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
A2ML1	144568	ucsc.edu;bcgsc.ca	37	12	9020563	9020563	+	Silent	SNP	T	T	C	rs61749073	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	A2ML1	NM_144670	exon30	c.T3843C	p.V1281V	.	.	133	13	105	0	A|0.000;C|0.078;T|0.922	93
A4GALT	53947	bcgsc.ca	37	22	43089849	43089849	+	Missense_Mutation	SNP	T	T	C	rs11541159	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	A4GALT	NM_017436	exon3	c.A109G	p.M37V	.	.	91	7	74	1	T|0.620;C|0.380	90
AAGAB	79719	bcgsc.ca	37	15	67528374	67528374	+	Missense_Mutation	SNP	T	T	G	rs7173826	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AAGAB	NM_024666	exon4	c.A394C	p.I132L	.	.	134	9	126	0	T|0.662;G|0.338	90
AAK1	22848	bcgsc.ca	37	2	69734636	69734636	+	Missense_Mutation	SNP	G	G	A	rs55889248	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AAK1	NM_014911	exon15	c.C2081T	p.T694M	.	.	270	12	230	0	G|0.996;A|0.004	333
ABCA13	154664	bcgsc.ca	37	7	48522701	48522701	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ABCA13	NM_152701	exon47	c.A13123T	p.I4375F	.	.	151	6	162	0	.	521
ABCB10	23456	bcgsc.ca	37	1	229683264	229683264	+	Silent	SNP	G	G	A	rs3738187	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ABCB10	NM_012089	exon3	c.C903T	p.S301S	.	.	122	7	87	0	G|0.689;A|0.311	153
ABCB5	340273	bcgsc.ca	37	7	20682884	20682884	+	Missense_Mutation	SNP	C	C	T	rs17143212	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ABCB5	NM_001163941	exon6	c.C392T	p.T131I	.	.	131	9	156	0	C|0.947;T|0.053	158
ABCB5	340273	ucsc.edu;bcgsc.ca	37	7	20768013	20768013	+	Silent	SNP	G	G	A	rs10254317	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ABCB5	NM_001163941	exon23	c.G2802A	p.A934A	.	.	126	14	157	0	G|0.421;A|0.579	158
ABCB6	10058	bcgsc.ca	37	2	220082504	220082504	+	Missense_Mutation	SNP	C	C	T	rs150221689	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ABCB6	NM_005689	exon2	c.G575A	p.R192Q	.	.	318	21	329	3	C|0.997;T|0.003	153
ACAD11	84129	bcgsc.ca	37	3	132361596	132361596	+	Silent	SNP	G	G	A	rs9877018	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ACAD11	NM_032169	exon3	c.C300T	p.P100P	.	.	442	21	514	8	G|0.953;A|0.047	91
ACAP3	116983	bcgsc.ca	37	1	1229538	1229538	+	Silent	SNP	C	C	T	rs148138514		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ACAP3	NM_030649	exon22	c.G2181A	p.A727A	.	.	177	6	125	0	C|0.993;T|0.007	90
ACOXL	55289	bcgsc.ca	37	2	111598958	111598958	+	Missense_Mutation	SNP	C	C	T	rs1554005	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ACOXL	NM_001142807	exon10	c.C764T	p.T255M	.	.	108	8	106	0	C|0.823;N|0.000	90
ACSL1	2180	bcgsc.ca	37	4	185687863	185687863	+	Silent	SNP	A	A	G	rs11727009	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ACSL1	NM_001995	exon13	c.T1176C	p.F392F	.	.	76	6	35	0	A|0.768;G|0.232	92
ACTN3	89	bcgsc.ca	37	11	66329639	66329639	+	RNA	SNP	G	G	A	rs77239910	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ACTN3	.	.	.	.	.	.	149	7	83	0	G|0.909;A|0.091	90
ACVR2A	92	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	2	148676024	148676024	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ACVR2A	NM_001616	exon7	c.825delA	p.L275fs	.	.	123	41	137	0	.	831
ADA	100	bcgsc.ca	37	20	43255220	43255220	+	Missense_Mutation	SNP	T	T	C	rs11555566	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ADA	NM_000022	exon4	c.A239G	p.K80R	.	.	57	5	53	0	T|0.941;C|0.059	653
ADAM19	8728	bcgsc.ca	37	5	156936364	156936364	+	Missense_Mutation	SNP	T	T	C	rs1422795	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ADAM19	NM_033274	exon9	c.A850G	p.S284G	.	.	173	7	161	0	T|0.592;C|0.408	294
ADAM23	8745	bcgsc.ca	37	2	207459467	207459467	+	Silent	SNP	C	C	T	rs3732079	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ADAM23	NM_003812	exon23	c.C2085T	p.A695A	.	.	217	9	203	0	C|0.856;G|0.000;T|0.144	228
ADAM7	8756	bcgsc.ca	37	8	24359068	24359068	+	Silent	SNP	G	G	A	rs13277171	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ADAM7	NM_003817	exon20	c.G2187A	p.L729L	.	.	71	5	122	0	G|0.743;A|0.257	230
ADAM9	8754	bcgsc.ca	37	8	38884270	38884270	+	Silent	SNP	C	C	T	rs61753674	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ADAM9	NM_003816	exon11	c.C1071T	p.H357H	.	.	79	7	109	0	C|0.990;T|0.010	227
ADAMDEC1	27299	bcgsc.ca	37	8	24261526	24261526	+	Missense_Mutation	SNP	A	A	G	rs3765124	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ADAMDEC1	NM_014479	exon13	c.A1331G	p.N444S	.	.	87	6	132	0	A|0.687;G|0.313	228
ADAMTS20	80070	bcgsc.ca	37	12	43769228	43769228	+	Silent	SNP	A	A	C	rs10506226	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ADAMTS20	NM_025003	exon36	c.T5400G	p.T1800T	.	.	143	6	127	0	A|0.790;C|0.210	795
ADAMTSL3	57188	bcgsc.ca	37	15	84581889	84581889	+	Silent	SNP	G	G	A	rs12439867	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ADAMTSL3	NM_207517	exon16	c.G1746A	p.P582P	.	.	65	4	63	0	G|0.688;A|0.312	1153
ADARB1	104	bcgsc.ca	37	21	46641968	46641968	+	Silent	SNP	G	G	A	rs1051367	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ADARB1	NM_015834	exon12	c.G2082A	p.K694K	.	.	127	7	148	0	G|0.494;A|0.506	91
ADAT1	23536	bcgsc.ca	37	16	75646685	75646685	+	Missense_Mutation	SNP	G	G	T	rs3743598	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ADAT1	NM_012091	exon7	c.C499A	p.H167N	.	.	148	10	125	1	G|0.546;T|0.454	92
ADCY3	109	bcgsc.ca	37	2	25141538	25141538	+	Missense_Mutation	SNP	A	A	G	rs11676272	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ADCY3	NM_004036	exon1	c.T319C	p.S107P	.	.	147	6	100	0	A|0.421;G|0.579	94
ADH1C	126	bcgsc.ca	37	4	100260789	100260789	+	RNA	SNP	T	T	C	rs698	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	558	19	513	0	T|0.776;C|0.224	.
ADRA1D	146	bcgsc.ca	37	20	4228735	4228735	+	Silent	SNP	C	C	T	rs35105284	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ADRA1D	NM_000678	exon1	c.G870A	p.A290A	.	.	63	5	54	0	C|0.788;T|0.212	522
ADSSL1	122622	ucsc.edu;bcgsc.ca	37	14	105196365	105196365	+	Silent	SNP	T	T	C	rs33958252	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ADSSL1	NM_199165	exon1	c.T136C	p.L46L	.	.	88	9	59	0	T|0.432;C|0.568	515
AFF1	4299	broad.mit.edu;bcgsc.ca;mdanderson.org	37	4	88056733	88056733	+	Silent	SNP	A	A	G	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AFF1	NM_001166693	exon21	c.A3537G	p.E1179E	.	.	149	48	152	1	.	289
AFTPH	54812	bcgsc.ca	37	2	64780144	64780144	+	Silent	SNP	A	A	G	rs7576956	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AFTPH	NM_017657	exon2	c.A1536G	p.Q512Q	.	.	120	5	139	0	A|0.969;G|0.031	70
AGAP1	116987	bcgsc.ca	37	2	236761396	236761396	+	Missense_Mutation	SNP	C	C	T	rs13006916	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AGAP1	NM_001244888	exon10	c.C1117T	p.R373C	.	.	231	12	210	2	C|0.485;T|0.515	93
AGMAT	79814	bcgsc.ca	37	1	15909744	15909744	+	Missense_Mutation	SNP	C	C	T	rs11580170	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AGMAT	NM_024758	exon2	c.G419A	p.R140Q	.	.	63	5	62	0	C|0.689;T|0.311	91
AGMAT	79814	bcgsc.ca	37	1	15909850	15909850	+	Missense_Mutation	SNP	C	C	G	rs6429757	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AGMAT	NM_024758	exon2	c.G313C	p.G105R	.	.	78	5	78	0	C|0.348;G|0.652	91
AGRN	375790	bcgsc.ca	37	1	978668	978668	+	Silent	SNP	G	G	A	rs147346337	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AGRN	NM_198576	exon8	c.G1434A	p.T478T	.	.	92	5	91	0	G|0.996;A|0.004	136
AIMP2	7965	bcgsc.ca	37	7	6063283	6063283	+	Silent	SNP	C	C	T	rs4560	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AIMP2	NM_006303	exon4	c.C924T	p.N308N	.	.	198	14	170	0	C|0.643;T|0.357	91
AKAP13	11214	bcgsc.ca	37	15	86287867	86287867	+	Missense_Mutation	SNP	G	G	A	rs2614668	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AKAP13	NM_006738	exon37	c.G8413A	p.A2805T	.	.	53	4	51	0	G|0.842;A|0.158	258
AKAP3	10566	bcgsc.ca	37	12	4735737	4735737	+	Silent	SNP	A	A	G	rs2072358	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AKAP3	NM_006422	exon4	c.T2331C	p.L777L	.	.	176	9	158	0	G|0.259;A|0.741	292
AKAP6	9472	bcgsc.ca	37	14	33291494	33291494	+	Missense_Mutation	SNP	C	C	T	rs11845640	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AKAP6	NM_004274	exon13	c.C4475T	p.A1492V	.	.	156	8	150	1	C|0.763;T|0.237	733
AKAP9	10142	bcgsc.ca	37	7	91708898	91708898	+	Missense_Mutation	SNP	A	A	G	rs35759833	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AKAP9	NM_005751	exon31	c.A7451G	p.K2484R	.	.	123	7	136	1	A|0.911;G|0.089	755
AKR1B1	231	ucsc.edu;bcgsc.ca	37	7	134135621	134135621	+	Missense_Mutation	SNP	T	T	C	rs2229542	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AKR1B1	NM_001628	exon3	c.A268G	p.K90E	.	.	34	4	35	0	T|0.989;C|0.011	93
AKR1C3	8644	bcgsc.ca	37	10	5138607	5138607	+	Silent	SNP	G	G	A	rs7741	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AKR1C3	NM_001253909	exon2	c.G90A	p.P30P	.	.	121	7	124	0	G|0.710;A|0.290	515
AKR1CL1	340811	bcgsc.ca	37	10	5200861	5200861	+	RNA	SNP	C	C	A	rs2020172	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AKR1CL1	.	.	.	.	.	.	120	5	121	1	C|0.787;A|0.213	90
AKR1CL1	340811	bcgsc.ca	37	10	5203864	5203864	+	RNA	SNP	C	C	T	rs11253021	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AKR1CL1	.	.	.	.	.	.	149	11	161	0	C|0.738;T|0.262	90
AKR1CL1	340811	bcgsc.ca	37	10	5204928	5204928	+	RNA	SNP	C	C	T	rs7097295	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AKR1CL1	.	.	.	.	.	.	87	6	74	0	C|0.737;T|0.263	90
ALDH1A1	216	ucsc.edu	37	9	75545882	75545882	+	Silent	SNP	G	G	A	rs13959	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ALDH1A1	NM_000689	exon3	c.C225T	p.S75S	.	.	103	10	79	1	G|0.598;A|0.402	230
ALDH3A1	218	ucsc.edu;bcgsc.ca	37	17	19642952	19642952	+	Missense_Mutation	SNP	G	G	C	rs2228100	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ALDH3A1	NM_001135168	exon7	c.C985G	p.P329A	.	.	35	4	29	0	G|0.599;C|0.401	228
ALDH9A1	223	bcgsc.ca	37	1	165648709	165648709	+	Silent	SNP	C	C	T	rs1143661	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ALDH9A1	NM_000696	exon6	c.G900A	p.A300A	.	.	121	6	80	0	C|0.905;T|0.095	226
ALG10B	144245	bcgsc.ca	37	12	38715000	38715000	+	Silent	SNP	A	A	G	rs35518352	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ALG10B	NM_001013620	exon3	c.A1407G	p.Q469Q	.	.	343	14	370	1	A|0.664;G|0.336	93
ALS2CR11	151254	bcgsc.ca	37	2	202410300	202410300	+	Missense_Mutation	SNP	A	A	T	rs10804117	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ALS2CR11	NM_001168217	exon11	c.T1128A	p.H376Q	.	.	443	17	475	1	A|0.569;T|0.431	155
ALS2CR12	130540	bcgsc.ca	37	2	202154200	202154200	+	Silent	SNP	C	C	T	rs17468277	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ALS2CR12	NM_139163	exon14	c.G1191A	p.T397T	.	.	98	6	90	0	C|0.910;T|0.090	154
ANAPC2	29882	bcgsc.ca	37	9	140077639	140077639	+	Silent	SNP	G	G	A	rs11549105	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ANAPC2	NM_013366	exon6	c.C1224T	p.R408R	.	.	104	6	69	1	G|0.835;A|0.165	227
ANAPC4	29945	bcgsc.ca	37	4	25417109	25417109	+	Silent	SNP	T	T	A	rs3214035	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ANAPC4	NM_013367	exon26	c.T1848A	p.I616I	.	.	147	6	154	0	T|0.946;A|0.054	293
ANKIB1	54467	ucsc.edu;bcgsc.ca	37	7	92028039	92028039	+	Missense_Mutation	SNP	C	C	A	rs38794	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ANKIB1	NM_019004	exon20	c.C3046A	p.L1016M	.	.	92	9	85	1	C|0.567;A|0.433	432
ANKRD12	23253	bcgsc.ca	37	18	9255539	9255539	+	Silent	SNP	C	C	T	rs116726679	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ANKRD12	NM_015208	exon9	c.C2274T	p.S758S	.	.	222	10	246	1	C|0.982;T|0.018	92
ANKRD22	118932	bcgsc.ca	37	10	90585819	90585819	+	Silent	SNP	G	G	A	rs7893917	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ANKRD22	NM_144590	exon4	c.C375T	p.G125G	.	.	87	5	72	0	G|0.659;A|0.341	90
ANKRD2	26287	ucsc.edu	37	10	99337572	99337572	+	Missense_Mutation	SNP	G	G	A	rs7094973	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ANKRD2	NM_020349	exon2	c.G184A	p.A62T	.	.	39	6	19	0	G|0.516;A|0.484	90
ANKRD24	170961	ucsc.edu;bcgsc.ca	37	19	4207940	4207940	+	Silent	SNP	G	G	A	rs2240669	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ANKRD24	NM_133475	exon10	c.G807A	p.A269A	.	.	60	7	64	0	G|0.809;A|0.191	68
ANKRD28	23243	bcgsc.ca	37	3	15737698	15737698	+	Silent	SNP	T	T	C	rs2470549	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ANKRD28	NM_015199	exon15	c.A1512G	p.Q504Q	.	.	116	5	109	0	T|0.605;C|0.395	135
ANKRD30A	91074	bcgsc.ca	37	10	37454048	37454048	+	Missense_Mutation	SNP	C	C	G	rs41304589	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ANKRD30A	NM_052997	exon18	c.C1861G	p.Q621E	.	.	655	30	681	0	C|0.960;G|0.040	161
ANKRD30A	91074	bcgsc.ca	37	10	37505159	37505159	+	Missense_Mutation	SNP	G	G	A	rs34552277	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ANKRD30A	NM_052997	exon32	c.G2752A	p.A918T	.	.	536	15	543	1	G|0.768;A|0.232	161
ANKRD30A	91074	bcgsc.ca	37	10	37505179	37505179	+	Silent	SNP	T	T	C	rs57914746	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ANKRD30A	NM_052997	exon32	c.T2772C	p.D924D	.	.	586	15	613	0	T|0.822;C|0.178	161
ANKRD32	84250	bcgsc.ca	37	5	93987532	93987532	+	Missense_Mutation	SNP	C	C	A	rs6891545	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ANKRD32	NM_032290	exon7	c.C864A	p.S288R	.	.	476	35	499	2	C|0.778;A|0.222	92
ANKRD36BP2	645784	bcgsc.ca	37	2	89103904	89103904	+	RNA	SNP	C	C	T	rs74263329		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	415	15	380	2	.	.
ANKUB1	389161	bcgsc.ca	37	3	149485293	149485293	+	Missense_Mutation	SNP	T	T	C	rs7610425	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001144960	exon5	c.A1156G	p.S386G	.	.	139	8	163	0	C|0.285;N|0.000	.
