CDK5	NM_001164410	exon5	c.A311G	p.K104R	.	.	101	5	106	0	.	546
CECR1	51816	bcgsc.ca	37	22	17688161	17688161	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CECR1	NM_017424	exon2	c.T342C	p.H114H	.	.	52	4	69	0	.	91
CENPF	1063	bcgsc.ca	37	1	214816555	214816555	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CENPF	NM_016343	exon12	c.C4874T	p.A1625V	.	.	100	5	73	0	.	567
CEP128	145508	bcgsc.ca	37	14	81304575	81304575	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CEP128	NM_152446	exon10	c.A897G	p.E299E	.	.	81	4	80	0	.	91
CEP152	22995	bcgsc.ca	37	15	49081171	49081171	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CEP152	NM_014985	exon9	c.A1000G	p.M334V	.	.	118	5	130	0	.	70
CFH	3075	broad.mit.edu;bcgsc.ca	37	1	196716375	196716375	+	Missense_Mutation	SNP	C	C	T	rs121913059	bycluster	TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CFH	NM_000186	exon22	c.C3628T	p.R1210C	.	.	1208	52	816	1	C|1.000;T|0.000	566
CHGA	1113	bcgsc.ca	37	14	93401150	93401150	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CHGA	NM_001275	exon8	c.A1295G	p.Q432R	.	.	73	5	66	0	.	516
CHIC1	53344	bcgsc.ca	37	X	72900797	72900797	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CHIC1	NM_001039840	exon6	c.T632C	p.L211P	.	.	94	4	119	0	.	130
CHRM2	1129	bcgsc.ca	37	7	136699745	136699745	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CHRM2	NM_001006632	exon3	c.A133G	p.M45V	.	.	126	5	205	0	.	94
CLK2P	1197	bcgsc.ca	37	7	23625364	23625364	+	RNA	SNP	G	G	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	.	.	.	.	.	.	155	7	192	0	.	.
CNTN1	1272	bcgsc.ca	37	12	41330667	41330667	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CNTN1	NM_001256063	exon10	c.A1070G	p.K357R	.	.	120	5	168	0	.	1149
CNTN1	1272	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	41410483	41410483	+	Splice_Site	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CNTN1	NM_001843	exon19	c.2185-1G>A	.	.	.	125	57	126	0	.	1149
CNTRL	11064	ucsc.edu;bcgsc.ca	37	9	123931905	123931905	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CNTRL	NM_007018	exon37	c.A6087G	p.E2029E	.	.	46	4	74	0	.	661
COL4A2	1284	bcgsc.ca	37	13	111121584	111121584	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	COL4A2	NM_001846	exon28	c.A2116G	p.I706V	.	.	106	5	119	0	.	95
COL4A3BP	10087	bcgsc.ca	37	5	74685432	74685432	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	COL4A3BP	NM_001130105	exon13	c.A1653G	p.E551E	.	.	56	4	95	0	.	226
COL6A3	1293	ucsc.edu;bcgsc.ca	37	2	238255185	238255185	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	COL6A3	NM_004369	exon32	c.A7053G	p.I2351M	.	.	47	4	83	0	.	526
CSMD3	114788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	113421218	113421218	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CSMD3	NM_198123	exon33	c.T5439A	p.D1813E	.	.	134	58	160	0	.	1132
CTSC	1075	bcgsc.ca	37	11	88029305	88029305	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CTSC	NM_001814	exon6	c.T885C	p.A295A	.	.	122	6	146	0	.	90
CYB5R2	51700	broad.mit.edu	37	11	7690899	7690899	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	CYB5R2	NM_016229	exon4	c.T215C	p.V72A	.	.	68	5	65	0	.	90
CYTB	0	broad.mit.edu	37	MT	15623	15623	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	ENST00000361789	exon1	c.G877A	p.A293T	.	.	282	10	1284	1	.	.
CYTB	0	broad.mit.edu;bcgsc.ca	37	MT	15719	15719	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	ENST00000361789	exon1	c.T973C	p.Y325H	.	.	283	254	1299	2	.	.
DCAF4	26094	ucsc.edu	37	14	73425479	73425479	+	Missense_Mutation	SNP	T	T	C	rs74920642	alternate_allele	TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	DCAF4	NM_015604	exon14	c.T1454C	p.V485A	.	.	31	4	23	0	.	92
DCLRE1A	9937	bcgsc.ca	37	10	115594955	115594955	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	DCLRE1A	NM_014881	exon9	c.A3079G	p.M1027V	.	.	165	5	194	1	.	228
DDB2	1643	bcgsc.ca	37	11	47259709	47259709	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	DDB2	NM_000107	exon9	c.G1209A	p.M403I	.	.	72	4	113	0	.	971
DDI1	414301	bcgsc.ca	37	11	103908304	103908304	+	Missense_Mutation	SNP	G	G	A	rs115459617	by1000genomes;alternate_allele	TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	DDI1	NM_001001711	exon1	c.G754A	p.G252R	.	.	99	5	138	0	G|0.995;C|0.005	137
DDR2	4921	bcgsc.ca	37	1	162737140	162737140	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	DDR2	NM_001014796	exon12	c.G1284A	p.M428I	.	.	186	7	149	0	.	1464
DDX60	55601	bcgsc.ca	37	4	169189014	169189014	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	DDX60	NM_017631	exon21	c.A2907G	p.K969K	.	.	156	5	220	0	.	25
DIDO1	11083	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	61528282	61528282	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	DIDO1	NM_080797	exon7	c.C1655T	p.P552L	.	.	84	29	93	0	.	96
DKC1	1736	bcgsc.ca	37	X	154002936	154002936	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	DKC1	NM_001363	exon12	c.A1215G	p.T405T	.	.	153	6	155	0	.	227
DKK2	27123	bcgsc.ca	37	4	107845135	107845135	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	DKK2	NM_014421	exon4	c.A756G	p.R252R	.	.	90	4	123	2	.	661
DNAH17	8632	bcgsc.ca	37	17	76566366	76566366	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	DNAH17	NM_173628	exon7	c.T1007C	p.V336A	.	.	66	5	61	0	.	142
DNAH5	1767	bcgsc.ca	37	5	13911553	13911553	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	DNAH5	NM_001369	exon12	c.G1586A	p.R529Q	.	.	154	5	168	0	.	182
DNAL1	83544	bcgsc.ca	37	14	74156149	74156149	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_031427	exon7	c.A463G	p.K155E	.	.	141	5	168	0	.	.
DSP	1832	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	7583427	7583427	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	DSP	NM_004415	exon24	c.A5932G	p.M1978V	.	.	126	56	132	1	.	518
DTNB	1838	bcgsc.ca;mdanderson.org	37	2	25611083	25611083	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	DTNB	NM_021907	exon17	c.G1723A	p.A575T	.	.	22	12	33	1	.	137
E2F8	79733	broad.mit.edu;ucsc.edu;mdanderson.org	37	11	19251120	19251120	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	E2F8	NM_024680	exon10	c.A1774T	p.K592X	.	.	141	63	190	1	.	91
ECE1	1889	bcgsc.ca	37	1	21571542	21571542	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ECE1	NM_001397	exon10	c.T1218C	p.L406L	.	.	74	6	60	0	.	93
EHHADH	1962	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	184911175	184911175	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	EHHADH	NM_001966	exon7	c.C1011A	p.N337K	.	.	108	33	166	0	.	93
ELTD1	64123	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	79403615	79403615	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ELTD1	NM_022159	exon6	c.T637A	p.L213I	.	.	371	114	296	0	.	24
EOGT	285203	bcgsc.ca	37	3	69057634	69057634	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_173654	exon5	c.T256C	p.C86R	.	.	101	4	120	0	.	.
EPG5	57724	bcgsc.ca	37	18	43502447	43502447	+	Silent	SNP	C	C	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	EPG5	NM_020964	exon16	c.G2958T	p.P986P	.	.	52	4	113	0	.	580
EPHA4	2043	bcgsc.ca	37	2	222291231	222291231	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	EPHA4	NM_004438	exon16	c.A2799G	p.T933T	.	.	59	4	75	0	.	1441
EPHA6	285220	bcgsc.ca	37	3	96945169	96945169	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	EPHA6	NM_001080448	exon4	c.A1176G	p.P392P	.	.	79	4	84	0	.	1561
EPPK1	83481	bcgsc.ca	37	8	144941570	144941570	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	EPPK1	NM_031308	exon1	c.T5852C	p.V1951A	.	.	58	4	67	0	.	25
ERBB3	2065	bcgsc.ca	37	12	56492311	56492311	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ERBB3	NM_001982	exon22	c.A2644G	p.S882G	.	.	84	5	76	0	.	1403
EYA2	2139	ucsc.edu;bcgsc.ca	37	20	45702937	45702937	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	EYA2	NM_172110	exon7	c.T624C	p.S208S	.	.	47	4	65	0	.	523
FAM160A1	729830	bcgsc.ca	37	4	152570877	152570877	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_001109977	exon11	c.A1684G	p.T562A	.	.	41	5	44	0	.	.
FAM182B	728882	bcgsc.ca;mdanderson.org	37	20	25755549	25755549	+	RNA	SNP	C	C	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	.	.	.	.	.	.	20	4	30	0	.	.
FAM188A	80013	bcgsc.ca	37	10	15875645	15875645	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	FAM188A	NM_024948	exon8	c.A714G	p.R238R	.	.	300	7	326	0	.	228
FBXL19	54620	bcgsc.ca	37	16	30938662	30938662	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	FBXL19	NM_001099784	exon3	c.T271C	p.C91R	.	.	78	4	110	1	.	661
FBXO2	26232	broad.mit.edu	37	1	11710623	11710623	+	Silent	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	FBXO2	NM_012168	exon2	c.G291A	p.L97L	.	.	22	4	18	0	.	226
FBXO7	25793	broad.mit.edu;bcgsc.ca	37	22	32875110	32875110	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	FBXO7	NM_012179	exon2	c.T265C	p.S89P	.	.	174	5	195	0	.	228
FCGBP	8857	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	19	40360959	40360959	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	FCGBP	NM_003890	exon33	c.G15449A	p.R5150H	.	.	47	18	68	0	.	98
FCGBP	8857	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	40360958	40360958	+	Silent	SNP	G	G	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	FCGBP	NM_003890	exon33	c.C15450A	p.R5150R	.	.	47	19	69	0	.	98
FGD3	89846	bcgsc.ca	37	9	95796869	95796869	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	FGD3	NM_001083536	exon17	c.T1832C	p.L611P	.	.	80	4	101	0	.	228
FGR	2268	bcgsc.ca	37	1	27948072	27948072	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	FGR	NM_001042729	exon5	c.A426G	p.E142E	.	.	98	5	95	0	.	547
FPR3	2359	bcgsc.ca	37	19	52327297	52327297	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	FPR3	NM_002030	exon2	c.A296G	p.K99R	.	.	148	6	153	0	.	501
FRG1	2483	bcgsc.ca	37	4	190876283	190876283	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	FRG1	NM_004477	exon5	c.C409A	p.Q137K	.	.	483	21	513	10	.	90
GABRG3	2567	bcgsc.ca	37	15	27725854	27725854	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_001270873	exon6	c.T633C	p.A211A	.	.	81	4	108	0	.	.