ANO4	121601	bcgsc.ca	37	12	101295602	101295602	+	Silent	SNP	C	C	G	rs34182255	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ANO4	NM_178826	exon2	c.C39G	p.T13T	.	.	397	17	398	0	C|0.876;G|0.124	96
AOX1	316	bcgsc.ca	37	2	201478627	201478627	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AOX1	NM_001159	exon15	c.A1549T	p.T517S	.	.	121	39	94	3	.	96
APC	324	bcgsc.ca	37	5	112164561	112164561	+	Silent	SNP	G	G	A	rs351771	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	APC	NM_001127510	exon15	c.G1635A	p.A545A	.	.	414	34	424	1	G|0.388;A|0.612	12026
APC	324	bcgsc.ca	37	5	112175770	112175770	+	Silent	SNP	G	G	A	rs41115	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	APC,NS,carcinoma,0	APC	NM_001127510	exon17	c.G4479A	p.T1493T	.	.	141	8	117	0	G|0.379;N|0.000	12026
APC	324	bcgsc.ca	37	5	112176325	112176325	+	Silent	SNP	G	G	A	rs42427	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	APC	NM_001127510	exon17	c.G5034A	p.G1678G	.	.	166	13	178	1	G|0.379;A|0.621	12026
APC	324	bcgsc.ca	37	5	112176559	112176559	+	Silent	SNP	T	T	G	rs866006	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	APC	NM_001127510	exon17	c.T5268G	p.S1756S	.	.	315	28	335	1	T|0.384;G|0.616	12026
APC	324	bcgsc.ca	37	5	112177171	112177171	+	Silent	SNP	G	G	A	rs465899	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	APC	NM_001127510	exon17	c.G5880A	p.P1960P	.	.	188	10	195	0	G|0.332;A|0.668	12026
APLF	200558	bcgsc.ca	37	2	68794483	68794483	+	Missense_Mutation	SNP	C	C	A	rs36021078	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	APLF	NM_173545	exon9	c.C1297A	p.Q433K	.	.	467	15	439	0	C|0.973;A|0.027	92
APOB	338	bcgsc.ca	37	2	21228827	21228827	+	Missense_Mutation	SNP	C	C	T	rs1801701	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	APOB	NM_000384	exon26	c.G10913A	p.R3638Q	.	.	121	6	106	0	C|0.942;T|0.058	175
APOBEC3B	9582	ucsc.edu	37	22	39381999	39381999	+	Silent	SNP	T	T	C	rs79053565		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	APOBEC3B	NM_004900	exon3	c.T357C	p.S119S	.	.	81	16	56	10	.	227
APOBEC3B	9582	ucsc.edu;bcgsc.ca	37	22	39387558	39387558	+	Silent	SNP	C	C	T	rs57217289	bycluster;byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	APOBEC3B	NM_004900	exon6	c.C945T	p.Y315Y	.	.	35	6	28	0	C|0.333;T|0.667	227
APOH	350	bcgsc.ca	37	17	64208285	64208285	+	Missense_Mutation	SNP	C	C	G	rs1801690	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	APOH	NM_000042	exon8	c.G1004C	p.W335S	.	.	163	10	122	0	C|0.763;G|0.237	90
APOL4	80832	bcgsc.ca	37	22	36598049	36598049	+	Missense_Mutation	SNP	C	C	G	rs80587	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	APOL4	.	.	.	.	.	.	105	7	121	0	C|0.411;G|0.589	90
APOL4	80832	bcgsc.ca	37	22	36598058	36598058	+	Missense_Mutation	SNP	T	T	C	rs71296614	alternate_allele	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	APOL4	.	.	.	.	.	.	116	7	131	1	CGACAAAGAT|0.500;GGACAAAGAC|0.500	90
APOL5	80831	bcgsc.ca	37	22	36122517	36122517	+	Silent	SNP	T	T	C	rs17723764	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	APOL5	NM_030642	exon3	c.T402C	p.L134L	.	.	90	6	76	0	C|0.262;N|0.000	90
AQP4	361	bcgsc.ca	37	18	24442392	24442392	+	Silent	SNP	C	C	A	rs35248760	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AQP4	NM_001650	exon2	c.G201T	p.P67P	.	.	132	8	124	0	C|0.913;A|0.087	90
AR	367	ucsc.edu;bcgsc.ca	37	X	66765627	66765627	+	Silent	SNP	G	G	A	rs6152	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	AR	NM_000044	exon1	c.G639A	p.E213E	.	.	38	6	37	0	G|0.700;A|0.300	661
ARHGAP10	79658	bcgsc.ca	37	4	148827795	148827795	+	Silent	SNP	C	C	T	rs61748165	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ARHGAP10	NM_024605	exon11	c.C1041T	p.G347G	.	.	83	7	99	0	C|0.996;T|0.004	229
ARHGAP19	84986	ucsc.edu;bcgsc.ca	37	10	99003811	99003811	+	Missense_Mutation	SNP	G	G	A	rs34038589	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ARHGAP19	NM_032900	exon8	c.C1099T	p.H367Y	.	.	71	9	81	0	G|0.983;A|0.017	651
ARHGAP24	83478	bcgsc.ca	37	4	86844835	86844835	+	Silent	SNP	A	A	G	rs6824722	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ARHGAP24	NM_001025616	exon4	c.A303G	p.E101E	.	.	94	5	97	0	A|0.669;G|0.331	227
ARHGEF3	50650	bcgsc.ca	37	3	56763525	56763525	+	Silent	SNP	A	A	G	rs1009118	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ARHGEF3	NM_001128615	exon13	c.T1450C	p.L484L	.	.	137	9	170	0	A|0.788;G|0.212	228
ARHGEF37	389337	bcgsc.ca	37	5	149001551	149001551	+	Missense_Mutation	SNP	A	A	C	rs4629585	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ARHGEF37	NM_001001669	exon9	c.A1261C	p.M421L	.	.	181	9	171	1	A|0.597;C|0.403	90
ARID1A	8289	broad.mit.edu;ucsc.edu	37	1	27106483	27106483	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ARID1A	NM_006015	exon20	c.G6094T	p.E2032X	.	.	91	29	104	1	.	584
ARID4A	5926	bcgsc.ca	37	14	58830978	58830978	+	Missense_Mutation	SNP	A	A	G	rs2230098	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ARID4A	NM_002892	exon20	c.A2171G	p.N724S	.	.	525	25	525	2	A|0.960;G|0.040	231
ARL11	115761	ucsc.edu;bcgsc.ca	37	13	50205025	50205025	+	Missense_Mutation	SNP	T	T	C	rs3803185	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ARL11	NM_138450	exon2	c.T442C	p.C148R	.	.	63	8	73	0	T|0.660;C|0.340	90
ARMC2	84071	bcgsc.ca	37	6	109197379	109197379	+	Missense_Mutation	SNP	T	T	C	rs9386758	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ARMC2	NM_032131	exon5	c.T497C	p.M166T	.	.	210	11	344	1	T|0.953;C|0.047	68
ARMC3	219681	bcgsc.ca	37	10	23297252	23297252	+	Missense_Mutation	SNP	G	G	A	rs10828395	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ARMC3	NM_173081	exon15	c.G1877A	p.R626Q	.	.	348	28	378	1	G|0.806;A|0.194	90
ARSH	347527	bcgsc.ca	37	X	2945389	2945389	+	Missense_Mutation	SNP	C	C	T	rs146832237	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ARSH	NM_001011719	exon7	c.C1072T	p.R358C	.	.	107	8	99	0	C|0.998;T|0.002	130
ASAP1	50807	ucsc.edu;bcgsc.ca	37	8	131124559	131124559	+	Missense_Mutation	SNP	T	T	C	rs966185	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ASAP1	NM_018482	exon24	c.A2182G	p.I728V	.	.	96	10	98	0	T|0.556;C|0.444	95
ASCL2	430	bcgsc.ca	37	11	2291050	2291050	+	Silent	SNP	G	G	A	rs116549635	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ASCL2	NM_005170	exon1	c.C513T	p.G171G	.	.	73	5	86	1	G|0.959;A|0.041	514
ASPM	259266	bcgsc.ca	37	1	197094030	197094030	+	Silent	SNP	C	C	T	rs6676084	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ASPM	NM_001206846	exon12	c.G3138A	p.R1046R	.	.	371	13	231	2	C|0.754;N|0.000	615
ASXL3	80816	bcgsc.ca	37	18	31323201	31323201	+	Missense_Mutation	SNP	C	C	G	rs185753602		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ASXL3	NM_030632	exon12	c.C3389G	p.P1130R	.	.	91	7	89	1	C|0.999;G|0.001	49
ATAD3C	219293	bcgsc.ca	37	1	1390875	1390875	+	Silent	SNP	C	C	T	rs1781147	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001039211	exon5	c.C414T	p.D138D	.	.	84	5	74	0	C|0.608;T|0.392	.
ATF4	468	bcgsc.ca	37	22	39917515	39917515	+	Missense_Mutation	SNP	A	A	C	rs4894	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATF4	NM_001675	exon1	c.A65C	p.Q22P	.	.	131	11	129	0	A|0.706;C|0.294	90
ATF7IP2	80063	bcgsc.ca	37	16	10575824	10575824	+	Silent	SNP	C	C	A	rs1970817	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATF7IP2	NM_024997	exon12	c.C1767A	p.P589P	.	.	146	6	135	0	C|0.529;A|0.471	186
ATF7IP	55729	bcgsc.ca	37	12	14577892	14577892	+	Missense_Mutation	SNP	A	A	T	rs2231909	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATF7IP	NM_018179	exon2	c.A1043T	p.N348I	.	.	91	7	99	0	A|0.678;T|0.322	252
ATG14	22863	bcgsc.ca	37	14	55864146	55864146	+	Silent	SNP	G	G	A	rs61743178	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATG14	NM_014924	exon2	c.C228T	p.I76I	.	.	175	8	173	0	G|0.966;A|0.034	90
ATG2B	55102	bcgsc.ca	37	14	96829290	96829290	+	Silent	SNP	G	G	A	rs12434329	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATG2B	NM_018036	exon1	c.C24T	p.S8S	.	.	128	8	154	0	G|0.482;A|0.518	93
ATIC	471	bcgsc.ca	37	2	216211604	216211604	+	Silent	SNP	A	A	G	rs112288749	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATIC	NM_004044	exon14	c.A1443G	p.G481G	.	.	160	8	155	0	A|0.987;G|0.013	760
ATN1	1822	ucsc.edu	37	12	7045906	7045906	+	Silent	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATN1	NM_001007026	exon5	c.G1476A	p.Q492Q	.	.	51	7	37	0	.	139
ATP10B	23120	bcgsc.ca	37	5	159992655	159992655	+	Silent	SNP	T	T	C	rs3812005	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATP10B	NM_025153	exon26	c.A4191G	p.V1397V	.	.	56	5	52	1	T|0.662;C|0.338	72
ATP13A5	344905	bcgsc.ca	37	3	192994543	192994543	+	Missense_Mutation	SNP	A	A	G	rs2271791	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATP13A5	NM_198505	exon29	c.T3392C	p.V1131A	.	.	517	20	591	1	A|0.649;G|0.351	144
ATP8A1	10396	bcgsc.ca	37	4	42457545	42457545	+	Silent	SNP	G	G	A	rs61735691	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATP8A1	NM_006095	exon28	c.C2691T	p.N897N	.	.	257	11	241	1	G|0.866;A|0.134	92
ATP9B	374868	bcgsc.ca	37	18	77067000	77067000	+	Silent	SNP	T	T	G	rs59800543	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATP9B	NM_198531	exon15	c.T1539G	p.A513A	.	.	99	7	105	0	T|0.578;G|0.422	93
ATR	545	bcgsc.ca	37	3	142217537	142217537	+	Silent	SNP	A	A	G	rs2227932	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATR	NM_001184	exon32	c.T5460C	p.Y1820Y	.	.	272	14	234	2	T|0.295;G|0.053	1139
ATRN	8455	bcgsc.ca	37	20	3515924	3515924	+	Silent	SNP	G	G	A	rs151518	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATRN	NM_139321	exon2	c.G435A	p.V145V	.	.	379	12	373	0	G|0.754;A|0.246	154
ATRN	8455	bcgsc.ca	37	20	3515951	3515951	+	Silent	SNP	C	C	T	rs151519	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATRN	NM_139321	exon2	c.C462T	p.Y154Y	.	.	394	11	368	0	C|0.751;T|0.249	154
ATRN	8455	bcgsc.ca	37	20	3540054	3540054	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ATRN	NM_139321	exon7	c.C1127T	p.S376F	.	.	213	8	191	0	.	154
B4GALT4	8702	bcgsc.ca	37	3	118948716	118948716	+	Silent	SNP	G	G	A	rs4422294	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	B4GALT4	NM_212543	exon4	c.C231T	p.C77C	.	.	79	6	75	0	G|0.776;A|0.224	90
BAG5	9529	bcgsc.ca	37	14	104028270	104028270	+	Silent	SNP	T	T	C	rs7148456	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BAG5	NM_001015049	exon1	c.A75G	p.P25P	.	.	123	6	97	0	T|0.730;C|0.270	229
BAHCC1	57597	bcgsc.ca	37	17	79409710	79409710	+	Silent	SNP	G	G	A	rs12943867		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BAHCC1	.	.	.	.	.	.	80	12	69	0	G|0.790;A|0.210	23
BANP	54971	bcgsc.ca	37	16	88061150	88061150	+	Silent	SNP	C	C	T	rs74740586	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BANP	NM_001173542	exon8	c.C957T	p.I319I	.	.	201	11	185	0	C|0.682;T|0.318	226
BARD1	580	bcgsc.ca	37	2	215645464	215645464	+	Missense_Mutation	SNP	C	C	G	rs2229571	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BARD1	NM_000465	exon4	c.G1134C	p.R378S	.	.	114	6	131	0	C|0.490;G|0.510	415
BCL2A1	597	bcgsc.ca	37	15	80263217	80263217	+	Missense_Mutation	SNP	C	C	T	rs3826007	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BCL2A1	NM_001114735	exon1	c.G245A	p.G82D	.	.	200	13	185	1	C|0.805;T|0.195	228
BCL2A1	597	bcgsc.ca	37	15	80263345	80263345	+	Missense_Mutation	SNP	A	A	C	rs1138358	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BCL2A1	NM_001114735	exon1	c.T117G	p.N39K	.	.	139	10	123	1	A|0.600;C|0.400	228
BCL2A1	597	ucsc.edu;bcgsc.ca	37	15	80263406	80263406	+	Missense_Mutation	SNP	C	C	T	rs1138357	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BCL2A1	NM_001114735	exon1	c.G56A	p.C19Y	.	.	110	11	107	1	C|0.708;T|0.292	228
BCRP3	644165	ucsc.edu	37	22	25045855	25045855	+	RNA	SNP	G	G	A	rs738818		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	108	13	117	0	G|0.551;A|0.449	.
BDH2	56898	bcgsc.ca	37	4	104013796	104013796	+	Missense_Mutation	SNP	T	T	C	rs1054707	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BDH2	NM_020139	exon4	c.A209G	p.N70S	.	.	435	31	406	0	T|0.878;C|0.122	90
BEST1	7439	bcgsc.ca	37	11	61730183	61730183	+	Silent	SNP	C	C	T	rs1800008	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BEST1	NM_004183	exon10	c.C1557T	p.S519S	.	.	110	6	115	1	C|0.846;T|0.154	90
BEST1	7439	bcgsc.ca	37	11	61730234	61730234	+	Silent	SNP	T	T	C	rs58357769	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BEST1	NM_004183	exon10	c.T1608C	p.T536T	.	.	99	5	89	0	T|0.564;C|0.436	90
BIN2	51411	bcgsc.ca	37	12	51685831	51685831	+	Silent	SNP	T	T	C	rs3210837	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BIN2	NM_016293	exon10	c.A1059G	p.E353E	.	.	80	5	87	0	T|0.232;C|0.768	91
BIRC6	57448	bcgsc.ca	37	2	32713706	32713706	+	Missense_Mutation	SNP	A	A	T	rs2366894	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BIRC6	NM_016252	exon42	c.A8020T	p.T2674S	.	.	440	13	442	2	A|0.423;T|0.577	233
BIRC8	112401	bcgsc.ca	37	19	53793042	53793042	+	Missense_Mutation	SNP	G	G	A	rs8109165	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BIRC8	NM_033341	exon1	c.C586T	p.H196Y	.	.	155	7	118	0	G|0.422;A|0.578	227
BLM	641	bcgsc.ca	37	15	91337479	91337479	+	Silent	SNP	G	G	A	rs2227933	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BLM	NM_000057	exon16	c.G3102A	p.T1034T	.	.	571	14	530	1	A|0.170;G|0.830	664
BLM	641	bcgsc.ca	37	15	91346923	91346923	+	Silent	SNP	C	C	A	rs2227934	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BLM	NM_000057	exon18	c.C3531A	p.A1177A	.	.	190	6	196	0	C|0.848;A|0.152	664
BLM	641	bcgsc.ca	37	15	91354505	91354505	+	Silent	SNP	C	C	T	rs1063147	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BLM	NM_000057	exon21	c.C3945T	p.L1315L	.	.	98	7	101	1	C|0.847;T|0.153	664
BMP2K	55589	mdanderson.org	37	4	79792148	79792148	+	Silent	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BMP2K	NM_017593	exon11	c.G1443A	p.Q481Q	.	.	14	5	16	0	.	383
BMPER	168667	bcgsc.ca	37	7	34125420	34125420	+	Silent	SNP	G	G	T	rs77064045	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BMPER	NM_133468	exon14	c.G1461T	p.P487P	.	.	186	11	175	0	G|0.769;T|0.231	92
BPIFB1	92747	ucsc.edu;bcgsc.ca	37	20	31877713	31877713	+	Missense_Mutation	SNP	A	A	T	rs61739245	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_033197	exon4	c.A280T	p.I94F	.	.	56	5	74	0	A|0.987;T|0.013	.
BRCA2	675	bcgsc.ca	37	13	32912299	32912299	+	Silent	SNP	T	T	C	rs543304	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BRCA2	NM_000059	exon11	c.T3807C	p.V1269V	.	.	208	8	211	0	C|0.187;N|0.000	3153
BRD8	10902	bcgsc.ca	37	5	137476457	137476457	+	Silent	SNP	G	G	A	rs115912769	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BRD8	NM_139199	exon26	c.C3552T	p.D1184D	.	.	154	6	137	0	G|0.997;A|0.003	91
BRD8	10902	bcgsc.ca	37	5	137500665	137500665	+	Missense_Mutation	SNP	G	G	A	rs11750814	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BRD8	NM_006696	exon13	c.C1688T	p.T563M	.	.	154	6	150	0	G|0.879;A|0.121	91
BRICD5	283870	bcgsc.ca	37	16	2259393	2259393	+	Silent	SNP	C	C	G	rs1129185	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_182563	exon6	c.G657C	p.V219V	.	.	73	7	66	0	C|0.956;G|0.044	.
BRIP1	83990	bcgsc.ca	37	17	59763347	59763347	+	Missense_Mutation	SNP	A	A	G	rs4986764	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BRIP1	NM_032043	exon19	c.T2755C	p.S919P	.	.	318	14	237	1	A|0.361;G|0.639	660
BRIP1	83990	bcgsc.ca	37	17	59763465	59763465	+	Silent	SNP	T	T	C	rs4986765	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BRIP1	NM_032043	exon19	c.A2637G	p.E879E	.	.	279	9	239	0	T|0.221;C|0.779	660
BTBD8	284697	bcgsc.ca	37	1	92554283	92554283	+	Missense_Mutation	SNP	G	G	A	rs34856868	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	BTBD8	NM_183242	exon2	c.G178A	p.V60I	.	.	182	8	228	0	G|0.980;A|0.020	91
C14orf37	145407	bcgsc.ca	37	14	58605790	58605790	+	Missense_Mutation	SNP	G	G	A	rs3829765	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C14orf37	NM_001001872	exon2	c.C287T	p.T96I	.	.	101	5	90	0	G|0.594;A|0.406	90
C15orf41	84529	bcgsc.ca	37	15	36946303	36946303	+	Missense_Mutation	SNP	C	C	G	rs3784678	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C15orf41	NM_001130010	exon4	c.C217G	p.L73V	.	.	93	6	126	0	C|0.492;G|0.508	46
C16orf71	146562	bcgsc.ca	37	16	4790273	4790273	+	Silent	SNP	G	G	A	rs859305	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C16orf71	NM_139170	exon4	c.G396A	p.E132E	.	.	112	5	89	0	G|0.414;A|0.586	68
C17orf47	284083	bcgsc.ca	37	17	56620501	56620501	+	Silent	SNP	A	A	G	rs17222523	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C17orf47	NM_001038704	exon1	c.T1047C	p.H349H	.	.	104	6	131	0	A|0.825;G|0.175	135
C17orf70	80233	bcgsc.ca	37	17	79514129	79514129	+	Missense_Mutation	SNP	G	G	A	rs11552304	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C17orf70	NM_025161	exon5	c.C1979T	p.P660L	.	.	78	5	66	0	G|0.418;A|0.582	92
C1orf63	57035	bcgsc.ca	37	1	25570081	25570081	+	Missense_Mutation	SNP	T	T	C	rs1043879	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C1orf63	NM_020317	exon4	c.A716G	p.E239G	.	.	154	10	154	0	T|0.831;C|0.169	91
C1orf68	100129271	bcgsc.ca	37	1	152692512	152692512	+	Missense_Mutation	SNP	G	G	A	rs41268474	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C1orf68	NM_001024679	exon1	c.G515A	p.C172Y	.	.	129	7	67	0	G|0.900;A|0.100	69
C1QTNF6	114904	bcgsc.ca	37	22	37581422	37581422	+	Missense_Mutation	SNP	G	G	C	rs229526	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C1QTNF6	NM_182486	exon2	c.C125G	p.P42R	.	.	56	5	46	0	G|0.659;C|0.340	90
C20orf26	26074	bcgsc.ca	37	20	20037320	20037320	+	Missense_Mutation	SNP	G	G	A	rs61744672	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C20orf26	NM_015585	exon2	c.G23A	p.R8K	.	.	175	9	151	0	G|0.982;A|0.018	94
C22orf34	348645	bcgsc.ca	37	22	50017234	50017234	+	RNA	SNP	A	A	G	rs916362	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	127	8	119	2	A|0.392;G|0.608	.
C2CD2	25966	bcgsc.ca	37	21	43327793	43327793	+	Silent	SNP	C	C	T	rs3746904	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C2CD2	NM_015500	exon9	c.G1119A	p.S373S	.	.	117	5	115	0	C|0.655;T|0.345	91
C2orf49	79074	bcgsc.ca	37	2	105961788	105961788	+	Missense_Mutation	SNP	C	C	T	rs116771593	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C2orf49	NM_024093	exon4	c.C659T	p.P220L	.	.	401	18	406	2	C|0.989;T|0.011	90
C2orf61	285051	bcgsc.ca	37	2	47357121	47357121	+	Missense_Mutation	SNP	G	G	A	rs141614874	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C2orf61	NM_173649	exon5	c.C478T	p.R160C	.	.	134	7	142	0	G|0.999;A|0.001	68
C2orf73	129852	bcgsc.ca	37	2	54562012	54562012	+	Missense_Mutation	SNP	C	C	A	rs55714450	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001100396	exon2	c.C85A	p.H29N	.	.	493	25	523	1	C|0.747;A|0.253	.
C3orf20	84077	bcgsc.ca	37	3	14724413	14724413	+	Missense_Mutation	SNP	G	G	A	rs9821143	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C3orf20	NM_032137	exon3	c.G193A	p.D65N	.	.	106	10	112	0	G|0.672;A|0.328	94
C3orf20	84077	bcgsc.ca	37	3	14725878	14725878	+	Missense_Mutation	SNP	A	A	G	rs34230332	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C3orf20	NM_032137	exon4	c.A614G	p.Q205R	.	.	83	7	84	0	A|0.955;G|0.045	94
C4orf45	152940	bcgsc.ca	37	4	159881479	159881479	+	Silent	SNP	T	T	C	rs9784569	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_152543	exon3	c.A315G	p.Q105Q	.	.	427	14	421	0	T|0.781;C|0.219	.
C5orf22	55322	bcgsc.ca	37	5	31538692	31538692	+	Missense_Mutation	SNP	A	A	C	rs17410000	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C5orf22	NM_018356	exon4	c.A703C	p.T235P	.	.	169	10	170	0	A|0.767;C|0.233	92
C6orf201	404220	bcgsc.ca	37	6	4122249	4122249	+	Missense_Mutation	SNP	C	C	A	rs643232	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C6orf201	NM_001085401	exon4	c.C351A	p.N117K	.	.	620	26	462	1	C|0.679;A|0.321	90
C6orf223	221416	bcgsc.ca	37	6	43970777	43970777	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C6orf223	NM_153246	exon4	c.G643T	p.A215S	.	.	76	5	62	0	.	68
C7orf63	79846	bcgsc.ca	37	7	89903309	89903309	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C7orf63	NM_001039706	exon9	c.A869G	p.K290R	.	.	452	14	478	1	.	91
C8A	731	bcgsc.ca	37	1	57383315	57383315	+	Missense_Mutation	SNP	G	G	C	rs1342440	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C8A	NM_000562	exon11	c.G1681C	p.E561Q	.	.	244	8	233	0	G|0.716;C|0.284	92
C9orf171	389799	bcgsc.ca	37	9	135374898	135374898	+	Silent	SNP	T	T	C	rs562350	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	C9orf171	NM_207417	exon4	c.T543C	p.N181N	.	.	123	7	119	0	T|0.357;C|0.643	157
CABLES2	81928	bcgsc.ca	37	20	60968547	60968547	+	Missense_Mutation	SNP	A	A	G	rs41284972	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CABLES2	NM_031215	exon6	c.T829C	p.S277P	.	.	91	7	87	0	A|0.936;G|0.064	91
CACNA1B	774	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	141008900	141008900	+	Silent	SNP	C	C	G	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CACNA1B	NM_001243812	exon40	c.C5607G	p.T1869T	.	.	54	18	53	0	.	138
CACNA2D3	55799	bcgsc.ca	37	3	54798258	54798258	+	Silent	SNP	G	G	A	rs3732748	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CACNA2D3	NM_018398	exon13	c.G1260A	p.Q420Q	.	.	92	5	83	0	G|0.597;A|0.403	138
CALHM1	255022	hgsc.bcm.edu;bcgsc.ca	37	10	105217980	105217980	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CALHM1	NM_001001412	exon1	c.G529A	p.V177M	.	.	116	6	90	0	.	91
CALU	813	bcgsc.ca	37	7	128394606	128394606	+	Missense_Mutation	SNP	C	C	T	rs2307040	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CALU	NM_001199672	exon4	c.C269T	p.A90V	.	.	223	8	254	0	C|0.785;T|0.215	90
CAPZA1	829	bcgsc.ca	37	1	113197203	113197203	+	Silent	SNP	A	A	G	rs3790599	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CAPZA1	NM_006135	exon5	c.A336G	p.E112E	.	.	316	14	361	0	A|0.935;G|0.065	514
CARD18	59082	broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	105009649	105009649	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CARD18	NM_021571	exon2	c.G164T	p.R55L	.	.	193	50	139	1	.	206
CARD18	59082	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	105009776	105009776	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CARD18	NM_021571	exon2	c.T37G	p.F13V	.	.	146	38	82	1	.	206
CARD9	64170	bcgsc.ca	37	9	139265088	139265088	+	Silent	SNP	C	C	T	rs59902911	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CARD9	NM_052813	exon5	c.G693A	p.T231T	.	.	69	5	79	0	C|0.955;T|0.045	229
CARD9	64170	bcgsc.ca	37	9	139266405	139266405	+	Silent	SNP	G	G	A	rs10781499	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CARD9	NM_052813	exon2	c.C126T	p.P42P	.	.	105	6	72	0	G|0.634;A|0.366	229
CASP9	842	bcgsc.ca	37	1	15832543	15832543	+	Missense_Mutation	SNP	T	T	C	rs1052576	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CASP9	NM_001229	exon5	c.A662G	p.Q221R	.	.	164	12	162	1	T|0.410;C|0.590	1083
CASP9	842	ucsc.edu;bcgsc.ca	37	1	15844615	15844615	+	Silent	SNP	A	A	G	rs1132312	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CASP9	NM_001229	exon2	c.T408C	p.F136F	.	.	84	9	87	1	G|0.586;A|0.414	1083
CAV3	859	bcgsc.ca	37	3	8775661	8775661	+	Silent	SNP	C	C	T	rs1008642	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CAV3	NM_033337	exon1	c.C99T	p.N33N	.	.	122	8	78	0	C|0.636;T|0.364	522
CC2D2A	57545	bcgsc.ca	37	4	15569018	15569018	+	Silent	SNP	G	G	A	rs73125627	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CC2D2A	NM_001080522	exon26	c.G3201A	p.S1067S	.	.	295	11	340	1	G|0.819;A|0.181	25
CCDC109B	55013	bcgsc.ca	37	4	110603784	110603784	+	Silent	SNP	T	T	C	rs3733611	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCDC109B	NM_017918	exon5	c.T498C	p.S166S	.	.	127	6	135	0	C|0.694;N|0.000	90
CCDC168	643677	bcgsc.ca	37	13	103388764	103388764	+	Silent	SNP	T	T	C	rs113711522	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001146197	exon4	c.A14283G	p.V4761V	.	.	130	7	133	0	T|0.996;C|0.004	.
CCDC174	51244	bcgsc.ca	37	3	14712473	14712473	+	Silent	SNP	G	G	A	rs1901	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_016474	exon11	c.G1176A	p.P392P	.	.	172	8	188	1	G|0.629;A|0.371	.
CCDC18	343099	bcgsc.ca	37	1	93672723	93672723	+	Missense_Mutation	SNP	A	A	C	rs2815413	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCDC18	NM_206886	exon9	c.A977C	p.N326T	.	.	745	49	695	0	A|0.230;C|0.770	138
CCDC39	339829	bcgsc.ca	37	3	180377529	180377529	+	Missense_Mutation	SNP	G	G	C	rs112738198	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCDC39	NM_181426	exon5	c.C545G	p.T182S	.	.	112	5	122	0	G|0.983;C|0.017	72
CCDC41	51134	ucsc.edu;bcgsc.ca	37	12	94769758	94769758	+	Silent	SNP	A	A	G	rs4761611	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCDC41	NM_016122	exon8	c.T837C	p.R279R	.	.	82	9	124	1	A|0.153;G|0.847	90
CCDC50	152137	bcgsc.ca	37	3	191093053	191093053	+	Silent	SNP	T	T	C	rs2028572	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCDC50	NM_178335	exon6	c.T651C	p.H217H	.	.	129	5	156	0	T|0.501;C|0.499	90
CCDC50	152137	bcgsc.ca	37	3	191093310	191093310	+	Missense_Mutation	SNP	A	A	G	rs4677728	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCDC50	NM_178335	exon6	c.A908G	p.K303R	.	.	77	6	98	0	A|0.502;G|0.498	90
CCDC50	152137	bcgsc.ca	37	3	191097966	191097966	+	Missense_Mutation	SNP	T	T	C	rs293813	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCDC50	NM_178335	exon7	c.T995C	p.M332T	.	.	455	20	449	0	T|0.396;C|0.603	90
CCDC50	152137	bcgsc.ca	37	3	191100561	191100561	+	Silent	SNP	C	C	A	rs364519	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCDC50	NM_178335	exon10	c.C1269A	p.S423S	.	.	538	13	556	2	A|0.606;C|0.394;G|0.000;T|0.000	90
CCDC66	285331	bcgsc.ca	37	3	56601044	56601044	+	Silent	SNP	G	G	A	rs71309963	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCDC66	NM_001141947	exon6	c.G777A	p.S259S	.	.	168	6	179	1	G|0.963;A|0.037	135
CCDC66	285331	bcgsc.ca	37	3	56649282	56649282	+	Silent	SNP	C	C	T	rs6807338	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCDC66	NM_001141947	exon12	c.C1693T	p.L565L	.	.	654	25	668	0	C|0.948;T|0.052	135
CCDC84	338657	bcgsc.ca	37	11	118886117	118886117	+	Silent	SNP	C	C	T	rs10111	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCDC84	NM_198489	exon10	c.C906T	p.R302R	.	.	123	10	91	0	C|0.763;T|0.237	91
CCDC88B	283234	ucsc.edu;bcgsc.ca	37	11	64109118	64109118	+	Missense_Mutation	SNP	T	T	G	rs647152	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCDC88B	NM_032251	exon7	c.T579G	p.D193E	.	.	95	12	92	1	T|0.649;G|0.351	94
CCR2	729230	bcgsc.ca	37	3	46399798	46399798	+	Silent	SNP	T	T	C	rs1799865	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCR2	NM_001123041	exon2	c.T780C	p.N260N	.	.	119	6	134	1	T|0.668;C|0.332	568
CCRL1	51554	bcgsc.ca	37	3	132319361	132319361	+	Silent	SNP	A	A	C	rs61748105	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CCRL1	NM_178445	exon1	c.A120C	p.A40A	.	.	449	28	435	0	A|0.953;C|0.047	658
CCZ1B	221960	bcgsc.ca	37	7	6844574	6844574	+	Missense_Mutation	SNP	C	C	G	rs75680229	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_198097	exon12	c.G1101C	p.M367I	.	.	313	16	278	0	C|0.523;G|0.477	.
CD109	135228	bcgsc.ca	37	6	74521947	74521947	+	Missense_Mutation	SNP	C	C	T	rs2917862	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CD109	NM_133493	exon29	c.C3722T	p.T1241M	.	.	89	6	137	1	C|0.593;T|0.407	155
CD207	50489	bcgsc.ca	37	2	71060936	71060936	+	Missense_Mutation	SNP	G	G	C	rs17718987	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CD207	NM_015717	exon3	c.C406G	p.Q136E	.	.	195	8	168	0	G|0.840;C|0.160	46
CD4	920	bcgsc.ca	37	12	6928075	6928075	+	Silent	SNP	T	T	C	rs12821756	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CD4	NM_000616	exon9	c.T1341C	p.C447C	.	.	107	11	101	1	T|0.352;C|0.648	90
CD86	942	bcgsc.ca	37	3	121838319	121838319	+	Missense_Mutation	SNP	G	G	A	rs1129055	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CD86	NM_175862	exon7	c.G928A	p.A310T	.	.	405	11	337	0	G|0.642;A|0.358	92
CDC14C	168448	bcgsc.ca	37	7	48964751	48964751	+	RNA	SNP	G	G	A	rs61731347	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	348	10	303	1	G|0.813;A|0.187	.
CDC14C	168448	bcgsc.ca	37	7	48965000	48965000	+	RNA	SNP	G	G	A	rs62456438	bycluster	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	393	19	409	1	G|0.500;A|0.500	.