GALNT13	114805	bcgsc.ca	37	2	154801087	154801087	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	GALNT13	NM_052917	exon3	c.T77C	p.L26P	.	.	192	8	214	2	.	95
GCNT3	9245	ucsc.edu;bcgsc.ca	37	15	59911038	59911038	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	GCNT3	NM_004751	exon3	c.T601C	p.S201P	.	.	48	4	50	0	.	91
GLT8D2	83468	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	104396997	104396997	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	GLT8D2	NM_031302	exon5	c.C200T	p.A67V	.	.	145	56	154	1	.	92
GPN2	54707	bcgsc.ca	37	1	27206226	27206226	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	GPN2	NM_018066	exon5	c.A875G	p.Q292R	.	.	133	6	168	1	.	90
GPR12	2835	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	27332981	27332981	+	Silent	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	GPR12	NM_005288	exon2	c.G984A	p.A328A	.	.	86	30	107	0	.	90
GRIN2B	2904	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	13716219	13716219	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	GRIN2B	NM_000834	exon13	c.C3953G	p.A1318G	.	.	186	93	184	0	.	231
GRM8	2918	bcgsc.ca	37	7	126086229	126086229	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	GRM8	NM_000845	exon9	c.A2628G	p.R876R	.	.	128	5	235	2	.	581
GTF3C6	112495	bcgsc.ca	37	6	111283703	111283703	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	GTF3C6	NM_138408	exon5	c.A356G	p.N119S	.	.	210	6	280	0	.	68
HAUS3	79441	bcgsc.ca	37	4	2242579	2242579	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	HAUS3	NM_024511	exon2	c.A95G	p.E32G	.	.	61	4	89	1	.	138
HBS1L	10767	bcgsc.ca	37	6	135359107	135359107	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	HBS1L	NM_001145207	exon5	c.A488G	p.Q163R	.	.	110	4	157	1	.	92
HECTD1	25831	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	31597908	31597908	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	HECTD1	NM_015382	exon25	c.C4669T	p.R1557W	.	.	234	97	276	1	.	570
HECTD2	143279	bcgsc.ca	37	10	93242811	93242811	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	HECTD2	NM_182765	exon8	c.T799C	p.F267L	.	.	72	4	43	0	.	658
HERC6	55008	bcgsc.ca	37	4	89304468	89304468	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	HERC6	NM_017912	exon2	c.T295C	p.W99R	.	.	85	6	109	1	.	658
HIST1H2AG	8969	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	27101166	27101166	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	HIST1H2AG	NM_021064	exon1	c.G316T	p.G106C	.	.	134	53	186	0	.	68
HMGCLL1	54511	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	55360266	55360266	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	HMGCLL1	NM_019036	exon8	c.G836C	p.C279S	.	.	160	64	203	0	.	94
HNRNPL	3191	hgsc.bcm.edu	37	19	39330868	39330869	+	In_Frame_Ins	INS	-	-	GGG	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	HNRNPL	NM_001533	exon8	c.1101_1102insCCC	p.P367delinsPP	.	.	61	14	86	0	.	22
HRH2	3274	mdanderson.org	37	5	175111106	175111106	+	Silent	SNP	G	G	A	rs137993607		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	HRH2	NM_001131055	exon2	c.G870A	p.A290A	.	.	54	14	49	2	G|1.000;A|0.000	91
HSD17B4	3295	bcgsc.ca	37	5	118814695	118814695	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	HSD17B4	NM_001199291	exon9	c.A676G	p.T226A	.	.	64	4	50	1	.	92
IBSP	3381	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	88732600	88732600	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	IBSP	NM_004967	exon7	c.A492T	p.E164D	.	.	151	53	197	0	.	90
ICAM3	3385	bcgsc.ca	37	19	10450284	10450284	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ICAM3	NM_002162	exon1	c.A7G	p.T3A	.	.	21	3	27	0	.	131
IDS	3423	ucsc.edu;bcgsc.ca	37	X	148578000	148578000	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	IDS	NM_006123	exon6	c.T756C	p.D252D	.	.	52	5	58	0	.	130
IFT43	112752	bcgsc.ca	37	14	76488672	76488672	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	IFT43	NM_001102564	exon3	c.T150C	p.T50T	.	.	148	5	161	0	.	90
IGF2BP1	10642	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	47117454	47117454	+	Splice_Site	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	IGF2BP1	NM_006546	exon7	c.818+1G>A	.	.	.	61	24	85	0	.	226
IGLL3P	91353	ucsc.edu	37	22	25716067	25716067	+	RNA	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	IGLL3P	.	.	.	.	.	.	51	5	57	0	.	91
IL17RD	54756	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	57154328	57154328	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	IL17RD	NM_017563	exon2	c.C140T	p.A47V	.	.	95	31	85	0	.	500
IL22	50616	bcgsc.ca	37	12	68647194	68647194	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	IL22	NM_020525	exon1	c.T35C	p.L12P	.	.	85	5	77	0	.	90
IMPG2	50939	bcgsc.ca	37	3	100949845	100949845	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	IMPG2	NM_016247	exon16	c.T3378C	p.T1126T	.	.	73	4	57	0	.	93
IQGAP1	8826	bcgsc.ca	37	15	91020384	91020384	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	IQGAP1	NM_003870	exon25	c.T3026C	p.L1009P	.	.	70	4	132	0	.	950
ITGA10	8515	hgsc.bcm.edu;mdanderson.org	37	1	145532146	145532146	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ITGA10	NM_003637	exon8	c.C790T	p.R264X	.	.	62	14	51	0	.	231
ITPR3	3710	bcgsc.ca	37	6	33651924	33651924	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ITPR3	NM_002224	exon36	c.A4916G	p.E1639G	.	.	34	4	36	0	.	1085
KANK2	25959	ucsc.edu	37	19	11304128	11304128	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	KANK2	NM_015493	exon2	c.C628T	p.P210S	.	.	46	4	30	0	.	68
KIAA1109	84162	bcgsc.ca	37	4	123268931	123268931	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	KIAA1109	NM_015312	exon74	c.A13126G	p.R4376G	.	.	82	5	75	0	.	80
KIAA1244	57221	bcgsc.ca	37	6	138531173	138531173	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	KIAA1244	NM_020340	exon4	c.A346G	p.M116V	.	.	92	5	124	1	.	228
KIAA1324L	222223	bcgsc.ca	37	7	86554850	86554850	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	KIAA1324L	NM_001142749	exon10	c.A1393G	p.M465V	.	.	60	4	68	0	.	97
KIDINS220	57498	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	8871250	8871250	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	KIDINS220	NM_020738	exon30	c.T4916C	p.I1639T	.	.	98	48	146	2	.	93
KLHL30	377007	bcgsc.ca	37	2	239056628	239056628	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	KLHL30	NM_198582	exon6	c.A1304G	p.N435S	.	.	29	4	60	0	.	22
KLHL41	10324	bcgsc.ca	37	2	170366424	170366424	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_006063	exon1	c.T136C	p.C46R	.	.	79	4	101	0	.	.
KLK11	11012	bcgsc.ca	37	19	51528033	51528033	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	KLK11	NM_144947	exon3	c.A154G	p.T52A	.	.	40	4	62	0	.	650
KLK12	43849	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	19	51535232	51535232	+	Silent	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	KLK12	NM_019598	exon4	c.C357T	p.R119R	.	.	32	15	15	0	.	227
KRTAP9-3	83900	broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	39389083	39389083	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	KRTAP9-3	NM_031962	exon1	c.T330A	p.S110R	.	.	116	44	179	2	.	91
LAMC1	3915	bcgsc.ca	37	1	183109542	183109542	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	LAMC1	NM_002293	exon27	c.T4477C	p.S1493P	.	.	72	5	44	0	.	252
LAP3	51056	bcgsc.ca	37	4	17585253	17585253	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	LAP3	NM_015907	exon5	c.A527G	p.K176R	.	.	99	5	129	0	.	90
LCP1	3936	bcgsc.ca	37	13	46725192	46725192	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	LCP1	NM_002298	exon8	c.A761G	p.E254G	.	.	56	4	71	0	.	685
LDHA	3939	bcgsc.ca	37	11	18421016	18421016	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	LDHA	NM_001165414	exon3	c.A252G	p.E84E	.	.	141	6	179	0	.	650
LINC00294	283267	ucsc.edu	37	11	33097739	33097739	+	RNA	SNP	G	G	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	.	.	.	.	.	.	25	14	44	0	.	.
LIPH	200879	bcgsc.ca	37	3	185252673	185252673	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	LIPH	NM_139248	exon2	c.A297G	p.E99E	.	.	174	6	199	2	.	92
LRP2	4036	bcgsc.ca	37	2	169996119	169996119	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	LRP2	NM_004525	exon73	c.T13201C	p.C4401R	.	.	105	5	115	0	.	175
LRRC30	339291	ucsc.edu	37	18	7231420	7231420	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	LRRC30	NM_001105581	exon1	c.G284T	p.R95L	.	.	43	4	60	0	.	24
MAN2A2	4122	bcgsc.ca	37	15	91449625	91449625	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MAN2A2	NM_006122	exon5	c.A733G	p.I245V	.	.	77	4	134	0	.	136
MANBA	4126	bcgsc.ca	37	4	103560871	103560871	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MANBA	NM_005908	exon14	c.T2013C	p.L671L	.	.	73	4	105	0	.	91
MAP1B	4131	ucsc.edu;bcgsc.ca	37	5	71499617	71499617	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MAP1B	NM_005909	exon6	c.A7240G	p.S2414G	.	.	44	4	68	0	.	155
MAP3K4	4216	bcgsc.ca	37	6	161522936	161522936	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MAP3K4	NM_005922	exon18	c.T3687C	p.V1229V	.	.	69	4	67	0	.	548
MAP4	4134	bcgsc.ca	37	3	47913522	47913522	+	Silent	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MAP4	NM_001134364	exon11	c.C2391T	p.S797S	.	.	64	4	49	0	.	93
MAPT	4137	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	44051811	44051811	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MAPT	NM_005910	exon4	c.A281G	p.H94R	.	.	38	19	43	0	.	91
MB	4151	bcgsc.ca	37	22	36013262	36013262	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MB	NM_203377	exon2	c.T43C	p.W15R	.	.	65	5	74	0	.	90
MED23	9439	ucsc.edu;bcgsc.ca	37	6	131946047	131946047	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MED23	NM_015979	exon4	c.A242G	p.D81G	.	.	48	4	55	0	.	24
MFN1	55669	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	179103488	179103488	+	Silent	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MFN1	NM_033540	exon15	c.C1794T	p.G598G	.	.	132	46	113	1	.	155
MIP	4284	ucsc.edu;bcgsc.ca	37	12	56845248	56845248	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MIP	NM_012064	exon4	c.T608C	p.V203A	.	.	44	4	80	0	.	91
MIR563	693148	bcgsc.ca	37	3	15915298	15915298	+	RNA	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	.	.	.	.	.	.	137	5	145	2	.	.
MLL4	8085	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	36228046	36228046	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MLL4	NM_014727	exon33	c.C7432A	p.Q2478K	.	.	28	9	47	0	.	697
MPDZ	8777	bcgsc.ca	37	9	13108986	13108986	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MPDZ	NM_003829	exon45	c.T5928C	p.Y1976Y	.	.	68	5	73	0	.	231
MTNR1A	4543	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	187455191	187455191	+	Silent	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MTNR1A	NM_005958	exon2	c.G705A	p.R235R	.	.	192	47	162	0	.	524
MTOR	2475	bcgsc.ca	37	1	11181340	11181340	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MTOR	NM_004958	exon49	c.T6896C	p.L2299P	.	.	79	4	81	0	.	1439
MYC	4609	bcgsc.ca	37	8	128753065	128753065	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MYC	NM_002467	exon3	c.T1226C	p.V409A	.	.	67	4	85	0	.	2002
MYH1	4619	broad.mit.edu	37	17	10399327	10399327	+	Silent	SNP	C	C	T	rs149731873	byfrequency	TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MYH1	NM_005963	exon35	c.G5109A	p.R1703R	.	.	111	9	94	0	C|1.000;T|0.000	171
MYH1	4619	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	10404040	10404040	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MYH1	NM_005963	exon28	c.A3768G	p.L1256L	.	.	108	25	114	0	.	171
MYO18B	84700	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	26294307	26294307	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	MYO18B,colon,carcinoma,-1	MYO18B	NM_032608	exon29	c.A4702G	p.K1568E	.	.	78	34	77	0	.	142
MYO1E	4643	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	59450529	59450529	+	Silent	SNP	A	A	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MYO1E	NM_004998	exon25	c.T2835G	p.T945T	.	.	165	81	209	0	.	514
MYOF	26509	bcgsc.ca	37	10	95134650	95134650	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MYOF	NM_013451	exon23	c.A2171G	p.K724R	.	.	141	7	133	0	.	93
MYPN	84665	bcgsc.ca	37	10	69921504	69921504	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	MYPN	NM_001256267	exon9	c.A1478G	p.E493G	.	.	148	5	153	1	.	95
NAA15	80155	bcgsc.ca	37	4	140265463	140265463	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	NAA15	NM_057175	exon6	c.T661C	p.C221R	.	.	163	5	172	0	.	92
NBPF3	84224	broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	21808194	21808194	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	NBPF3	NM_032264	exon13	c.G1538C	p.R513T	.	.	385	84	502	0	.	92
NCAM2	4685	ucsc.edu;bcgsc.ca;mdanderson.org	37	21	22804446	22804446	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	NCAM2	NM_004540	exon12	c.A1499C	p.Y500S	.	.	197	65	216	2	.	94
NELFB	25920	bcgsc.ca	37	9	140167245	140167245	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_015456	exon13	c.A1608G	p.A536A	.	.	66	4	79	0	.	.