CDC16	8881	bcgsc.ca	37	13	115004914	115004914	+	Silent	SNP	C	C	T	rs2296971	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CDC16	NM_003903	exon5	c.C330T	p.D110D	.	.	115	5	111	0	C|0.562;T|0.438	226
CDC16	8881	bcgsc.ca	37	13	115004935	115004935	+	Silent	SNP	T	T	C	rs2296970	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CDC16	NM_003903	exon5	c.T351C	p.P117P	.	.	98	5	111	1	T|0.563;C|0.437	226
CDC20B	166979	bcgsc.ca	37	5	54410099	54410099	+	Missense_Mutation	SNP	G	G	A	rs444527	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CDC20B	NM_001170402	exon12	c.C1507T	p.R503W	.	.	179	9	173	0	G|0.861;A|0.139	90
CDCA2	157313	ucsc.edu	37	8	25364834	25364834	+	Missense_Mutation	SNP	A	A	T	rs3829009	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CDCA2	NM_152562	exon15	c.A2652T	p.R884S	.	.	43	4	84	0	A|0.802;T|0.198	90
CDH17	1015	bcgsc.ca	37	8	95188850	95188850	+	Missense_Mutation	SNP	T	T	C	rs2243518	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CDH17	NM_004063	exon5	c.A343G	p.K115E	.	.	246	14	260	0	T|0.193;C|0.807	96
CDH20	28316	bcgsc.ca	37	18	59195354	59195354	+	Missense_Mutation	SNP	C	C	T	rs17068463	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CDH20	NM_031891	exon6	c.C1172T	p.P391L	.	.	146	8	179	0	C|0.993;T|0.007	155
CDH3	1001	bcgsc.ca	37	16	68713823	68713823	+	Silent	SNP	C	C	A	rs2296408	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CDH3	NM_001793	exon7	c.C813A	p.T271T	.	.	106	7	90	0	C|0.367;N|0.000	950
CDH6	1004	bcgsc.ca	37	5	31302288	31302288	+	Silent	SNP	C	C	T	rs2287582	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CDH6	NM_004932	exon6	c.C882T	p.D294D	.	.	293	18	271	0	C|0.591;T|0.409	159
CDH6	1004	ucsc.edu	37	5	31317494	31317494	+	Silent	SNP	C	C	T	rs2302904	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CDH6	NM_004932	exon10	c.C1525T	p.L509L	.	.	77	7	90	2	C|0.513;T|0.487	159
CDH7	1005	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	18	63430231	63430231	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CDH7	NM_004361	exon2	c.G153A	p.W51X	.	.	167	45	154	0	.	94
CEACAM5	1048	bcgsc.ca	37	19	42213888	42213888	+	Silent	SNP	A	A	G	rs118125351	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CEACAM5	NM_004363	exon2	c.A354G	p.G118G	.	.	206	8	192	0	A|0.979;G|0.021	92
CELA2B	51032	bcgsc.ca	37	1	15808872	15808872	+	Missense_Mutation	SNP	G	G	A	rs3766160	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CELA2B	NM_015849	exon4	c.G340A	p.D114N	.	.	176	9	183	0	G|0.715;A|0.285	91
CELA3A	10136	bcgsc.ca	37	1	22336305	22336305	+	Silent	SNP	C	C	T	rs9187	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CELA3A	NM_005747	exon7	c.C750T	p.P250P	.	.	182	9	217	0	C|0.737;T|0.263	45
CELA3A	10136	bcgsc.ca	37	1	22336308	22336308	+	Silent	SNP	G	G	A	rs12908	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CELA3A	NM_005747	exon7	c.G753A	p.T251T	.	.	189	10	224	0	G|0.745;A|0.255	45
CELSR1	9620	bcgsc.ca	37	22	46930107	46930107	+	Silent	SNP	C	C	T	rs8141744	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CELSR1	NM_014246	exon1	c.G2961A	p.V987V	.	.	98	8	102	1	C|0.794;T|0.206	525
CENPC1	1060	bcgsc.ca	37	4	68374597	68374597	+	Silent	SNP	C	C	T	rs1056789	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CENPC1	NM_001812	exon10	c.G1839A	p.S613S	.	.	125	9	94	1	C|0.328;T|0.672	205
CENPC1	1060	bcgsc.ca	37	4	68380215	68380215	+	Missense_Mutation	SNP	G	G	A	rs11250	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CENPC1	NM_001812	exon8	c.C1021T	p.L341F	.	.	188	12	149	0	G|0.299;A|0.701	205
CENPC1	1060	bcgsc.ca	37	4	68384008	68384008	+	Silent	SNP	C	C	T	rs355510	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CENPC1	NM_001812	exon7	c.G696A	p.S232S	.	.	159	12	156	0	C|0.352;T|0.648	205
CENPE	1062	bcgsc.ca	37	4	104061993	104061993	+	Missense_Mutation	SNP	C	C	G	rs1381657	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CENPE	NM_001813	exon36	c.G5732C	p.S1911T	.	.	170	11	180	0	C|0.816;G|0.184	277
CENPE	1062	bcgsc.ca	37	4	104062171	104062171	+	Silent	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CENPE	NM_001813	exon36	c.C5554T	p.L1852L	.	.	157	7	137	0	.	277
CENPE	1062	bcgsc.ca	37	4	104062223	104062223	+	Silent	SNP	C	C	T	rs1381658	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CENPE	NM_001813	exon36	c.G5502A	p.T1834T	.	.	133	12	155	0	C|0.861;T|0.139	277
CENPF	1063	bcgsc.ca	37	1	214826196	214826196	+	Missense_Mutation	SNP	G	G	A	rs335524	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CENPF	NM_016343	exon16	c.G8186A	p.R2729Q	.	.	315	9	259	0	G|0.442;T|0.117	567
CEP112	201134	bcgsc.ca	37	17	64025331	64025331	+	Silent	SNP	A	A	G	rs11652766	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CEP112	NM_001199165	exon14	c.T1413C	p.N471N	.	.	182	12	179	0	A|0.507;G|0.493	90
CEP112	201134	ucsc.edu;bcgsc.ca	37	17	64023624	64023624	+	Missense_Mutation	SNP	T	T	C	rs17704679	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CEP112	NM_001199165	exon16	c.A1651G	p.K551E	.	.	514	56	500	1	C|0.475;N|0.000	90
CEP120	153241	bcgsc.ca	37	5	122685727	122685727	+	Missense_Mutation	SNP	C	C	G	rs1047437	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CEP120	NM_153223	exon20	c.G2637C	p.Q879H	.	.	160	8	193	0	C|0.686;G|0.314	91
CEP290	80184	bcgsc.ca	37	12	88481632	88481632	+	Silent	SNP	T	T	C	rs117122459	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CEP290	NM_025114	exon32	c.A4119G	p.K1373K	.	.	405	16	373	0	T|0.983;C|0.017	96
CEPT1	10390	bcgsc.ca	37	1	111726869	111726869	+	Silent	SNP	G	G	A	rs3795823	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CEPT1	NM_006090	exon9	c.G1188A	p.A396A	.	.	87	6	98	0	G|0.797;N|0.000	90
CES1	1066	ucsc.edu	37	16	55862824	55862824	+	Missense_Mutation	SNP	C	C	T	rs3826192		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CES1	NM_001025195	exon2	c.G115A	p.V39I	.	.	92	12	88	2	C|0.998;T|0.002	68
CFB	629	bcgsc.ca	37	6	31916261	31916261	+	Silent	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CFB	NM_001710	exon7	c.G1008A	p.T336T	.	.	94	6	71	0	.	91
CFH	3075	bcgsc.ca	37	1	196695742	196695742	+	Silent	SNP	A	A	G	rs3753396	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CFH	NM_000186	exon13	c.A2016G	p.Q672Q	.	.	632	17	471	0	A|0.777;G|0.223	566
CHGB	1114	bcgsc.ca	37	20	5903388	5903388	+	Missense_Mutation	SNP	A	A	C	rs881118	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CHGB	NM_001819	exon4	c.A598C	p.N200H	.	.	221	8	198	0	A|0.887;C|0.113	96
CHIT1	1118	bcgsc.ca	37	1	203186947	203186947	+	Missense_Mutation	SNP	G	G	C	rs201682373	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CHIT1	NM_003465	exon10	c.C1076G	p.A359G	.	.	74	14	40	0	G|0.988;C|0.012	90
CHRNB1	1140	bcgsc.ca	37	17	7348625	7348625	+	Missense_Mutation	SNP	A	A	G	rs17856697	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CHRNB1	NM_000747	exon2	c.A95G	p.E32G	.	.	83	9	76	0	A|0.777;G|0.223	92
CHST5	23563	bcgsc.ca	37	16	75563746	75563746	+	Silent	SNP	T	T	G	rs8048818	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CHST5	NM_024533	exon3	c.A537C	p.P179P	.	.	63	5	57	0	T|0.771;G|0.229	90
CHUK	1147	bcgsc.ca	37	10	101977883	101977883	+	Missense_Mutation	SNP	C	C	T	rs2230804	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CHUK	NM_001278	exon9	c.G802A	p.V268I	.	.	175	7	194	0	C|0.431;T|0.569	961
CLASP2	23122	bcgsc.ca	37	3	33728610	33728610	+	Missense_Mutation	SNP	A	A	G	rs61738888	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CLASP2	NM_015097	exon5	c.T488C	p.L163P	.	.	560	27	618	3	A|0.934;G|0.066	93
CLCA1	1179	bcgsc.ca	37	1	86961210	86961210	+	Silent	SNP	C	C	T	rs5744408	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CLCA1	NM_001285	exon12	c.C1965T	p.D655D	.	.	143	7	140	0	C|0.973;T|0.027	91
CLCN7	1186	bcgsc.ca	37	16	1502857	1502857	+	Missense_Mutation	SNP	C	C	T	rs12926089	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CLCN7	NM_001287	exon15	c.G1252A	p.V418M	.	.	103	6	120	0	C|0.889;T|0.111	92
CLCN7	1186	bcgsc.ca	37	16	1502864	1502864	+	Silent	SNP	A	A	G	rs12926669	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CLCN7	NM_001287	exon15	c.T1245C	p.I415I	.	.	99	6	116	0	A|0.912;G|0.088	92
CLCNKA	1187	bcgsc.ca	37	1	16356501	16356501	+	Missense_Mutation	SNP	G	G	A	rs1805152	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CLCNKA	NM_004070	exon14	c.G1339A	p.A447T	.	.	65	6	61	0	G|0.378;A|0.622	91
CLEC4D	338339	bcgsc.ca	37	12	8667897	8667897	+	Missense_Mutation	SNP	A	A	G	rs4304840	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CLEC4D	NM_080387	exon2	c.A94G	p.S32G	.	.	163	10	167	0	A|0.678;G|0.322	90
CLEC4G	339390	bcgsc.ca	37	19	7796587	7796587	+	Silent	SNP	T	T	G	rs117034642	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CLEC4G	NM_198492	exon2	c.A126C	p.T42T	.	.	199	19	216	2	T|0.949;G|0.051	90
CLN5	1203	bcgsc.ca	37	13	77574983	77574983	+	Missense_Mutation	SNP	A	A	G	rs1800209	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CLN5	NM_006493	exon4	c.A1103G	p.K368R	.	.	191	13	183	0	A|0.774;G|0.226	91
CLOCK	9575	bcgsc.ca	37	4	56309992	56309992	+	Silent	SNP	A	A	G	rs3736544	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CLOCK	NM_004898	exon20	c.T1764C	p.N588N	.	.	118	8	129	0	A|0.319;G|0.681	515
CNGA1	1259	bcgsc.ca	37	4	47945295	47945295	+	Missense_Mutation	SNP	C	C	T	rs28642966	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CNGA1	NM_001142564	exon7	c.G559A	p.D187N	.	.	247	10	265	0	C|0.787;T|0.213	92
CNOT11	55571	bcgsc.ca	37	2	101879023	101879023	+	Silent	SNP	G	G	A	rs1007752	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_017546	exon3	c.G702A	p.T234T	.	.	328	9	357	1	G|0.972;A|0.028	.
CNRIP1	25927	ucsc.edu;bcgsc.ca	37	2	68546374	68546374	+	Silent	SNP	T	T	C	rs4671898	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CNRIP1	NM_001111101	exon1	c.A159G	p.K53K	.	.	58	6	75	0	C|0.424;N|0.000	69
CNTLN	54875	bcgsc.ca	37	9	17415987	17415987	+	Missense_Mutation	SNP	A	A	G	rs181881003	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CNTLN	NM_017738	exon18	c.A2914G	p.I972V	.	.	451	13	428	1	A|0.998;G|0.002	91
CNTN6	27255	bcgsc.ca	37	3	1424718	1424718	+	Silent	SNP	G	G	A	rs2291101	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CNTN6	NM_014461	exon18	c.G2259A	p.V753V	.	.	220	8	246	0	G|0.557;A|0.443	345
CNTNAP3	79937	bcgsc.ca	37	9	39171471	39171471	+	Missense_Mutation	SNP	C	C	T	rs143761191	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CNTNAP3	NM_033655	exon8	c.G1228A	p.G410S	.	.	458	18	467	0	C|0.972;A|0.000	91
CNTNAP3	79937	bcgsc.ca	37	9	39178215	39178215	+	Silent	SNP	T	T	C	rs138164531	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CNTNAP3	NM_033655	exon5	c.A681G	p.Q227Q	.	.	1448	47	1435	4	T|0.987;C|0.013	91
CNTNAP5	129684	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	125320882	125320882	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CNTNAP5	NM_130773	exon11	c.G1735T	p.G579C	.	.	72	14	91	0	.	524
CNTRL	11064	bcgsc.ca	37	9	123850770	123850770	+	Missense_Mutation	SNP	G	G	A	rs10818503	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CNTRL	NM_007018	exon1	c.G166A	p.V56I	.	.	191	6	179	1	G|0.403;A|0.597	661
COBLL1	22837	bcgsc.ca	37	2	165586466	165586466	+	Silent	SNP	T	T	C	rs13392281	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COBLL1	NM_014900	exon3	c.A390G	p.P130P	.	.	223	11	224	1	T|0.804;C|0.196	93
COG3	83548	bcgsc.ca	37	13	46067593	46067593	+	Silent	SNP	G	G	A	rs2985959	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COG3	NM_031431	exon12	c.G1299A	p.E433E	.	.	181	13	165	0	G|0.624;A|0.376	154
COL10A1	1300	bcgsc.ca	37	6	116441470	116441470	+	Silent	SNP	C	C	G	rs2228548	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COL10A1	NM_000493	exon3	c.G1809C	p.V603V	.	.	126	7	180	0	C|0.718;G|0.282	90
COL15A1	1306	bcgsc.ca	37	9	101822220	101822220	+	Silent	SNP	C	C	T	rs4480177	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COL15A1	NM_001855	exon36	c.C3387T	p.P1129P	.	.	122	7	122	0	C|0.706;T|0.294	96
COL15A1	1306	bcgsc.ca	37	9	101831995	101831995	+	Missense_Mutation	SNP	G	G	A	rs10519	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COL15A1	NM_001855	exon42	c.G3994A	p.V1332I	.	.	114	7	116	0	G|0.860;A|0.140	96
COL1A2	1278	bcgsc.ca	37	7	94043239	94043239	+	Missense_Mutation	SNP	C	C	G	rs42524	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COL1A2	NM_000089	exon28	c.C1645G	p.P549A	.	.	95	7	103	0	C|0.189;G|0.811	521
COL24A1	255631	bcgsc.ca	37	1	86488232	86488232	+	Missense_Mutation	SNP	G	G	A	rs641712	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COL24A1	NM_152890	exon17	c.C2191T	p.P731S	.	.	258	8	290	0	G|0.700;A|0.300	94
COL27A1	85301	bcgsc.ca	37	9	117063396	117063396	+	Silent	SNP	G	G	A	rs73656040	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COL27A1	NM_032888	exon52	c.G4746A	p.S1582S	.	.	107	6	104	0	G|0.946;A|0.054	94
COL6A3	1293	bcgsc.ca	37	2	238243369	238243369	+	Silent	SNP	G	G	A	rs10201909	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COL6A3	NM_004369	exon41	c.C9129T	p.R3043R	.	.	188	10	156	0	G|0.933;A|0.067	526
COL6A6	131873	bcgsc.ca	37	3	130346185	130346185	+	Missense_Mutation	SNP	A	A	G	rs141836516	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COL6A6	NM_001102608	exon25	c.A4964G	p.Y1655C	.	.	196	6	206	2	A|0.987;G|0.013	76
COL6A6	131873	bcgsc.ca	37	3	130360527	130360527	+	Missense_Mutation	SNP	C	C	T	rs61629992	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COL6A6	NM_001102608	exon28	c.C5123T	p.S1708F	.	.	760	31	666	0	C|0.951;T|0.049	76
COL9A1	1297	bcgsc.ca	37	6	70963124	70963124	+	Silent	SNP	A	A	C	rs9346373	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COL9A1	NM_001851	exon26	c.T1728G	p.P576P	.	.	236	14	341	2	A|0.831;C|0.169	94
COMMD10	51397	bcgsc.ca	37	5	115428334	115428334	+	Silent	SNP	G	G	T	rs1129494	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COMMD10	NM_016144	exon4	c.G336T	p.T112T	.	.	108	5	117	0	G|0.536;T|0.464	91
COMMD10	51397	bcgsc.ca	37	5	115469773	115469773	+	Silent	SNP	C	C	T	rs1129496	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COMMD10	NM_016144	exon5	c.C408T	p.T136T	.	.	132	6	115	1	C|0.522;T|0.478	91
COQ7	10229	bcgsc.ca	37	16	19087167	19087167	+	Silent	SNP	C	C	T	rs34688983	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	COQ7	NM_016138	exon4	c.C492T	p.Y164Y	.	.	107	5	131	0	C|0.994;T|0.006	91
CPA6	57094	bcgsc.ca	37	8	68421768	68421768	+	Missense_Mutation	SNP	G	G	C	rs17853192	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CPA6	NM_020361	exon5	c.C518G	p.S173C	.	.	230	13	275	0	G|0.925;C|0.075	92
CPED1	79974	bcgsc.ca	37	7	120776097	120776097	+	Missense_Mutation	SNP	C	C	G	rs41281692	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001105533	exon13	c.C1652G	p.A551G	.	.	376	18	337	3	C|0.571;G|0.429	.
CPM	1368	bcgsc.ca	37	12	69260779	69260779	+	Silent	SNP	C	C	T	rs33925480	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CPM	NM_001005502	exon7	c.G837A	p.T279T	.	.	316	17	276	1	C|0.903;T|0.097	650
CPNE8	144402	bcgsc.ca	37	12	39087609	39087609	+	Silent	SNP	G	G	A	rs3759139	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CPNE8	NM_153634	exon15	c.C993T	p.Y331Y	.	.	159	8	149	0	G|0.695;A|0.305	91
CR1L	1379	bcgsc.ca	37	1	207850879	207850879	+	Silent	SNP	C	C	T	rs34509370	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CR1L	NM_175710	exon2	c.C243T	p.N81N	.	.	372	13	247	0	C|0.836;T|0.164	46
CR1L	1379	bcgsc.ca	37	1	207851611	207851611	+	Missense_Mutation	SNP	A	A	G	rs2296158	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CR1L	NM_175710	exon3	c.A346G	p.R116G	.	.	243	10	177	1	A|0.474;G|0.526	46
CR1L	1379	bcgsc.ca	37	1	207872595	207872595	+	Missense_Mutation	SNP	A	A	G	rs12729569	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CR1L	NM_175710	exon8	c.A1204G	p.N402D	.	.	598	24	378	3	A|0.831;G|0.169	46
CREBBP	1387	hgsc.bcm.edu;bcgsc.ca	37	16	3808916	3808916	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CREBBP	NM_004380	exon17	c.G3308T	p.R1103L	.	.	144	9	115	0	.	1807
CROCC	9696	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	17273378	17273378	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CROCC	NM_014675	exon17	c.G2406C	p.Q802H	.	.	125	26	126	1	.	137
CRTAP	10491	bcgsc.ca	37	3	33174156	33174156	+	Silent	SNP	T	T	G	rs1135127	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CRTAP	NM_006371	exon5	c.T1032G	p.T344T	.	.	123	5	121	0	T|0.645;G|0.355	90
CRYBA1	1411	bcgsc.ca	37	17	27580756	27580756	+	Silent	SNP	C	C	T	rs1047790	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CRYBA1	NM_005208	exon5	c.C456T	p.G152G	.	.	139	6	109	0	C|0.756;T|0.244	90
CSMD1	64478	bcgsc.ca	37	8	3855508	3855508	+	Silent	SNP	G	G	C	rs71521901	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CSMD1	NM_033225	exon5	c.C735G	p.T245T	.	.	52	5	85	0	G|0.992;C|0.008	86
CSPG4	1464	bcgsc.ca	37	15	75982239	75982239	+	Silent	SNP	G	G	A	rs148229217	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CSPG4	NM_001897	exon3	c.C1167T	p.D389D	.	.	77	6	74	0	G|0.899;A|0.101	229
CTAGE7P	119437	bcgsc.ca	37	10	131906096	131906096	+	RNA	SNP	C	C	T	rs55975328	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	208	12	225	0	C|0.841;T|0.159	.
CTDP1	9150	bcgsc.ca	37	18	77473086	77473086	+	Silent	SNP	G	G	A	rs599554	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CTDP1	NM_004715	exon7	c.G978A	p.T326T	.	.	168	6	202	0	A|0.215;C|0.003	90
CTH	1491	bcgsc.ca	37	1	70904800	70904800	+	Missense_Mutation	SNP	G	G	T	rs1021737	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CTH	NM_001902	exon12	c.G1208T	p.S403I	.	.	205	9	203	0	G|0.779;T|0.221	91
CTNNB1	1499	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	41266107	41266107	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	CTNNB1,NS,carcinoma,0	CTNNB1	NM_001098209	exon3	c.T104G	p.I35S	.	.	140	46	140	0	.	24361
CTSL3P	392360	bcgsc.ca	37	9	90388370	90388370	+	RNA	SNP	G	G	A	rs7853691	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	72	5	74	0	G|0.577;A|0.423	.
CXorf21	80231	ucsc.edu;bcgsc.ca	37	X	30577846	30577846	+	Silent	SNP	A	A	C	rs887369	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CXorf21	NM_025159	exon3	c.T627G	p.V209V	.	.	112	13	90	0	A|0.160;0|0.002	131
CXorf30	645090	bcgsc.ca	37	X	36403036	36403036	+	Missense_Mutation	SNP	A	A	G	rs6527569	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CXorf30	NM_001098843	exon19	c.A1817G	p.H606R	.	.	283	12	339	0	A|0.585;0|0.030	62
CYFIP1	23191	bcgsc.ca	37	15	22939192	22939192	+	Silent	SNP	G	G	A	rs11633474	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CYFIP1	NM_014608	exon10	c.G918A	p.P306P	.	.	384	19	311	0	G|0.574;A|0.426	99
CYP2A7	1549	bcgsc.ca	37	19	41383215	41383215	+	Silent	SNP	G	G	C	rs2302986	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CYP2A7	NM_000764	exon7	c.C1041G	p.T347T	.	.	167	10	132	0	G|0.904;C|0.096	93
CYP2A7	1549	bcgsc.ca	37	19	41386033	41386033	+	Missense_Mutation	SNP	T	T	C	rs73032311	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CYP2A7	NM_000764	exon4	c.A610G	p.M204V	.	.	131	9	128	0	T|0.862;C|0.138	93
CYP2A7	1549	bcgsc.ca	37	19	41386136	41386136	+	Missense_Mutation	SNP	A	A	C	rs4142867	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CYP2A7	NM_000764	exon4	c.T507G	p.D169E	.	.	160	7	142	1	A|0.502;C|0.498	93
CYP2D7P1	1564	broad.mit.edu;ucsc.edu	37	22	42538489	42538489	+	RNA	SNP	G	G	A	rs151338796	by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	73	7	73	1	G|0.983;A|0.017	.
CYP2R1	120227	bcgsc.ca	37	11	14913575	14913575	+	Silent	SNP	G	G	A	rs12794714	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CYP2R1	NM_024514	exon1	c.C177T	p.S59S	.	.	228	10	204	1	G|0.659;A|0.341	91
CYP4F3	4051	bcgsc.ca	37	19	15760053	15760053	+	Silent	SNP	G	G	A	rs1053037	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CYP4F3	NM_001199209	exon6	c.G609A	p.L203L	.	.	91	5	80	0	G|0.880;A|0.120	93
CYTH3	9265	bcgsc.ca	37	7	6204999	6204999	+	Silent	SNP	A	A	C	rs2301910	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	CYTH3	NM_004227	exon12	c.T1032G	p.T344T	.	.	166	11	163	1	C|0.770;A|0.230	227
DAAM1	23002	bcgsc.ca	37	14	59789727	59789727	+	Silent	SNP	G	G	A	rs8022614	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DAAM1	NM_001270520	exon6	c.G558A	p.K186K	.	.	101	6	111	0	G|0.684;A|0.316	227
DAW1	164781	bcgsc.ca	37	2	228736313	228736313	+	Missense_Mutation	SNP	G	G	T	rs12478068	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	120	6	108	1	G|0.452;T|0.548	.
DBC1	1620	bcgsc.ca	37	9	121929575	121929575	+	Silent	SNP	T	T	C	rs28453	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DBC1	NM_014618	exon8	c.A2073G	p.S691S	.	.	124	7	146	0	T|0.799;C|0.201	582
DBC1	1620	bcgsc.ca	37	9	122001000	122001000	+	Silent	SNP	G	G	A	rs2274157	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DBC1	NM_014618	exon5	c.C618T	p.S206S	.	.	109	7	79	0	A|0.391;C|0.004	582
DBX2	440097	bcgsc.ca	37	12	45410075	45410075	+	Silent	SNP	A	A	G	rs1224442	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DBX2	NM_001004329	exon4	c.T1014C	p.A338A	.	.	107	7	105	2	A|0.347;G|0.653	90
DCAF8L2	347442	bcgsc.ca	37	X	27766404	27766404	+	Silent	SNP	G	G	A	rs61730884	byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DCAF8L2	NM_001136533	exon1	c.G1392A	p.K464K	.	.	105	7	166	0	G|0.999;A|0.001	42
DCHS2	54798	bcgsc.ca	37	4	155219361	155219361	+	Silent	SNP	A	A	G	rs17031387	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DCHS2	NM_017639	exon18	c.T4740C	p.D1580D	.	.	252	10	248	0	A|0.826;G|0.174	94
DDX18	8886	bcgsc.ca	37	2	118575215	118575215	+	Missense_Mutation	SNP	C	C	G	rs1052637	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DDX18	NM_006773	exon2	c.C281G	p.T94S	.	.	364	29	374	1	C|0.548;G|0.452	290
DDX21	9188	bcgsc.ca	37	10	70716061	70716061	+	Missense_Mutation	SNP	C	C	T	rs17556220	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DDX21	NM_004728	exon1	c.C80T	p.T27I	.	.	263	11	249	0	C|0.989;T|0.011	228
DDX47	51202	bcgsc.ca	37	12	12967127	12967127	+	Silent	SNP	C	C	T	rs1051374	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DDX47	NM_201224	exon2	c.C150T	p.I50I	.	.	195	16	177	4	C|0.687;T|0.313	226
DEFB114	245928	bcgsc.ca	37	6	49928116	49928116	+	Silent	SNP	G	G	A	rs17736782	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DEFB114	NM_001037499	exon2	c.C99T	p.Y33Y	.	.	162	6	108	0	G|0.916;A|0.084	91
DEFB129	140881	ucsc.edu;bcgsc.ca	37	20	210306	210306	+	Missense_Mutation	SNP	C	C	G	rs1053783	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DEFB129	NM_080831	exon2	c.C446G	p.T149S	.	.	53	5	61	0	C|0.798;G|0.202	91
DEK	7913	bcgsc.ca	37	6	18256625	18256625	+	Missense_Mutation	SNP	A	A	G	rs17336208	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DEK	NM_003472	exon5	c.T419C	p.V140A	.	.	904	24	608	2	A|0.962;G|0.038	658
DHRS4L2	317749	bcgsc.ca	37	14	24458211	24458211	+	Missense_Mutation	SNP	A	A	T	rs2273947	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DHRS4L2	NM_198083	exon1	c.A55T	p.M19L	.	.	61	6	68	0	A|0.855;T|0.145	91
DHRSX	207063	bcgsc.ca	37	X	2139186	2139186	+	Missense_Mutation	SNP	C	C	T	rs12010	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_145177	exon7	c.G889A	p.E297K	.	.	276	10	247	0	C|0.668;T|0.332	.
DHX33	56919	bcgsc.ca	37	17	5354204	5354204	+	Missense_Mutation	SNP	G	G	C	rs11653658	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DHX33	NM_020162	exon9	c.C1447G	p.H483D	.	.	121	6	161	0	G|0.935;C|0.065	228
DIAPH2	1730	ucsc.edu;bcgsc.ca	37	X	96171567	96171567	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DIAPH2	NM_007309	exon8	c.A863T	p.E288V	.	.	436	170	303	3	.	133
DIMT1	27292	bcgsc.ca	37	5	61694379	61694379	+	Silent	SNP	T	T	C	rs247264	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_014473	exon6	c.A405G	p.S135S	.	.	471	33	481	3	T|0.438;C|0.562	.
DIS3L	115752	bcgsc.ca	37	15	66625161	66625161	+	Silent	SNP	A	A	G	rs11071885	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DIS3L	NM_001143688	exon16	c.A2769G	p.P923P	.	.	186	8	187	0	A|0.924;G|0.076	92
DLK2	65989	bcgsc.ca	37	6	43418691	43418691	+	Silent	SNP	G	G	A	rs1214748	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DLK2	NM_023932	exon6	c.C738T	p.T246T	.	.	142	8	67	0	A|0.330;C|0.006	68
DLK2	65989	bcgsc.ca	37	6	43418733	43418733	+	Silent	SNP	G	G	A	rs1214749	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DLK2	NM_023932	exon6	c.C696T	p.H232H	.	.	119	6	64	0	G|0.662;A|0.338	68
DLL3	10683	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	39995967	39995967	+	Missense_Mutation	SNP	C	C	A	rs139638161	alternate_allele	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DLL3	NM_016941	exon6	c.C969A	p.N323K	.	.	81	23	91	1	C|0.999;T|0.001	1083
DLX5	1749	ucsc.edu;bcgsc.ca	37	7	96650216	96650216	+	Missense_Mutation	SNP	G	G	T	rs35273378	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DLX5	NM_005221	exon3	c.C702A	p.S234R	.	.	53	5	55	0	T|0.005;G|0.720;C|0.274	515
DMGDH	29958	bcgsc.ca	37	5	78326750	78326750	+	Missense_Mutation	SNP	G	G	C	rs1805073	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DMGDH	NM_013391	exon10	c.C1589G	p.A530G	.	.	160	10	160	0	G|0.578;C|0.422	94
DMRT3	58524	bcgsc.ca	37	9	990840	990840	+	Silent	SNP	C	C	T	rs7021244	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DMRT3	NM_021240	exon2	c.C1254T	p.V418V	.	.	70	5	64	0	C|0.827;N|0.000	516
DMXL1	1657	bcgsc.ca	37	5	118506807	118506807	+	Silent	SNP	A	A	G	rs76475084	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DMXL1	NM_005509	exon24	c.A6321G	p.T2107T	.	.	146	6	129	1	A|0.963;G|0.037	92
DMXL1	1657	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	118506315	118506315	+	Silent	SNP	A	A	G	rs146673073	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DMXL1	NM_005509	exon24	c.A5829G	p.Q1943Q	.	.	124	41	133	0	A|1.000;G|0.000	92
DNAH11	8701	bcgsc.ca	37	7	21659645	21659645	+	Silent	SNP	T	T	C	rs56029521	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNAH11	.	.	.	.	.	.	463	12	462	0	T|0.555;C|0.445	146
DNAH12	201625	bcgsc.ca	37	3	57494138	57494138	+	Missense_Mutation	SNP	A	A	C	rs6445902	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNAH12	NM_198564	exon7	c.T672G	p.D224E	.	.	114	9	93	0	A|0.746;C|0.254	47
DNAH12	201625	broad.mit.edu;bcgsc.ca;mdanderson.org	37	3	57414097	57414097	+	Missense_Mutation	SNP	T	T	A	rs17793014	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNAH12	NM_178504	exon35	c.A5262T	p.K1754N	.	.	358	34	400	0	T|0.739;A|0.261	47
DNAH14	127602	bcgsc.ca	37	1	225534219	225534219	+	Missense_Mutation	SNP	T	T	C	rs7527925	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNAH14	NM_001373	exon69	c.T10880C	p.V3627A	.	.	568	17	397	0	T|0.500;C|0.500	23
DNAH17	8632	bcgsc.ca	37	17	76522784	76522784	+	Silent	SNP	G	G	A	rs61744545	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNAH17	NM_173628	exon24	c.C3660T	p.R1220R	.	.	96	5	97	0	G|0.933;A|0.067	142
DNAH5	1767	bcgsc.ca	37	5	13719022	13719022	+	Silent	SNP	T	T	G	rs30169	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNAH5	NM_001369	exon72	c.A12468C	p.G4156G	.	.	113	6	150	0	T|0.596;G|0.404	182
DNAH5	1767	bcgsc.ca	37	5	13902220	13902220	+	Missense_Mutation	SNP	T	T	C	rs1530498	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNAH5	NM_001369	exon13	c.A1672G	p.T558A	.	.	130	5	78	1	T|0.601;C|0.399	182
DNAJA4	55466	bcgsc.ca	37	15	78565478	78565478	+	Silent	SNP	C	C	T	rs7163689	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNAJA4	NM_018602	exon4	c.C442T	p.L148L	.	.	649	39	614	4	C|0.544;T|0.456	226
DNAJB8	165721	bcgsc.ca	37	3	128181537	128181537	+	Silent	SNP	C	C	T	rs2953129	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNAJB8	NM_153330	exon3	c.G552A	p.S184S	.	.	91	8	62	0	C|0.820;T|0.180	226
DNAJB9	4189	bcgsc.ca	37	7	108212353	108212353	+	Silent	SNP	G	G	A	rs1043615	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNAJB9	NM_012328	exon2	c.G183A	p.P61P	.	.	223	15	188	0	G|0.543;A|0.457	226
DNAJC13	23317	bcgsc.ca	37	3	132229997	132229997	+	Silent	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNAJC13	NM_015268	exon44	c.G5202A	p.A1734A	.	.	169	6	191	0	.	272
DNAJC5B	85479	bcgsc.ca	37	8	66992704	66992704	+	Silent	SNP	C	C	T	rs78575551	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNAJC5B	NM_033105	exon5	c.C426T	p.P142P	.	.	55	5	66	0	C|0.998;T|0.002	226
DNHD1	144132	bcgsc.ca	37	11	6567591	6567591	+	Missense_Mutation	SNP	C	C	T	rs145119715	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNHD1	NM_144666	exon21	c.C5422T	p.R1808C	.	.	45	5	51	0	C|0.981;T|0.019	24
DNM1L	10059	bcgsc.ca	37	12	32860302	32860302	+	Silent	SNP	G	G	A	rs2272238	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNM1L	NM_012062	exon3	c.G252A	p.G84G	.	.	378	20	443	0	G|0.839;A|0.161	92
DNMBP	23268	ucsc.edu;bcgsc.ca	37	10	101731814	101731814	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DNMBP	NM_015221	exon2	c.T68G	p.L23R	.	.	93	36	101	2	.	233
DOC2A	8448	ucsc.edu;bcgsc.ca	37	16	30018500	30018500	+	Silent	SNP	C	C	T	rs3935873	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DOC2A	NM_003586	exon6	c.G648A	p.Q216Q	.	.	58	6	43	0	C|0.660;T|0.340	92
DOCK10	55619	bcgsc.ca	37	2	225750861	225750861	+	Silent	SNP	C	C	T	rs2304336	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DOCK10	NM_014689	exon6	c.G531A	p.A177A	.	.	116	6	96	0	C|0.784;T|0.216	92
DOCK11	139818	bcgsc.ca	37	X	117732044	117732044	+	Missense_Mutation	SNP	A	A	T	rs16995229	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DOCK11	NM_144658	exon22	c.A2437T	p.I813F	.	.	411	17	224	0	A|0.921;0|0.015	93
DOCK4	9732	bcgsc.ca	37	7	111379198	111379198	+	Missense_Mutation	SNP	G	G	C	rs150569245	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DOCK4	NM_014705	exon48	c.C5197G	p.P1733A	.	.	135	6	123	0	G|0.994;C|0.006	26
DPY19L2P1	554236	bcgsc.ca	37	7	35121274	35121274	+	RNA	SNP	C	C	T	rs2286846	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	202	9	196	1	C|0.953;T|0.047	.