NLK	51701	bcgsc.ca	37	17	26518215	26518215	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	NLK	NM_016231	exon9	c.A1405G	p.K469E	.	.	131	5	96	1	.	1403
NLRP8	126205	bcgsc.ca	37	19	56466900	56466900	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	NLRP8	NM_176811	exon3	c.T1476C	p.I492I	.	.	90	4	101	0	.	361
NMB	4828	ucsc.edu;bcgsc.ca	37	15	85198626	85198626	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	NMB	NM_205858	exon3	c.G340T	p.G114C	.	.	43	4	100	1	.	90
NOSTRIN	115677	bcgsc.ca	37	2	169684966	169684966	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	NOSTRIN	NM_001039724	exon5	c.A297G	p.K99K	.	.	170	6	213	0	.	90
NTN4	59277	bcgsc.ca	37	12	96180989	96180989	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	NTN4	NM_021229	exon2	c.T313A	p.W105R	.	.	46	7	84	0	.	92
NXF3	56000	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	102335094	102335094	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	NXF3	NM_022052	exon11	c.G978T	p.K326N	.	.	88	37	76	0	.	205
NYNRIN	57523	bcgsc.ca	37	14	24868509	24868509	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	NYNRIN	NM_025081	exon2	c.A57G	p.K19K	.	.	53	4	57	0	.	3
OR5M11	219487	bcgsc.ca	37	11	56310030	56310030	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_001005245	exon1	c.A704G	p.K235R	.	.	53	4	64	1	.	.
ORC3	23595	bcgsc.ca	37	6	88344614	88344614	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ORC3	NM_181837	exon12	c.T1237C	p.F413L	.	.	134	7	149	0	.	206
OTOGL	283310	bcgsc.ca	37	12	80735768	80735768	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_173591	exon43	c.A5064G	p.Q1688Q	.	.	135	5	138	0	.	.
PABPC1	26986	bcgsc.ca	37	8	101730010	101730010	+	Missense_Mutation	SNP	T	T	C	rs201501488	byfrequency	TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PABPC1	NM_002568	exon3	c.A494G	p.D165G	.	.	161	13	310	5	T|0.984;C|0.016	68
PALLD	23022	bcgsc.ca	37	4	169612427	169612427	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PALLD	NM_001166108	exon8	c.A1485G	p.R495R	.	.	152	6	168	3	.	94
PC	5091	ucsc.edu;bcgsc.ca	37	11	66633672	66633672	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PC	NM_000920	exon10	c.A1171G	p.T391A	.	.	36	5	42	1	.	228
PCDH18	54510	bcgsc.ca	37	4	138451057	138451057	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PCDH18	NM_019035	exon1	c.A2186G	p.K729R	.	.	167	5	212	1	.	185
PDZD3	79849	ucsc.edu;bcgsc.ca	37	11	119058404	119058404	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PDZD3	NM_001168468	exon6	c.A652G	p.R218G	.	.	23	4	39	0	.	153
PEBP1	5037	ucsc.edu;bcgsc.ca	37	12	118575893	118575893	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PEBP1	NM_002567	exon2	c.A185G	p.K62R	.	.	31	4	50	0	.	779
PER3	8863	ucsc.edu	37	1	7890053	7890053	+	Missense_Mutation	SNP	G	G	A	rs1776342	byfrequency	TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PER3	NM_016831	exon18	c.G3019A	p.A1007T	.	.	95	17	95	1	G|0.998;A|0.002	93
PGPEP1L	145814	ucsc.edu;bcgsc.ca	37	15	99512659	99512659	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_001102612	exon4	c.A366G	p.A122A	.	.	26	4	59	0	.	.
PHYHIPL	84457	bcgsc.ca	37	10	61005239	61005239	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PHYHIPL	NM_032439	exon5	c.T1019C	p.L340P	.	.	130	5	153	0	.	90
PIK3R4	30849	bcgsc.ca	37	3	130435323	130435323	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PIK3R4	NM_014602	exon9	c.A2248G	p.K750E	.	.	85	4	97	0	.	1471
PIP5K1P1	206426	ucsc.edu	37	6	7988471	7988471	+	RNA	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	.	.	.	.	.	.	10	4	16	0	.	.
PIWIL1	9271	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	130834407	130834407	+	Silent	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PIWIL1	NM_004764	exon9	c.C939T	p.N313N	.	.	66	33	101	0	.	92
PKHD1	5314	bcgsc.ca	37	6	51611664	51611664	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PKHD1	NM_170724	exon59	c.A9853G	p.K3285E	.	.	152	6	200	1	.	603
PLSCR5	389158	bcgsc.ca	37	3	146318240	146318240	+	Silent	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_001085420	exon2	c.C24T	p.N8N	.	.	66	4	82	0	.	.
PMS2P5	5383	ucsc.edu	37	7	74306962	74306962	+	RNA	SNP	G	G	C	rs201591143	byfrequency	TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PMS2P5	.	.	.	.	.	.	37	8	34	3	G|0.970;C|0.030	63
POLQ	10721	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	121158902	121158903	+	Frame_Shift_Del	DEL	GG	GG	-	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	POLQ	NM_199420	exon27	c.7325_7326del	p.2442_2442del	.	.	61	23	65	0	.	664
PRKDC	5591	broad.mit.edu;ucsc.edu;bcgsc.ca	37	8	48856412	48856412	+	Splice_Site	SNP	C	C	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PRKDC	NM_001081640	exon10	c.808+1G>T	.	.	.	129	57	166	2	.	1515
PROKR2	128674	ucsc.edu	37	20	5283003	5283003	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PROKR2	NM_144773	exon2	c.A838G	p.I280V	.	.	50	4	81	1	.	94
PSAT1	29968	bcgsc.ca	37	9	80919692	80919692	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PSAT1	NM_021154	exon4	c.G233A	p.G78D	.	.	95	5	113	0	.	91
PSTK	118672	bcgsc.ca	37	10	124742413	124742413	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	PSTK	NM_153336	exon2	c.A381G	p.A127A	.	.	152	5	239	0	.	91
PTBP3	9991	bcgsc.ca	37	9	114986448	114986448	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_001244898	exon13	c.A1509G	p.E503E	.	.	95	4	101	0	.	.
PTPRQ	374462	bcgsc.ca	37	12	80889138	80889138	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_001145026	exon9	c.T1354C	p.F452L	.	.	158	6	158	1	.	.