DPYSL3	1809	broad.mit.edu;bcgsc.ca	37	5	146833124	146833124	+	Silent	SNP	G	G	T	rs137909376		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DPYSL3	NM_001387	exon1	c.C27A	p.I9I	.	.	96	9	75	0	G|0.989;T|0.011	91
DRD4	1815	hgsc.bcm.edu	37	11	640119	640119	+	Silent	SNP	C	C	T	rs762502		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DRD4	NM_000797	exon3	c.C870T	p.C290C	.	.	6	6	0	0	C|0.320;T|0.680	90
DSG1	1828	bcgsc.ca	37	18	28934681	28934681	+	Missense_Mutation	SNP	A	A	T	rs3752095	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DSG1	NM_001942	exon15	c.A2522T	p.Y841F	.	.	107	5	115	0	A|0.865;T|0.135	519
DSG2	1829	bcgsc.ca	37	18	29104698	29104698	+	Silent	SNP	C	C	T	rs2230233	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DSG2	NM_001943	exon8	c.C861T	p.N287N	.	.	332	16	299	2	C|0.490;T|0.510	563
DSPP	1834	bcgsc.ca	37	4	88536362	88536362	+	Missense_Mutation	SNP	G	G	A	rs116385272	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DSPP	NM_014208	exon5	c.G2548A	p.G850S	.	.	403	17	350	3	G|0.462;A|0.538	90
DSPP	1834	bcgsc.ca	37	4	88536550	88536550	+	Silent	SNP	T	T	C	rs145589857		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DSPP	NM_014208	exon5	c.T2736C	p.S912S	.	.	319	11	279	4	.	90
DSPP	1834	bcgsc.ca	37	4	88537384	88537384	+	Silent	SNP	T	T	C	rs201295377		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DSPP	NM_014208	exon5	c.T3570C	p.S1190S	.	.	289	12	301	1	.	90
DSPP	1834	bcgsc.ca	37	4	88537405	88537405	+	Silent	SNP	T	T	C	rs114882264	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DSPP	NM_014208	exon5	c.T3591C	p.D1197D	.	.	277	16	283	4	T|0.825;C|0.175	90
DSPP	1834	bcgsc.ca	37	4	88537420	88537420	+	Silent	SNP	C	C	T	rs112989710	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DSPP	NM_014208	exon5	c.C3606T	p.S1202S	.	.	277	19	282	0	C|0.347;T|0.653	90
DST	667	bcgsc.ca	37	6	56420538	56420538	+	Missense_Mutation	SNP	C	C	T	rs11756977	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DST	NM_015548	exon41	c.G6872A	p.R2291H	.	.	208	8	174	1	C|0.677;N|0.002	523
DTHD1	401124	bcgsc.ca	37	4	36317965	36317965	+	Missense_Mutation	SNP	T	T	C	rs60640167	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DTHD1	NM_001170700	exon7	c.T1822C	p.Y608H	.	.	187	7	172	1	T|0.955;C|0.045	46
DTX3L	151636	bcgsc.ca	37	3	122288314	122288314	+	Missense_Mutation	SNP	A	A	G	rs34308498	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DTX3L	NM_138287	exon3	c.A1378G	p.K460E	.	.	177	6	168	0	A|0.988;G|0.012	587
DUS2L	54920	bcgsc.ca	37	16	68072004	68072004	+	Silent	SNP	A	A	G	rs11555012	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DUS2L	NM_001271762	exon2	c.A78G	p.P26P	.	.	128	9	131	0	A|0.963;G|0.037	90
DUSP22	56940	bcgsc.ca	37	6	350829	350829	+	Silent	SNP	G	G	A	rs1129085	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DUSP22	NM_020185	exon8	c.G516A	p.P172P	.	.	237	8	202	0	G|0.581;A|0.419	252
DYDC2	84332	bcgsc.ca	37	10	82122793	82122793	+	Silent	SNP	G	G	A	rs1538818	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DYDC2	NM_001270042	exon3	c.G276A	p.E92E	.	.	194	10	198	2	G|0.915;A|0.085	90
DYNC1I1	1780	bcgsc.ca	37	7	95668664	95668664	+	Silent	SNP	C	C	A	rs1048666	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DYNC1I1	NM_004411	exon14	c.C1491A	p.G497G	.	.	115	7	125	2	C|0.760;A|0.240	94
DZIP3	9666	bcgsc.ca	37	3	108373022	108373022	+	Silent	SNP	G	G	A	rs2969901	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	DZIP3	NM_014648	exon19	c.G2064A	p.L688L	.	.	128	6	118	0	G|0.717;A|0.283	91
EAPP	55837	bcgsc.ca	37	14	34985645	34985645	+	Silent	SNP	G	G	A	rs7797	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EAPP	NM_018453	exon6	c.C729T	p.A243A	.	.	109	6	105	1	G|0.698;A|0.302	91
ECI2	10455	bcgsc.ca	37	6	4133855	4133855	+	Missense_Mutation	SNP	C	C	T	rs3177253	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ECI2	NM_206836	exon2	c.G141A	p.M47I	.	.	218	12	161	0	C|0.821;T|0.179	90
EEF1A2	1917	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	62124514	62124514	+	Silent	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EEF1A2	NM_001958	exon5	c.C748T	p.L250L	.	.	86	28	90	0	.	90
EFCAB2	84288	bcgsc.ca	37	1	245245402	245245402	+	Silent	SNP	C	C	T	rs10927387	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EFCAB2	NM_001143943	exon4	c.C201T	p.P67P	.	.	191	11	114	0	C|0.661;T|0.339	90
EIF2AK1	27102	bcgsc.ca	37	7	6066461	6066461	+	Silent	SNP	T	T	C	rs2639	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EIF2AK1	NM_014413	exon14	c.A1662G	p.P554P	.	.	109	10	84	0	T|0.699;C|0.301	408
EIF2AK2	5610	bcgsc.ca	37	2	37336403	37336403	+	Silent	SNP	G	G	C	rs2307469	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EIF2AK2	NM_001135651	exon15	c.C1413G	p.L471L	.	.	374	16	385	0	G|0.732;C|0.268	794
EIF2AK3	9451	bcgsc.ca	37	2	88895123	88895123	+	Missense_Mutation	SNP	T	T	C	rs13045	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EIF2AK3	NM_004836	exon3	c.A497G	p.Q166R	.	.	232	18	206	1	T|0.298;C|0.702	361
EIF2S3	1968	bcgsc.ca	37	X	24075862	24075862	+	Missense_Mutation	SNP	A	A	G	rs16997659	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EIF2S3	NM_001415	exon4	c.A374G	p.K125R	.	.	115	8	126	1	A|0.888;0|0.013	130
EIF3G	8666	broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	10227651	10227651	+	Silent	SNP	C	C	T	rs148192612	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EIF3G	NM_003755	exon7	c.G420A	p.Q140Q	.	.	91	10	98	0	C|0.999;T|0.001	68
EIF4E	1977	bcgsc.ca	37	4	99802232	99802232	+	Missense_Mutation	SNP	C	C	T	rs200243582		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EIF4E	NM_001130679	exon8	c.G694A	p.A232T	.	.	674	21	681	3	C|0.999;T|0.001	1270
ELAC2	60528	bcgsc.ca	37	17	12915009	12915009	+	Missense_Mutation	SNP	G	G	A	rs4792311	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ELAC2	NM_173717	exon7	c.C650T	p.S217L	.	.	90	7	97	1	G|0.755;A|0.245	90
ELF1	1997	bcgsc.ca	37	13	41515371	41515371	+	Silent	SNP	C	C	T	rs7987185	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ELF1	NM_172373	exon8	c.G942A	p.S314S	.	.	132	6	158	2	C|0.830;T|0.170	227
ELF2	1998	bcgsc.ca	37	4	139993175	139993175	+	Missense_Mutation	SNP	G	G	A	rs17322140	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ELF2	NM_006874	exon3	c.G191T	p.S64I	.	.	200	10	183	0	G|0.994;A|0.006	228
ELFN2	114794	bcgsc.ca	37	22	37770630	37770630	+	Silent	SNP	G	G	A	rs2071856	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ELFN2	NM_052906	exon3	c.C945T	p.I315I	.	.	161	8	144	0	G|0.709;A|0.291	70
ELOVL5	60481	bcgsc.ca	37	6	53133964	53133964	+	Nonsense_Mutation	SNP	C	C	A	rs41273878	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ELOVL5	NM_001242830	exon7	c.G736T	p.G246X	.	.	170	11	177	0	C|0.979;A|0.021	90
ELP2	55250	bcgsc.ca	37	18	33725931	33725931	+	Missense_Mutation	SNP	G	G	A	rs1785928	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ELP2	NM_001242875	exon11	c.G1108A	p.V370M	.	.	144	6	129	0	G|0.656;A|0.344	290
ELSPBP1	64100	bcgsc.ca	37	19	48519158	48519158	+	Missense_Mutation	SNP	C	C	T	rs34129198	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ELSPBP1	NM_022142	exon4	c.C217T	p.R73C	.	.	76	6	69	0	C|0.837;T|0.163	90
ELTD1	64123	bcgsc.ca	37	1	79412096	79412096	+	Missense_Mutation	SNP	C	C	T	rs185392778	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ELTD1	NM_022159	exon3	c.G188A	p.G63E	.	.	160	6	205	0	C|0.997;T|0.003	24
EMR1	2015	bcgsc.ca	37	19	6896483	6896483	+	Missense_Mutation	SNP	G	G	A	rs330877	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EMR1	NM_001256252	exon3	c.G169A	p.A57T	.	.	116	8	105	0	G|0.675;A|0.325	526
EMR1	2015	bcgsc.ca	37	19	6897464	6897464	+	Missense_Mutation	SNP	C	C	G	rs330880	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EMR1	NM_001256253	exon5	c.C420G	p.S140R	.	.	129	7	119	0	C|0.550;G|0.450	526
ENC1	8507	bcgsc.ca	37	5	73930751	73930751	+	Silent	SNP	C	C	T	rs300239	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ENC1	NM_003633	exon2	c.G1560A	p.K520K	.	.	88	5	90	0	C|0.366;G|0.000;T|0.633	228
ENO4	387712	bcgsc.ca	37	10	118620459	118620459	+	Silent	SNP	A	A	C	rs11197835	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ENO4	NM_001242699	exon5	c.A789C	p.L263L	.	.	102	9	105	0	A|0.736;C|0.264	69
EP400	57634	bcgsc.ca	37	12	132562126	132562126	+	Missense_Mutation	SNP	G	G	A	rs73164912	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EP400	NM_015409	exon53	c.G9280A	p.A3094T	.	.	96	7	73	0	G|0.875;A|0.125	520
EP400	57634	mdanderson.org	37	12	132547090	132547090	+	Silent	SNP	A	A	G	rs7974276	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EP400	NM_015409	exon47	c.A8178G	p.Q2726Q	.	.	64	13	65	1	A|0.794;G|0.206	520
EPB41L4B	54566	bcgsc.ca	37	9	111956599	111956599	+	Silent	SNP	G	G	A	rs3750447	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EPB41L4B	NM_019114	exon21	c.C2124T	p.A708A	.	.	102	6	94	0	G|0.589;A|0.411	92
EPHA10	284656	bcgsc.ca	37	1	38185647	38185647	+	Silent	SNP	G	G	A	rs2170809	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EPHA10	NM_001099439	exon14	c.C2496T	p.F832F	.	.	151	6	147	1	G|0.922;A|0.078	1246
EPHB1	2047	ucsc.edu;bcgsc.ca	37	3	134898742	134898742	+	Silent	SNP	C	C	T	rs1042787	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EPHB1	NM_004441	exon10	c.C1800T	p.Y600Y	.	.	158	17	130	0	C|0.517;T|0.483	1492
EPSTI1	94240	bcgsc.ca	37	13	43462422	43462422	+	Missense_Mutation	SNP	A	A	T	rs1044856	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EPSTI1	NM_001002264	exon13	c.T1197A	p.N399K	.	.	414	23	393	3	A|0.664;T|0.336	91
EPYC	1833	bcgsc.ca	37	12	91366649	91366649	+	Missense_Mutation	SNP	G	G	C	rs17784152	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EPYC	NM_004950	exon4	c.C449G	p.S150C	.	.	111	7	152	0	G|0.982;C|0.018	91
EQTN	54586	bcgsc.ca	37	9	27296705	27296705	+	Silent	SNP	A	A	G	rs3824406	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001161585	exon2	c.T108C	p.D36D	.	.	270	13	265	0	A|0.873;G|0.127	.
ERAP1	51752	bcgsc.ca	37	5	96121524	96121524	+	Silent	SNP	C	C	T	rs469783	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ERAP1	NM_001198541	exon13	c.G1911A	p.A637A	.	.	71	5	74	1	C|0.451;T|0.549	70
ERC2	26059	bcgsc.ca	37	3	56114861	56114861	+	Missense_Mutation	SNP	T	T	C	rs12488237	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ERC2	NM_015576	exon7	c.A1625G	p.N542S	.	.	79	4	70	0	T|0.944;C|0.056	24
ERGIC2	51290	bcgsc.ca	37	12	29521193	29521193	+	Silent	SNP	A	A	G	rs12831730	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ERGIC2	NM_016570	exon4	c.T243C	p.T81T	.	.	515	14	533	0	A|0.833;G|0.167	91
ERLIN1	10613	bcgsc.ca	37	10	101912064	101912064	+	Missense_Mutation	SNP	T	T	C	rs2862954	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_006459	exon11	c.A871G	p.I291V	.	.	168	7	166	1	A|0.005;C|0.270	.
ESPL1	9700	ucsc.edu;bcgsc.ca	37	12	53682457	53682457	+	Missense_Mutation	SNP	G	G	A	rs56358776	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ESPL1	NM_012291	exon20	c.G4682A	p.R1561Q	.	.	121	11	130	0	G|0.698;A|0.302	228
ETFDH	2110	bcgsc.ca	37	4	159601676	159601676	+	Missense_Mutation	SNP	C	C	T	rs11559290	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ETFDH	NM_004453	exon2	c.C92T	p.T31I	.	.	614	37	565	2	C|0.323;T|0.677	154
EXOC3L4	91828	bcgsc.ca	37	14	103566835	103566835	+	Missense_Mutation	SNP	C	C	G	rs2297066	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EXOC3L4	NM_001077594	exon1	c.C279G	p.D93E	.	.	135	8	145	0	C|0.776;G|0.223	23
EYS	346007	bcgsc.ca	37	6	66005857	66005857	+	Missense_Mutation	SNP	T	T	A	rs17411795	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	EYS	NM_001142800	exon12	c.A1922T	p.E641V	.	.	84	6	143	1	A|0.141;N|0.000	660
F5	2153	bcgsc.ca	37	1	169510380	169510380	+	Silent	SNP	G	G	A	rs9287090	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	F5	NM_000130	exon13	c.C3948T	p.L1316L	.	.	526	14	441	2	G|0.758;A|0.242	157
F5	2153	bcgsc.ca	37	1	169512093	169512093	+	Silent	SNP	A	A	G	rs6017	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	F5	NM_000130	exon13	c.T2235C	p.N745N	.	.	131	7	105	0	A|0.760;G|0.240	157
F5	2153	bcgsc.ca	37	1	169512120	169512120	+	Silent	SNP	G	G	A	rs6016	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	F5	NM_000130	exon13	c.C2208T	p.I736I	.	.	139	8	114	0	G|0.758;A|0.242	157
F5	2153	bcgsc.ca	37	1	169529973	169529973	+	Silent	SNP	C	C	T	rs6029	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	F5	NM_000130	exon4	c.G405A	p.A135A	.	.	143	7	99	0	C|0.653;T|0.347	157
FABP2	2169	bcgsc.ca	37	4	120240238	120240238	+	Silent	SNP	T	T	C	rs1511025	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FABP2	NM_000134	exon4	c.A357G	p.V119V	.	.	362	15	384	0	T|0.655;C|0.345	91
FAM111A	63901	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	58919865	58919865	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM111A	NM_001142520	exon5	c.C724A	p.L242I	.	.	108	17	109	0	.	93
FAM129C	199786	bcgsc.ca	37	19	17651370	17651370	+	Silent	SNP	A	A	G	rs11878663	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM129C	NM_001098524	exon10	c.A1242G	p.S414S	.	.	67	6	50	0	A|0.193;G|0.807	90
FAM135A	57579	bcgsc.ca	37	6	71236216	71236216	+	Silent	SNP	C	C	T	rs7740873	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM135A	NM_001162529	exon13	c.C3429T	p.N1143N	.	.	98	9	173	1	C|0.735;T|0.265	90
FAM135B	51059	bcgsc.ca	37	8	139165289	139165289	+	Missense_Mutation	SNP	T	T	C	rs7835830	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM135B	NM_015912	exon13	c.A1429G	p.I477V	.	.	198	8	191	0	T|0.289;C|0.711	31
FAM13A	10144	bcgsc.ca	37	4	89653257	89653257	+	Silent	SNP	G	G	A	rs1801915	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM13A	NM_014883	exon22	c.C2739T	p.D913D	.	.	135	7	172	0	G|0.832;A|0.168	70
FAM13A	10144	bcgsc.ca	37	4	89668859	89668859	+	Missense_Mutation	SNP	C	C	T	rs7657817	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM13A	NM_014883	exon18	c.G2305A	p.V769I	.	.	114	9	144	0	C|0.745;T|0.255	70
FAM155B	27112	bcgsc.ca	37	X	68725640	68725640	+	Missense_Mutation	SNP	T	T	C	rs1171942	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM155B	NM_015686	exon1	c.T515C	p.L172P	.	.	126	7	93	0	T|0.455;C|0.545	131
FAM178A	55719	bcgsc.ca	37	10	102703847	102703847	+	Missense_Mutation	SNP	T	T	C	rs145182528	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001136123	exon12	c.T2719C	p.S907P	.	.	384	21	394	1	T|0.998;C|0.002	.
FAM183A	440585	bcgsc.ca	37	1	43618596	43618596	+	Silent	SNP	G	G	A	rs12074551	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM183A	NM_001101376	exon3	c.G291A	p.E97E	.	.	211	8	213	1	G|0.838;A|0.162	3
FAM189B	10712	bcgsc.ca	37	1	155218067	155218067	+	Missense_Mutation	SNP	C	C	T	rs41264929	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM189B	NM_006589	exon11	c.G1607A	p.R536H	.	.	103	5	64	1	C|0.998;T|0.002	154
FAM194B	220081	bcgsc.ca	37	13	46115731	46115731	+	Missense_Mutation	SNP	C	C	A	rs1536207	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM194B	NM_182542	exon15	c.G1957T	p.V653F	.	.	125	8	114	1	C|0.625;A|0.375	68
FAM198A	729085	ucsc.edu	37	3	43074430	43074430	+	Silent	SNP	A	A	G	rs2948619	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM198A	NM_001129908	exon2	c.A675G	p.G225G	.	.	42	4	39	0	A|0.349;G|0.651	68
FAM205A	259308	ucsc.edu;bcgsc.ca	37	9	34726671	34726671	+	Missense_Mutation	SNP	G	G	A	rs41318950	bycluster;byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001141917	exon4	c.C566T	p.T189M	.	.	64	6	72	0	G|0.708;A|0.292	.
FAM208A	23272	bcgsc.ca	37	3	56657197	56657197	+	Silent	SNP	T	T	C	rs3732506	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_015224	exon17	c.A3570G	p.S1190S	.	.	252	9	230	0	T|0.963;C|0.037	.
FAM228A	653140	bcgsc.ca	37	2	24413298	24413298	+	Missense_Mutation	SNP	A	A	G	rs2288073	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001040710	exon6	c.A419G	p.Y140C	.	.	289	9	310	0	A|0.775;G|0.225	.
FAM228B	375190	bcgsc.ca	37	2	24358001	24358001	+	Missense_Mutation	SNP	G	G	C	rs12329297	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	461	11	433	1	G|0.908;C|0.092	.
FAM35DP	439965	bcgsc.ca	37	10	47416867	47416867	+	RNA	SNP	G	G	A	rs28407202	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	1674	33	1566	2	G|0.951;A|0.049	.
FAM65B	9750	bcgsc.ca	37	6	24818785	24818785	+	Silent	SNP	A	A	G	rs9358802	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM65B	NM_014722	exon21	c.T3000C	p.A1000A	.	.	115	7	95	0	A|0.664;G|0.336	91
FAM71F2	346653	ucsc.edu	37	7	128315889	128315889	+	Missense_Mutation	SNP	A	A	T	rs6971819	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001012454	exon2	c.A341T	p.D114V	.	.	30	4	16	0	A|0.892;T|0.108	.