QSER1	79832	broad.mit.edu;bcgsc.ca	37	11	32987853	32987853	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	QSER1	NM_001076786	exon9	c.A4590G	p.E1530E	.	.	95	7	111	2	.	95
RAB18	22931	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	10	27826828	27826828	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RAB18	NM_001256410	exon8	c.G556A	p.G186S	.	.	81	31	96	0	.	227
RAB3GAP2	25782	bcgsc.ca	37	1	220359006	220359006	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RAB3GAP2	NM_012414	exon18	c.T1857C	p.T619T	.	.	94	4	57	0	.	90
RAD23A	5886	ucsc.edu	37	19	13063546	13063546	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RAD23A	NM_005053	exon8	c.A857G	p.E286G	.	.	43	4	49	0	.	227
RALGAPA1	253959	bcgsc.ca	37	14	36128378	36128378	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RALGAPA1	NM_194301	exon27	c.A3835G	p.S1279G	.	.	48	4	52	0	.	138
RARB	5915	bcgsc.ca	37	3	25611252	25611252	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RARB	NM_000965	exon4	c.T452C	p.V151A	.	.	34	4	33	0	.	870
RASAL2	9462	bcgsc.ca	37	1	178410702	178410702	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RASAL2	NM_170692	exon7	c.A847G	p.S283G	.	.	282	7	231	0	.	155
RASGRF2	5924	ucsc.edu;bcgsc.ca	37	5	80503111	80503111	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RASGRF2	NM_006909	exon21	c.A3014G	p.E1005G	.	.	52	4	56	0	.	725
RBMS2	5939	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	56975266	56975266	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RBMS2	NM_002898	exon7	c.C706T	p.R236W	.	.	45	21	39	0	.	90
RCE1	9986	bcgsc.ca	37	11	66613014	66613014	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RCE1	NM_005133	exon7	c.T735C	p.A245A	.	.	128	7	115	0	.	290
RIMS2	9699	bcgsc.ca	37	8	104831822	104831822	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RIMS2	NM_014677	exon1	c.A87G	p.Q29Q	.	.	124	5	108	0	.	279
RIPK2	8767	bcgsc.ca	37	8	90777586	90777586	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RIPK2	NM_003821	exon3	c.T345C	p.D115D	.	.	92	5	88	0	.	523
RNASEL	6041	hgsc.bcm.edu;broad.mit.edu	37	1	182551358	182551360	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RNASEL	NM_021133	exon4	c.1600_1602del	p.534_534del	.	.	223	15	144	0	.	336
RNF219	79596	bcgsc.ca	37	13	79219069	79219069	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RNF219	NM_024546	exon2	c.T136C	p.L46L	.	.	97	4	119	0	.	135
ROS1	6098	bcgsc.ca	37	6	117686334	117686334	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ROS1	NM_002944	exon20	c.T3007C	p.F1003L	.	.	73	4	71	0	.	1353
RTN1	6252	broad.mit.edu;bcgsc.ca	37	14	60194386	60194386	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RTN1	NM_021136	exon3	c.A1016G	p.E339G	.	.	74	6	68	0	.	516
RTP1	132112	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	3	186917604	186917604	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	RTP1	NM_153708	exon2	c.C538T	p.R180C	.	.	32	18	29	0	.	155
SAMD9	54809	bcgsc.ca	37	7	92734276	92734276	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SAMD9	NM_001193307	exon2	c.A1135G	p.K379E	.	.	146	5	159	1	.	140
SAMSN1	64092	bcgsc.ca	37	21	15893536	15893536	+	Missense_Mutation	SNP	T	T	C	rs199621768		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SAMSN1	NM_001256370	exon3	c.A268G	p.S90G	.	.	159	6	228	0	.	94
SEMA5B	54437	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	122662337	122662337	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SEMA5B	NM_001256347	exon4	c.A536T	p.D179V	.	.	26	14	46	0	.	157
SENP3-EIF4A1	0	bcgsc.ca	37	17	7477855	7477855	+	RNA	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	.	.	.	.	.	.	42	4	74	0	.	.
SERINC2	347735	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	31907019	31907019	+	Silent	SNP	C	C	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SERINC2	NM_001199038	exon11	c.C1368A	p.L456L	.	.	35	30	54	0	.	90
SERPINF2	5345	ucsc.edu	37	17	1649044	1649044	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SERPINF2	NM_000934	exon5	c.T208C	p.C70R	.	.	53	4	58	0	.	226
SF3B14	0	bcgsc.ca	37	2	24291205	24291205	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SF3B14	NM_016047	exon3	c.T274C	p.Y92H	.	.	79	4	90	0	.	90
SFR1	119392	broad.mit.edu	37	10	105883861	105883861	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_001002759	exon3	c.A525G	p.L175L	.	.	305	6	249	0	.	.
SIGLEC1	6614	ucsc.edu	37	20	3682259	3682259	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SIGLEC1	NM_023068	exon6	c.T1258C	p.F420L	.	.	42	4	57	0	.	167
SLC12A9	56996	bcgsc.ca	37	7	100458881	100458881	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SLC12A9	NM_001267812	exon10	c.T1340C	p.F447S	.	.	70	4	78	0	.	90
SLC13A4	26266	bcgsc.ca	37	7	135390944	135390944	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SLC13A4	NM_012450	exon4	c.A470G	p.E157G	.	.	41	4	46	1	.	90
SLC18B1	116843	bcgsc.ca	37	6	133095415	133095415	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_052831	exon9	c.T935C	p.I312T	.	.	132	5	134	0	.	.