FAM74A3	728495	bcgsc.ca	37	9	40716224	40716224	+	RNA	SNP	C	C	A	rs56989493	bycluster;byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM74A3	.	.	.	.	.	.	265	21	231	1	C|0.500;A|0.500	23
FAM78B	149297	bcgsc.ca	37	1	166039898	166039898	+	Silent	SNP	C	C	G	rs41269662	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM78B	NM_001017961	exon2	c.G366C	p.V122V	.	.	48	4	50	0	C|0.820;G|0.180	91
FAM91A1	157769	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	124801892	124801892	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAM91A1	NM_144963	exon15	c.G1318A	p.D440N	.	.	200	50	181	0	.	91
FAN1	22909	bcgsc.ca	37	15	31197564	31197564	+	Missense_Mutation	SNP	G	G	A	rs4779794	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAN1	NM_001146095	exon2	c.G698A	p.G233E	.	.	105	7	124	1	G|0.626;A|0.374	90
FANCD2	2177	bcgsc.ca	37	3	10115033	10115033	+	Missense_Mutation	SNP	G	G	T	rs35495399	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FANCD2	NM_001018115	exon28	c.G2702T	p.G901V	.	.	870	28	889	2	G|0.977;T|0.023	229
FARP1	10160	bcgsc.ca	37	13	99100547	99100547	+	Silent	SNP	T	T	C	rs12261	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FARP1	NM_005766	exon27	c.T3114C	p.S1038S	.	.	125	9	115	0	T|0.458;C|0.542	290
FAS	355	bcgsc.ca	37	10	90771829	90771829	+	Silent	SNP	T	T	C	rs2234978	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAS	NM_152872	exon7	c.T642C	p.T214T	.	.	188	16	194	0	T|0.261;C|0.739	847
FASTKD2	22868	bcgsc.ca	37	2	207631461	207631461	+	Missense_Mutation	SNP	G	G	A	rs3762568	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FASTKD2	NM_001136193	exon2	c.G44A	p.S15N	.	.	345	18	347	0	G|0.885;A|0.115	118
FAT1	2195	bcgsc.ca	37	4	187542755	187542755	+	Missense_Mutation	SNP	T	T	C	rs28489116	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAT1	NM_005245	exon10	c.A4985G	p.N1662S	.	.	194	9	199	2	T|0.794;C|0.206	34
FAT1	2195	bcgsc.ca	37	4	187557908	187557908	+	Missense_Mutation	SNP	C	C	T	rs113970444	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAT1	NM_005245	exon5	c.G3803A	p.R1268Q	.	.	113	8	119	0	C|0.993;T|0.007	34
FAT2	2196	bcgsc.ca	37	5	150943001	150943001	+	Silent	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAT2	NM_001447	exon2	c.C3459T	p.G1153G	.	.	104	8	110	0	.	96
FAT4	79633	bcgsc.ca	37	4	126371814	126371814	+	Missense_Mutation	SNP	C	C	T	rs73849225	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FAT4	NM_024582	exon9	c.C9643T	p.H3215Y	.	.	168	8	188	0	C|0.873;T|0.127	108
FBLIM1	54751	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	16103690	16103690	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FBLIM1	NM_017556	exon8	c.T916C	p.C306R	.	.	95	44	84	0	.	91
FBLN2	2199	bcgsc.ca	37	3	13612107	13612107	+	Silent	SNP	C	C	T	rs17038305	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FBLN2	NM_001998	exon2	c.C252T	p.P84P	.	.	85	6	73	0	C|0.906;T|0.094	91
FBXL13	222235	bcgsc.ca	37	7	102462636	102462636	+	Silent	SNP	T	T	C	rs10279449	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FBXL13	NM_145032	exon19	c.A1869G	p.A623A	.	.	104	7	104	0	T|0.517;C|0.483	226
FBXO25	26260	bcgsc.ca	37	8	381344	381344	+	Missense_Mutation	SNP	C	C	G	rs28438773	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FBXO25	NM_183420	exon3	c.C138G	p.I46M	.	.	356	20	533	4	C|0.860;G|0.140	226
FBXO30	84085	broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	146126606	146126606	+	Silent	SNP	T	T	C	rs41285849	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FBXO30	NM_032145	exon2	c.A936G	p.L312L	.	.	41	5	79	0	T|0.997;C|0.003	291
FCGR3B	2215	bcgsc.ca	37	1	161599778	161599778	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FCGR3B	NM_001244753	exon3	c.G217A	p.V73M	.	.	127	6	115	0	.	22
FCHO2	115548	bcgsc.ca	37	5	72347223	72347223	+	Silent	SNP	A	A	G	rs7712838	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FCHO2	NM_138782	exon12	c.A987G	p.T329T	.	.	340	22	356	2	A|0.673;G|0.327	23
FCHO2	115548	bcgsc.ca	37	5	72351905	72351905	+	Silent	SNP	A	A	G	rs57213367	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FCHO2	NM_138782	exon16	c.A1224G	p.T408T	.	.	796	60	854	3	A|0.828;G|0.172	23
FDXACB1	91893	bcgsc.ca	37	11	111749349	111749349	+	Missense_Mutation	SNP	A	A	T	rs611010	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FDXACB1	NM_138378	exon2	c.T260A	p.I87N	.	.	222	16	148	0	A|0.114;T|0.886	22
FEN1	2237	bcgsc.ca	37	11	61563610	61563610	+	Missense_Mutation	SNP	C	C	G	rs141868713	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FEN1	NM_004111	exon2	c.C777G	p.I259M	.	.	89	5	92	0	C|0.999;G|0.001	660
FER	2241	bcgsc.ca	37	5	108133967	108133967	+	Silent	SNP	A	A	G	rs2229085	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FER	NM_005246	exon3	c.A84G	p.V28V	.	.	390	16	377	2	A|0.801;G|0.199	946
FGD4	121512	bcgsc.ca	37	12	32764184	32764184	+	Silent	SNP	G	G	A	rs10844253	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FGD4	NM_139241	exon10	c.G1305A	p.R435R	.	.	192	15	160	0	G|0.732;A|0.268	229
FGD4	121512	bcgsc.ca	37	12	32777362	32777362	+	Silent	SNP	G	G	A	rs11052110	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FGD4	NM_139241	exon12	c.G1518A	p.A506A	.	.	356	22	317	1	G|0.745;A|0.255	229
FGFRL1	53834	bcgsc.ca	37	4	1019011	1019011	+	Missense_Mutation	SNP	C	C	T	rs4647932	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FGFRL1	NM_001004356	exon7	c.C1391T	p.P464L	.	.	131	7	108	0	C|0.955;T|0.045	90
FH	2271	bcgsc.ca	37	1	241682970	241682970	+	Missense_Mutation	SNP	G	G	A	rs201887750		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FH	NM_000143	exon1	c.C53T	p.P18L	.	.	209	9	140	1	.	416
FLG	2312	bcgsc.ca	37	1	152280782	152280782	+	Missense_Mutation	SNP	A	A	G	rs2184953	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FLG	NM_002016	exon3	c.T6580C	p.Y2194H	.	.	125	6	95	0	A|0.532;G|0.468	106
FLG	2312	bcgsc.ca	37	1	152281479	152281479	+	Missense_Mutation	SNP	G	G	T	rs3126079	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FLG	NM_002016	exon3	c.C5883A	p.H1961Q	.	.	198	8	128	1	A|0.000;G|0.622;T|0.378	106
FLG	2312	bcgsc.ca	37	1	152286002	152286002	+	Missense_Mutation	SNP	T	T	C	rs2011331	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FLG	NM_002016	exon3	c.A1360G	p.T454A	.	.	215	11	146	0	T|0.667;C|0.333	106
FLG	2312	bcgsc.ca	37	1	152286032	152286032	+	Missense_Mutation	SNP	C	C	T	rs11588170	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FLG	NM_002016	exon3	c.G1330A	p.G444R	.	.	166	7	124	0	C|0.839;T|0.161	106
FLJ31813	0	bcgsc.ca	37	10	51821269	51821269	+	RNA	SNP	C	C	A	rs45510292	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	547	19	569	1	C|0.846;A|0.154	.
FLJ35282	0	bcgsc.ca	37	9	22748083	22748083	+	RNA	SNP	C	C	A	rs842847	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	131	10	98	0	C|0.471;A|0.529	.
FLJ35282	0	bcgsc.ca	37	9	22748113	22748113	+	RNA	SNP	G	G	T	rs600037	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	114	7	86	0	G|0.484;T|0.516	.
FLJ35282	0	bcgsc.ca	37	9	22748135	22748135	+	RNA	SNP	A	A	G	rs842849	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	104	7	95	0	A|0.497;G|0.503	.
FLNC	2318	bcgsc.ca	37	7	128480652	128480652	+	Missense_Mutation	SNP	G	G	A	rs201905890	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FLNC	NM_001127487	exon10	c.G1600A	p.E534K	.	.	170	7	169	0	G|0.998;A|0.002	141
FLOT1	10211	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	30708308	30708308	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FLOT1	NM_005803	exon7	c.G535A	p.G179R	.	.	163	94	121	0	.	90
FLRT1	23769	bcgsc.ca	37	11	63885287	63885287	+	Silent	SNP	C	C	T	rs947939	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FLRT1	NM_013280	exon2	c.C1548T	p.Y516Y	.	.	119	9	129	0	C|0.896;T|0.104	90
FLRT2	23768	bcgsc.ca	37	14	86089315	86089315	+	Missense_Mutation	SNP	G	G	A	rs17646457	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FLRT2	NM_013231	exon2	c.G1457A	p.R486Q	.	.	158	7	175	0	G|0.899;A|0.101	94
FLRT3	23767	bcgsc.ca	37	20	14306773	14306773	+	Missense_Mutation	SNP	T	T	G	rs35253731	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FLRT3	NM_013281	exon2	c.A1380C	p.E460D	.	.	101	5	113	0	T|0.945;G|0.055	91
FLRT3	23767	bcgsc.ca	37	20	14306896	14306896	+	Silent	SNP	G	G	A	rs6042672	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FLRT3	NM_013281	exon2	c.C1257T	p.T419T	.	.	101	8	112	1	G|0.677;A|0.323	91
FMR1NB	158521	bcgsc.ca	37	X	147088249	147088249	+	Missense_Mutation	SNP	C	C	T	rs764631	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FMR1NB	NM_152578	exon3	c.C425T	p.A142V	.	.	129	6	92	0	C|0.582;0|0.015	131
FOCAD	54914	bcgsc.ca	37	9	20764870	20764870	+	Missense_Mutation	SNP	T	T	C	rs10511687	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_017794	exon9	c.T497C	p.L166S	.	.	108	5	118	0	T|0.745;C|0.255	.
FOXD4	2298	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	9	117117	117117	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FOXD4	NM_207305	exon1	c.C1003T	p.Q335X	.	.	125	29	125	0	.	131
FOXK2	3607	bcgsc.ca	37	17	80545076	80545076	+	Missense_Mutation	SNP	A	A	G	rs35870621	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FOXK2	NM_004514	exon8	c.A1714G	p.I572V	.	.	125	8	132	0	A|0.970;G|0.030;T|0.000	226
FRAS1	80144	bcgsc.ca	37	4	79295312	79295312	+	Missense_Mutation	SNP	C	C	T	rs200292361		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FRAS1	NM_001166133	exon25	c.C3058T	p.R1020C	.	.	91	5	98	1	C|0.999;T|0.001	68
FRAS1	80144	bcgsc.ca	37	4	79432455	79432455	+	Silent	SNP	A	A	C	rs3749488	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FRAS1	NM_025074	exon64	c.A9808C	p.R3270R	.	.	116	7	108	0	A|0.629;C|0.371	68
FREM2	341640	bcgsc.ca	37	13	39430314	39430314	+	Missense_Mutation	SNP	C	C	T	rs9548509	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FREM2	NM_207361	exon12	c.C6977T	p.T2326I	.	.	158	15	151	0	C|0.256;T|0.744	100
FRRS1	391059	bcgsc.ca	37	1	100203648	100203648	+	Silent	SNP	C	C	T	rs7537296	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FRRS1	NM_001013660	exon7	c.G753A	p.Q251Q	.	.	282	17	277	0	C|0.485;T|0.515	91
FRRS1	391059	bcgsc.ca	37	1	100203693	100203693	+	Silent	SNP	G	G	A	rs7514021	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FRRS1	NM_001013660	exon7	c.C708T	p.S236S	.	.	310	20	284	0	G|0.486;A|0.514	91
FRYL	285527	bcgsc.ca	37	4	48588742	48588742	+	Silent	SNP	C	C	T	rs34558821	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FRYL	NM_015030	exon19	c.G1644A	p.G548G	.	.	78	6	84	0	C|0.516;T|0.484	69
FSCB	84075	bcgsc.ca	37	14	44974189	44974189	+	Missense_Mutation	SNP	C	C	A	rs11621923	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FSCB	NM_032135	exon1	c.G2002T	p.A668S	.	.	44	6	69	0	C|0.624;A|0.376	587
FSCN3	29999	bcgsc.ca	37	7	127233977	127233977	+	Missense_Mutation	SNP	G	G	T	rs3779536	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FSCN3	NM_020369	exon1	c.G70T	p.A24S	.	.	112	6	120	0	G|0.911;T|0.089	91
FUT5	2527	bcgsc.ca	37	19	5867191	5867191	+	Silent	SNP	G	G	A	rs61744948	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FUT5	NM_002034	exon2	c.C546T	p.Y182Y	.	.	123	9	94	1	G|0.912;A|0.088	90
FUT8	2530	bcgsc.ca	37	14	66096297	66096297	+	Silent	SNP	G	G	A	rs35137471	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FUT8	NM_178155	exon6	c.G570A	p.L190L	.	.	94	6	97	0	G|0.979;A|0.021	91
FYB	2533	bcgsc.ca	37	5	39141240	39141240	+	Silent	SNP	G	G	A	rs3188386	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FYB	NM_001243093	exon4	c.C1326T	p.S442S	.	.	326	27	351	1	G|0.771;A|0.229	24
FZD3	7976	bcgsc.ca	37	8	28384712	28384712	+	Silent	SNP	A	A	G	rs2241802	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	FZD3	NM_017412	exon5	c.A435G	p.L145L	.	.	106	7	138	2	A|0.459;G|0.541	659
GABARAPL3	23766	bcgsc.ca	37	15	90892293	90892293	+	RNA	SNP	C	C	T	rs2589973	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GABARAPL3	.	.	.	.	.	.	119	8	100	0	C|0.424;T|0.576	46
GABRB1	2560	bcgsc.ca	37	4	47322219	47322219	+	Silent	SNP	C	C	A	rs6284	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GABRB1	NM_000812	exon5	c.C537A	p.I179I	.	.	104	6	115	0	C|0.849;A|0.151	92
GABRG1	2565	bcgsc.ca	37	4	46086060	46086060	+	Silent	SNP	T	T	C	rs976156	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GABRG1	NM_173536	exon3	c.A264G	p.T88T	.	.	613	54	733	2	T|0.435;C|0.565	92
GAD2	2572	bcgsc.ca	37	10	26559571	26559571	+	Silent	SNP	G	G	C	rs1556234	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GAD2	NM_000818	exon10	c.G978C	p.G326G	.	.	79	5	76	0	G|0.930;C|0.070	515
GAK	2580	bcgsc.ca	37	4	844781	844781	+	Silent	SNP	G	G	A	rs75072999	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GAK	NM_005255	exon26	c.C3600T	p.T1200T	.	.	107	6	100	0	G|0.939;A|0.061	568
GAL3ST4	79690	bcgsc.ca	37	7	99758136	99758136	+	Silent	SNP	T	T	G	rs3800951	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GAL3ST4	NM_024637	exon4	c.A876C	p.A292A	.	.	73	6	75	0	T|0.464;G|0.536	47
GAS2L3	283431	bcgsc.ca	37	12	101018014	101018014	+	Silent	SNP	T	T	C	rs1045602	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GAS2L3	NM_174942	exon10	c.T1431C	p.N477N	.	.	80	5	93	0	T|0.585;C|0.415	227
GBAP1	2630	bcgsc.ca	37	1	155186742	155186742	+	RNA	SNP	G	G	A	rs1057941	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	158	10	113	0	G|0.551;A|0.449	.
GCDH	2639	bcgsc.ca	37	19	13008607	13008607	+	Silent	SNP	G	G	T	rs1060218	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GCDH	NM_013976	exon11	c.C1173T	p.S391S	.	.	119	10	105	2	G|0.732;T|0.268	90
GCFC2	6936	bcgsc.ca	37	2	75893111	75893111	+	Missense_Mutation	SNP	T	T	G	rs17690300	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_003203	exon16	c.A2172C	p.E724D	.	.	116	8	132	1	T|0.991;G|0.009	.
GDI2	2665	bcgsc.ca	37	10	5808086	5808086	+	Silent	SNP	G	G	A	rs1129614	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GDI2	NM_001494	exon11	c.C1221T	p.T407T	.	.	161	8	144	0	G|0.842;A|0.158	90
GFM2	84340	bcgsc.ca	37	5	74017499	74017499	+	Missense_Mutation	SNP	C	C	T	rs1048167	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GFM2	NM_032380	exon21	c.G2321A	p.R774Q	.	.	111	7	137	0	C|0.856;T|0.144	90
GFM2	84340	bcgsc.ca	37	5	74055209	74055209	+	Missense_Mutation	SNP	T	T	C	rs957680	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GFM2	NM_032380	exon4	c.A191G	p.N64S	.	.	436	10	456	3	T|0.649;G|0.032	90
GFPT1	2673	bcgsc.ca	37	2	69597209	69597209	+	Silent	SNP	A	A	G	rs2230300	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GFPT1	NM_001244710	exon3	c.T147C	p.D49D	.	.	114	7	88	0	T|0.098;G|0.015	91
GGCX	2677	bcgsc.ca	37	2	85780536	85780536	+	Missense_Mutation	SNP	C	C	T	rs699664	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GGCX	NM_000821	exon8	c.G974A	p.R325Q	.	.	137	7	110	0	C|0.580;T|0.420	91
GGT6	124975	bcgsc.ca	37	17	4463713	4463713	+	Missense_Mutation	SNP	A	A	G	rs62066362	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GGT6	NM_001122890	exon1	c.T104C	p.L35P	.	.	48	5	47	1	A|0.986;G|0.014	91
GGT6	124975	bcgsc.ca	37	17	4463716	4463716	+	Missense_Mutation	SNP	G	G	A	rs62066363	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GGT6	NM_001122890	exon1	c.C101T	p.A34V	.	.	45	5	43	0	G|0.986;A|0.014	91
GIGYF2	26058	hgsc.bcm.edu;mdanderson.org	37	2	233712223	233712223	+	Missense_Mutation	SNP	T	T	C	rs114013774	byfrequency;alternate_allele	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GIGYF2	NM_001103147	exon29	c.T3689C	p.L1230P	.	.	70	24	68	0	T|0.966;A|0.034	28
GIMAP7	168537	bcgsc.ca	37	7	150217248	150217248	+	Silent	SNP	A	A	G	rs3735081	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GIMAP7	NM_153236	exon2	c.A186G	p.V62V	.	.	95	7	94	0	A|0.252;G|0.748	228
GJB6	10804	bcgsc.ca	37	13	20797131	20797131	+	Silent	SNP	C	C	T	rs35002004	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GJB6	NM_001110220	exon4	c.G489A	p.L163L	.	.	138	7	124	0	C|0.997;T|0.003	91
GLRX3	10539	ucsc.edu;bcgsc.ca	37	10	131959150	131959150	+	Missense_Mutation	SNP	C	C	T	rs2274217	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GLRX3	NM_006541	exon4	c.C367T	p.P123S	.	.	81	8	79	0	C|0.799;T|0.201	22
GM2A	2760	bcgsc.ca	37	5	150646888	150646888	+	Missense_Mutation	SNP	T	T	C	rs61740602	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GM2A	NM_000405	exon4	c.T458C	p.V153A	.	.	113	6	96	1	T|0.934;C|0.066	90
GMCL1P1	64396	bcgsc.ca	37	5	177614001	177614001	+	RNA	SNP	T	T	C	rs3812083		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	638	24	606	2	T|0.804;C|0.196	.