SLC20A1	6574	bcgsc.ca	37	2	113416485	113416485	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SLC20A1	NM_005415	exon7	c.T862C	p.S288P	.	.	83	4	83	0	.	92
SLC24A6	80024	ucsc.edu;bcgsc.ca	37	12	113758428	113758428	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SLC24A6	NM_024959	exon6	c.T484C	p.S162P	.	.	44	4	38	0	.	90
SLC35F1	222553	bcgsc.ca	37	6	118606384	118606384	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SLC35F1	NM_001029858	exon7	c.T885C	p.G295G	.	.	152	5	171	1	.	135
SLC4A9	83697	bcgsc.ca	37	5	139744169	139744169	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SLC4A9	NM_001258428	exon11	c.C1682T	p.S561F	.	.	70	4	79	0	.	67
SLC5A7	60482	bcgsc.ca;mdanderson.org	37	2	108627264	108627264	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SLC5A7	NM_021815	exon9	c.C1690A	p.L564I	.	.	16	3	29	0	.	93
SLC6A2	6530	ucsc.edu;bcgsc.ca	37	16	55731912	55731912	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SLC6A2	NM_001172501	exon10	c.T1364C	p.L455P	.	.	44	4	78	0	.	526
SLC8A3	6547	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	70633754	70633754	+	Silent	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SLC8A3	NM_183002	exon2	c.G1386A	p.K462K	.	.	18	7	32	0	.	225
SLCO3A1	28232	bcgsc.ca	37	15	92669342	92669342	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SLCO3A1	NM_013272	exon6	c.T1226C	p.L409S	.	.	102	5	190	0	.	91
SNRNP48	154007	bcgsc.ca	37	6	7606313	7606313	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SNRNP48	NM_152551	exon8	c.A856G	p.S286G	.	.	188	6	190	0	.	90
SNX1	6642	bcgsc.ca	37	15	64423994	64423994	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SNX1	NM_003099	exon11	c.A1124G	p.E375G	.	.	73	4	85	0	.	226
SNX20	124460	bcgsc.ca	37	16	50707907	50707907	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SNX20	NM_182854	exon4	c.G361A	p.A121T	.	.	36	4	43	0	.	23
SNX29	92017	bcgsc.ca	37	16	12142389	12142389	+	Silent	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SNX29	NM_032167	exon7	c.G660A	p.E220E	.	.	52	4	67	0	.	23
SON	6651	bcgsc.ca	37	21	34924134	34924134	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SON	NM_032195	exon3	c.T2597C	p.L866S	.	.	83	5	113	0	.	97
SORL1	6653	bcgsc.ca	37	11	121476242	121476242	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SORL1	NM_003105	exon35	c.A4910G	p.N1637S	.	.	114	6	158	0	.	228
SPATS2L	26010	bcgsc.ca	37	2	201253968	201253968	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SPATS2L	NM_001100423	exon3	c.A1G	p.M1V	.	.	118	5	112	1	.	48
SPINT2	10653	bcgsc.ca	37	19	38779829	38779829	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SPINT2	NM_021102	exon4	c.A389G	p.E130G	.	.	52	4	69	0	.	90
SPTA1	6708	bcgsc.ca	37	1	158648253	158648253	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SPTA1	NM_003126	exon6	c.T750C	p.R250R	.	.	63	4	57	0	.	142
SPTY2D1	144108	bcgsc.ca	37	11	18637010	18637010	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SPTY2D1	NM_194285	exon3	c.A811G	p.N271D	.	.	80	4	120	0	.	90
SRF	6722	bcgsc.ca	37	6	43143496	43143496	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SRF	NM_003131	exon3	c.C833T	p.T278I	.	.	78	5	103	0	.	1084
SRP72	6731	bcgsc.ca	37	4	57335826	57335826	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SRP72	NM_006947	exon2	c.G117T	p.Q39H	.	.	57	4	81	0	.	116
SRPK1	6732	bcgsc.ca	37	6	35803259	35803259	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SRPK1	NM_003137	exon16	c.T1790C	p.L597P	.	.	77	5	75	0	.	359
SSBP3	23648	bcgsc.ca	37	1	54707148	54707148	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SSBP3	NM_145716	exon12	c.T800C	p.V267A	.	.	123	5	119	0	.	90
SYBU	55638	bcgsc.ca	37	8	110587235	110587235	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SYBU	NM_001099752	exon8	c.G1892A	p.G631E	.	.	77	4	76	0	.	227
SYNE1	23345	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	6	152651593	152651593	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SYNE1	NM_182961	exon78	c.A14227C	p.T4743P	.	.	49	25	69	0	.	607
SYT15	83849	broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	46968625	46968625	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	SYT15	NM_031912	exon3	c.G311T	p.C104F	.	.	27	5	22	0	.	22
TALDO1	6888	bcgsc.ca	37	11	764815	764815	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TALDO1	NM_006755	exon8	c.A984G	p.E328E	.	.	73	4	86	0	.	90
TCF7L1	83439	hgsc.bcm.edu;broad.mit.edu	37	2	85536399	85536400	+	In_Frame_Ins	INS	-	-	GCA	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TCF7L1	NM_031283	exon12	c.1581_1582insGCA	p.A527delinsAA	.	.	66	19	71	0	.	585
TEX101	83639	bcgsc.ca	37	19	43922479	43922479	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TEX101	NM_031451	exon9	c.T734C	p.L245P	.	.	83	4	92	1	.	91
TGOLN2	10618	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	85552051	85552051	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TGOLN2	NM_001206841	exon3	c.G1295A	p.R432H	.	.	114	35	99	0	.	22
THADA	63892	bcgsc.ca	37	2	43655330	43655330	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	THADA	NM_001083953	exon28	c.T3967C	p.L1323L	.	.	69	4	52	0	.	228
TMEM135	65084	bcgsc.ca	37	11	87013380	87013380	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TMEM135	NM_022918	exon8	c.A594G	p.S198S	.	.	62	4	149	0	.	514
TMEM246	84302	bcgsc.ca	37	9	104238217	104238217	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_032342	exon2	c.A1158G	p.K386K	.	.	77	4	109	0	.	.
TMEM260	0	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	57083918	57083918	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	NM_017799	exon9	c.C959T	p.S320L	.	.	167	56	186	2	.	.
TMEM92	162461	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	48351885	48351885	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TMEM92	NM_153229	exon1	c.G23A	p.G8D	.	.	34	10	22	0	.	90
TOMM70A	9868	broad.mit.edu	37	3	100084431	100084431	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TOMM70A	NM_014820	exon12	c.G1804A	p.G602R	.	.	285	6	367	0	.	91
TOP2B	7155	bcgsc.ca	37	3	25651162	25651162	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TOP2B	NM_001068	exon29	c.A3813G	p.E1271E	.	.	147	5	147	1	.	273
TOPBP1	11073	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	133339026	133339026	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TOPBP1	NM_007027	exon20	c.G3344T	p.G1115V	.	.	71	28	105	1	.	540
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	7577539	7577539	+	Missense_Mutation	SNP	G	G	A	rs121912651	bycluster	TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	TP53,head_neck,carcinoma,+1	TP53	NM_000546	exon7	c.C742T	p.R248W	.	.	46	31	114	1	.	70225
TP53BP2	7159	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	1	224002032	224002032	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TP53BP2	NM_001031685	exon3	c.C199T	p.R67X	.	.	60	9	30	0	.	229
TPPP3	51673	ucsc.edu;bcgsc.ca	37	16	67424851	67424851	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TPPP3	NM_016140	exon3	c.T164C	p.V55A	.	.	32	4	55	1	.	90
TRAF5	7188	bcgsc.ca	37	1	211533277	211533277	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TRAF5	NM_004619	exon5	c.T402C	p.F134F	.	.	230	6	141	0	.	661
TRAK2	66008	bcgsc.ca	37	2	202245376	202245376	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TRAK2	NM_015049	exon16	c.A2635G	p.S879G	.	.	124	5	163	0	.	90
TRIM66	9866	bcgsc.ca	37	11	8667331	8667331	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TRIM66	NM_014818	exon7	c.T626C	p.V209A	.	.	70	5	86	0	.	68
TRIP10	9322	bcgsc.ca	37	19	6746519	6746519	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TRIP10	NM_004240	exon10	c.T1041C	p.L347L	.	.	69	4	50	0	.	228
TSEN2	80746	bcgsc.ca	37	3	12573134	12573134	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TSEN2	NM_001145392	exon11	c.A1314G	p.E438E	.	.	81	4	110	0	.	90
TTN	7273	bcgsc.ca	37	2	179407667	179407667	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TTN	NM_001267550	exon348	c.C96914T	p.T32305I	.	.	92	4	109	0	.	636
TUBB1	81027	bcgsc.ca	37	20	57599436	57599436	+	Silent	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TUBB1	NM_030773	exon4	c.G954A	p.R318R	.	.	24	3	32	0	.	227
TUBD1	51174	bcgsc.ca	37	17	57955498	57955498	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TUBD1	NM_016261	exon5	c.A735G	p.A245A	.	.	71	4	87	0	.	227
TWISTNB	221830	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	19738145	19738145	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	TWISTNB	NM_001002926	exon4	c.T811C	p.W271R	.	.	158	59	192	0	.	91
UBE4A	9354	bcgsc.ca	37	11	118244355	118244355	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	UBE4A	NM_004788	exon8	c.T1092C	p.R364R	.	.	91	4	123	0	.	229
UBR4	23352	bcgsc.ca	37	1	19489047	19489047	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	UBR4	NM_020765	exon35	c.A4823G	p.N1608S	.	.	91	5	80	0	.	612
UHRF2	115426	bcgsc.ca	37	9	6493894	6493894	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	UHRF2	NM_152896	exon10	c.T1566C	p.G522G	.	.	75	4	85	0	.	721
UNC80	285175	bcgsc.ca	37	2	210802288	210802288	+	Silent	SNP	A	A	G	rs191990009	by1000genomes	TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	UNC80	NM_032504	exon41	c.A6201G	p.S2067S	.	.	158	6	161	0	A|0.999;G|0.000	90
USP15	9958	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	12	62775287	62775287	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	USP15	NM_001252078	exon9	c.C932T	p.P311L	.	.	71	31	79	0	.	1084
USP16	10600	bcgsc.ca	37	21	30426156	30426156	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	USP16	NM_006447	exon17	c.T2227C	p.S743P	.	.	58	4	129	0	.	659
UXT	8409	bcgsc.ca	37	X	47516618	47516618	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	UXT	NM_153477	exon4	c.T356C	p.L119P	.	.	132	6	162	1	.	130
VPS26B	112936	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	134113163	134113163	+	Silent	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	VPS26B	NM_052875	exon4	c.G696A	p.E232E	.	.	52	21	87	1	.	90
WDR31	114987	bcgsc.ca	37	9	116083805	116083805	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	WDR31	NM_001012361	exon8	c.A624G	p.E208E	.	.	100	4	111	0	.	90
WNK1	65125	bcgsc.ca	37	12	980510	980510	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	WNK1	NM_213655	exon11	c.A3713G	p.Q1238R	.	.	87	4	68	0	.	916
YWHAB	7529	bcgsc.ca	37	20	43532668	43532668	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	YWHAB	NM_003404	exon4	c.C335T	p.T112I	.	.	95	5	123	0	.	660
ZFYVE21	79038	bcgsc.ca	37	14	104193153	104193153	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ZFYVE21	NM_024071	exon2	c.G163A	p.A55T	.	.	60	4	53	0	.	90
ZNF143	7702	bcgsc.ca	37	11	9534046	9534046	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ZNF143	NM_003442	exon13	c.T1427C	p.V476A	.	.	75	4	83	0	.	90
ZNF208	7757	hgsc.bcm.edu;bcgsc.ca	37	19	22171610	22171610	+	Silent	SNP	C	C	T	rs201303510		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ZNF208	NM_007153	exon2	c.G105A	p.E35E	.	.	155	14	179	0	.	7
ZNF277	11179	bcgsc.ca	37	7	111846811	111846811	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ZNF277	NM_021994	exon1	c.C40A	p.Q14K	.	.	25	11	30	0	.	155
ZNF350	59348	broad.mit.edu;bcgsc.ca	37	19	52469455	52469455	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ZNF350	NM_021632	exon5	c.T251C	p.V84A	.	.	89	5	113	0	.	227
ZNF35	7584	bcgsc.ca	37	3	44700455	44700455	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ZNF35	NM_003420	exon4	c.A600G	p.G200G	.	.	190	7	194	0	.	90
ZNF37BP	100129482	bcgsc.ca	37	10	43016374	43016374	+	RNA	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	.	.	.	.	.	.	98	4	116	0	.	.
ZNF490	57474	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	12721447	12721447	+	Silent	SNP	C	C	T	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ZNF490	NM_020714	exon1	c.G48A	p.E16E	.	.	27	7	38	0	.	90
ZNF571	51276	bcgsc.ca	37	19	38074983	38074983	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ZNF571	NM_016536	exon3	c.A25G	p.R9G	.	.	82	4	83	0	.	90
ZNF638	27332	bcgsc.ca	37	2	71577182	71577182	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ZNF638	NM_014497	exon2	c.A1098G	p.S366S	.	.	102	5	101	1	.	94
ZNF676	163223	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	22364341	22364341	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ZNF676	NM_001001411	exon3	c.G178C	p.E60Q	.	.	115	54	122	0	.	90
ZNF716	441234	bcgsc.ca	37	7	57528854	57528854	+	Silent	SNP	T	T	C	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ZNF716	NM_001159279	exon4	c.T687C	p.T229T	.	.	75	4	93	0	.	24
ZNF732	654254	bcgsc.ca	37	4	264959	264959	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ZNF732	NM_001137608	exon3	c.T1684C	p.C562R	.	.	68	4	75	0	.	22
ZNF876P	642280	bcgsc.ca	37	4	247393	247393	+	RNA	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	.	.	.	.	.	.	.	116	4	110	0	.	.
ZNRF1	84937	bcgsc.ca	37	16	75140401	75140401	+	Silent	SNP	A	A	G	novel		TCGA-BC-A216-01A-11D-A152-10	TCGA-BC-A216-11A-11D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	c1d9ed06-7498-4c6c-a0de-dbf28e868109	baf0c971-0005-4e18-bfdf-a2d71a3aff12	.	ZNRF1	NM_032268	exon4	c.A648G	p.E216E	.	.	15	3	29	0	.	522