GMCL1P1	64396	bcgsc.ca	37	5	177614090	177614090	+	RNA	SNP	G	G	C	rs2913782	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	214	10	209	1	G|0.746;C|0.254	.
GMCL1P1	64396	bcgsc.ca	37	5	177614094	177614094	+	RNA	SNP	C	C	G	rs2961665	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	210	8	212	0	C|0.698;G|0.302	.
GMPPB	29925	bcgsc.ca	37	3	49760431	49760431	+	Missense_Mutation	SNP	G	G	C	rs34345884	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GMPPB	NM_021971	exon4	c.C376G	p.H126D	.	.	234	8	241	0	G|0.986;C|0.014	90
GOLM1	51280	bcgsc.ca	37	9	88661453	88661453	+	Missense_Mutation	SNP	C	C	G	rs140984957	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GOLM1	NM_016548	exon5	c.G399C	p.R133S	.	.	76	6	73	0	C|0.999;G|0.001	22
GPAM	57678	bcgsc.ca	37	10	113920465	113920465	+	Silent	SNP	G	G	A	rs2277207	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GPAM	NM_020918	exon16	c.C1656T	p.N552N	.	.	178	13	198	1	G|0.445;A|0.555	92
GPATCH3	63906	bcgsc.ca	37	1	27220844	27220844	+	Missense_Mutation	SNP	C	C	T	rs140800689	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GPATCH3	NM_022078	exon3	c.G934A	p.G312R	.	.	67	7	69	0	C|0.999;T|0.001	90
GPR112	139378	bcgsc.ca	37	X	135429503	135429503	+	Missense_Mutation	SNP	C	C	A	rs4829830	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GPR112	NM_153834	exon6	c.C3638A	p.T1213N	.	.	86	8	74	0	0|0.015;A|0.479	183
GPR112	139378	bcgsc.ca	37	X	135431236	135431236	+	Missense_Mutation	SNP	T	T	C	rs5930932	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GPR112	NM_153834	exon6	c.T5371C	p.F1791L	.	.	290	17	166	0	0|0.015;C|0.499	183
GPR112	139378	bcgsc.ca	37	X	135431358	135431358	+	Silent	SNP	C	C	T	rs5930933	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GPR112	NM_153834	exon6	c.C5493T	p.P1831P	.	.	123	6	73	0	C|0.507;0|0.003	183
GPR112	139378	bcgsc.ca	37	X	135474420	135474420	+	Silent	SNP	C	C	A	rs1329546	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GPR112	NM_153834	exon17	c.C7941A	p.T2647T	.	.	380	12	221	2	C|0.327;A|0.673	183
GPR162	27239	bcgsc.ca	37	12	6935977	6935977	+	Missense_Mutation	SNP	A	A	G	rs11612427	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GPR162	NM_019858	exon5	c.A1375G	p.R459G	.	.	62	6	50	0	A|0.801;G|0.199	92
GPR171	29909	bcgsc.ca	37	3	150916327	150916327	+	Missense_Mutation	SNP	T	T	C	rs3732756	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GPR171	NM_013308	exon3	c.A847G	p.I283V	.	.	142	8	138	0	T|0.970;C|0.030	90
GPR97	222487	bcgsc.ca	37	16	57714470	57714470	+	Silent	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GPR97	NM_170776	exon8	c.G822A	p.A274A	.	.	99	6	100	1	.	91
GPR98	84059	bcgsc.ca	37	5	90012379	90012379	+	Missense_Mutation	SNP	G	G	A	rs13157270	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GPR98	NM_032119	exon43	c.G9280A	p.V3094I	.	.	180	7	181	0	G|0.950;A|0.050	103
GPR98	84059	bcgsc.ca	37	5	90079820	90079820	+	Silent	SNP	A	A	G	rs17554631	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GPR98	NM_032119	exon67	c.A13599G	p.T4533T	.	.	206	18	179	0	A|0.882;G|0.118	103
GRAMD1A	57655	bcgsc.ca	37	19	35510102	35510102	+	Silent	SNP	G	G	C	rs2290646	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GRAMD1A	NM_020895	exon12	c.G1221C	p.T407T	.	.	103	7	70	0	G|0.479;C|0.521	90
GRID2IP	392862	hgsc.bcm.edu	37	7	6590693	6590693	+	Silent	SNP	G	G	A	rs6463571	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001145118	exon1	c.C375T	p.R125R	.	.	5	5	0	0	G|0.233;A|0.767	.
GRIPAP1	56850	ucsc.edu;bcgsc.ca	37	X	48847497	48847497	+	Silent	SNP	T	T	C	rs11545861	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GRIPAP1	NM_020137	exon7	c.A483G	p.E161E	.	.	49	5	43	0	T|0.713;C|0.287	227
GRM7	2917	bcgsc.ca	37	3	7620789	7620789	+	Silent	SNP	T	T	C	rs1485175	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GRM7	NM_000844	exon8	c.T2196C	p.Y732Y	.	.	212	9	186	1	T|0.451;C|0.549	526
GSG2	83903	bcgsc.ca	37	17	3627840	3627840	+	Missense_Mutation	SNP	G	G	A	rs220462	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GSG2	NM_031965	exon1	c.G611A	p.G204D	.	.	86	6	100	0	G|0.759;A|0.241	297
GSPT1	2935	bcgsc.ca	37	16	12009304	12009304	+	Missense_Mutation	SNP	C	C	A	rs11544193		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GSPT1	NM_001130006	exon1	c.G274T	p.G92C	.	.	144	9	100	0	C|0.664;A|0.336	206
GSTM5	2949	bcgsc.ca	37	1	110257831	110257831	+	Missense_Mutation	SNP	T	T	C	rs67757008	alternate_allele	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	GSTM5,brain,glioma,0	GSTM5	NM_000851	exon7	c.T536C	p.L179P	.	.	297	15	281	2	CAAATC|0.500;TAAACT|0.500	514
GUCA1C	9626	bcgsc.ca	37	3	108639384	108639384	+	Missense_Mutation	SNP	T	T	C	rs6804162	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	GUCA1C	NM_005459	exon2	c.A253G	p.M85V	.	.	374	14	387	1	T|0.647;C|0.353	90
HACL1	26061	bcgsc.ca	37	3	15637914	15637914	+	Silent	SNP	G	G	A	rs74506826	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HACL1	NM_012260	exon3	c.C204T	p.S68S	.	.	330	12	314	0	G|0.982;A|0.018	90
HAGH	3029	bcgsc.ca	37	16	1869147	1869147	+	Silent	SNP	G	G	A	rs56316151	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HAGH	NM_005326	exon5	c.C510T	p.P170P	.	.	109	7	82	0	G|0.975;A|0.025	91
HAUS3	79441	broad.mit.edu;mdanderson.org	37	4	2242587	2242587	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HAUS3	NM_024511	exon2	c.G87A	p.W29X	.	.	56	20	48	0	.	138
HAUS6	54801	bcgsc.ca	37	9	19087154	19087154	+	Silent	SNP	T	T	C	rs7875404	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HAUS6	NM_017645	exon6	c.A585G	p.Q195Q	.	.	122	10	156	0	T|0.849;C|0.151	92
HCFC1	3054	bcgsc.ca	37	X	153219665	153219665	+	Silent	SNP	C	C	T	rs2071133	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HCFC1	NM_005334	exon17	c.G4185A	p.A1395A	.	.	113	7	52	0	C|0.604;T|0.396	132
HEATR3	55027	bcgsc.ca	37	16	50136331	50136331	+	Silent	SNP	G	G	A	rs150830240	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HEATR3	NM_182922	exon14	c.G1905A	p.P635P	.	.	122	6	133	0	G|0.997;A|0.003	92
HECTD1	25831	bcgsc.ca	37	14	31619392	31619392	+	Silent	SNP	T	T	C	rs11620816	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HECTD1	NM_015382	exon13	c.A1968G	p.Q656Q	.	.	209	7	160	0	C|0.246;T|0.754	570
HECW2	57520	bcgsc.ca	37	2	197157445	197157445	+	Silent	SNP	C	C	T	rs61744647	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HECW2	NM_020760	exon14	c.G2844A	p.T948T	.	.	144	6	132	0	C|0.973;T|0.027	668
HELQ	113510	bcgsc.ca	37	4	84358058	84358058	+	Silent	SNP	A	A	G	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HELQ	NM_133636	exon9	c.T2001C	p.F667F	.	.	131	8	124	0	.	155
HELZ2	85441	bcgsc.ca	37	20	62193019	62193019	+	Silent	SNP	C	C	T	rs11551684	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001037335	exon13	c.G6771A	p.P2257P	.	.	59	6	46	0	C|0.849;T|0.151	.
HERC1	8925	bcgsc.ca	37	15	63982745	63982745	+	Missense_Mutation	SNP	C	C	A	rs34484871	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HERC1	NM_003922	exon32	c.G5932T	p.A1978S	.	.	364	10	366	1	C|0.983;A|0.017	666
HERC1	8925	bcgsc.ca	37	15	64025223	64025223	+	Missense_Mutation	SNP	T	T	C	rs35978932	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HERC1	NM_003922	exon14	c.A2768G	p.N923S	.	.	171	9	161	0	T|0.983;C|0.017	666
HERC2P3	283755	ucsc.edu;bcgsc.ca	37	15	20645827	20645827	+	RNA	SNP	A	A	G	rs76197396	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HERC2P3	.	.	.	.	.	.	51	6	49	0	A|0.949;G|0.051	92
HERC4	26091	bcgsc.ca	37	10	69773841	69773841	+	Silent	SNP	G	G	A	rs866255	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HERC4	NM_022079	exon9	c.C1011T	p.S337S	.	.	235	7	228	0	G|0.594;A|0.406	659
HERC6	55008	bcgsc.ca	37	4	89319296	89319296	+	Missense_Mutation	SNP	T	T	C	rs17014118	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HERC6	NM_017912	exon8	c.T1027C	p.F343L	.	.	346	18	345	0	T|0.490;C|0.510	658
HES7	84667	bcgsc.ca	37	17	8025712	8025712	+	Silent	SNP	A	A	G	rs1348325	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HES7	NM_001165967	exon3	c.T175C	p.L59L	.	.	241	13	231	0	A|0.823;G|0.177	658
HFE	3077	bcgsc.ca	37	6	26093141	26093141	+	Missense_Mutation	SNP	G	G	A	rs1800562	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HFE	NM_000410	exon4	c.G845A	p.C282Y	.	.	225	10	155	1	G|0.966;A|0.034	90
HGC6.3	0	broad.mit.edu	37	6	168377309	168377309	+	Silent	SNP	G	G	A	rs61743855	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001129895	exon1	c.C24T	p.S8S	.	.	71	6	118	0	G|0.818;A|0.182	.
HLA-DMA	3108	bcgsc.ca	37	6	32917411	32917411	+	Missense_Mutation	SNP	C	C	T	rs41555121	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HLA-DMA	NM_006120	exon3	c.G629A	p.R210H	.	.	224	8	158	1	C|0.978;T|0.022	90
HLA-H	3136	bcgsc.ca	37	6	29855940	29855940	+	RNA	SNP	G	G	A	rs61232101	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	147	8	126	0	A|0.268;C|0.008;G|0.724	.
HLA-H	3136	bcgsc.ca	37	6	29855945	29855945	+	RNA	SNP	A	A	G	rs2734945	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	147	8	122	0	A|0.765;G|0.235	.
HMGCR	3156	bcgsc.ca	37	5	74652199	74652199	+	Missense_Mutation	SNP	A	A	G	rs5908	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HMGCR	NM_000859	exon15	c.A1912G	p.I638V	.	.	422	12	423	2	A|0.990;G|0.010	227
HMGXB3	22993	bcgsc.ca	37	5	149406413	149406413	+	Silent	SNP	G	G	T	rs147489392	by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HMGXB3	NM_014983	exon8	c.G1605T	p.L535L	.	.	153	9	114	0	G|0.991;T|0.009	24
HMMR	3161	bcgsc.ca	37	5	162902516	162902516	+	Missense_Mutation	SNP	T	T	C	rs299290	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HMMR	NM_001142556	exon11	c.T1106C	p.V369A	.	.	135	10	147	0	C|0.290;N|0.000	90
HMMR	3161	bcgsc.ca	37	5	162909687	162909687	+	Silent	SNP	G	G	A	rs17600938	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HMMR	NM_001142556	exon13	c.G1425A	p.K475K	.	.	453	11	393	0	G|0.890;A|0.110	90
HMMR	3161	bcgsc.ca	37	5	162909716	162909716	+	Missense_Mutation	SNP	C	C	T	rs299295	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HMMR	NM_001142556	exon13	c.C1454T	p.A485V	.	.	481	14	437	0	C|0.774;N|0.000	90
HOXA7	3204	bcgsc.ca	37	7	27196069	27196069	+	Silent	SNP	A	A	C	rs2301720	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HOXA7	NM_006896	exon1	c.T96G	p.A32A	.	.	209	10	199	0	A|0.201;C|0.799	90
HOXD9	3235	bcgsc.ca	37	2	176988015	176988015	+	Silent	SNP	C	C	A	rs711821	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HOXD9	NM_014213	exon1	c.C519A	p.A173A	.	.	195	8	158	0	C|0.893;A|0.107	90
HRG	3273	bcgsc.ca	37	3	186395436	186395436	+	Missense_Mutation	SNP	C	C	T	rs1042445	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HRG	NM_000412	exon7	c.C1342T	p.R448C	.	.	145	6	120	0	C|0.751;T|0.249	91
HRG	3273	bcgsc.ca	37	3	186395572	186395572	+	Missense_Mutation	SNP	A	A	T	rs1042464	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HRG	NM_000412	exon7	c.A1478T	p.N493I	.	.	219	19	194	0	A|0.351;T|0.649	91
HSD17B11	51170	bcgsc.ca	37	4	88293887	88293887	+	Silent	SNP	G	G	A	rs6531985	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HSD17B11	NM_016245	exon4	c.C531T	p.V177V	.	.	144	6	137	0	G|0.645;A|0.355	92
HSPA6	3310	bcgsc.ca	37	1	161495885	161495885	+	Silent	SNP	T	T	C	rs404508	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HSPA6	NM_002155	exon1	c.T1437C	p.T479T	.	.	305	15	251	2	T|0.179;G|0.216;C|0.555;A|0.050	226
HSPB7	27129	bcgsc.ca	37	1	16344360	16344360	+	Silent	SNP	A	A	G	rs732286	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HSPB7	NM_014424	exon1	c.T99C	p.A33A	.	.	117	8	116	1	A|0.366;G|0.634	226
HSPB7	27129	ucsc.edu;bcgsc.ca	37	1	16342237	16342237	+	Silent	SNP	A	A	G	rs1739840	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HSPB7	NM_014424	exon3	c.T351C	p.T117T	.	.	36	4	34	0	A|0.376;G|0.624	226
HSPB7	27129	ucsc.edu;bcgsc.ca	37	1	16344402	16344402	+	Silent	SNP	G	G	A	rs945416	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HSPB7	NM_014424	exon1	c.C57T	p.S19S	.	.	94	9	88	0	G|0.357;A|0.643	226
HSPD1	3329	bcgsc.ca	37	2	198362018	198362018	+	Silent	SNP	T	T	C	rs8539	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HSPD1	NM_002156	exon3	c.A273G	p.K91K	.	.	143	10	155	1	T|0.307;C|0.693	226
HSPD1	3329	bcgsc.ca	37	2	198363504	198363504	+	Silent	SNP	A	A	G	rs1050347	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HSPD1	NM_002156	exon2	c.T69C	p.T23T	.	.	380	29	350	0	A|0.813;G|0.187	226
HSPD1	3329	bcgsc.ca	37	2	198363546	198363546	+	Silent	SNP	G	G	C	rs11551349	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HSPD1	NM_002156	exon2	c.C27G	p.R9R	.	.	375	17	369	0	G|0.728;C|0.272	226
HTR2C	3358	bcgsc.ca	37	X	113965735	113965735	+	Missense_Mutation	SNP	G	G	C	rs6318	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	HTR2C	NM_000868	exon4	c.G68C	p.C23S	.	.	328	10	214	1	0|0.015;C|0.215	133
IDI1	3422	bcgsc.ca	37	10	1088692	1088692	+	Silent	SNP	C	C	T	rs118002486	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IDI1	NM_004508	exon4	c.G417A	p.T139T	.	.	118	6	100	0	C|0.994;T|0.006	90
IDUA	3425	bcgsc.ca	37	4	994452	994452	+	Silent	SNP	C	C	T	rs3755954	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IDUA	NM_000203	exon3	c.C352T	p.L118L	.	.	168	8	145	0	C|0.784;T|0.216	91
IFI44L	10964	bcgsc.ca	37	1	79095581	79095581	+	Missense_Mutation	SNP	T	T	C	rs987495	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IFI44L	NM_006820	exon4	c.T704C	p.I235T	.	.	123	6	149	0	T|0.627;G|0.044	90
IFIH1	64135	bcgsc.ca	37	2	163124051	163124051	+	Missense_Mutation	SNP	C	C	T	rs1990760	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IFIH1	NM_022168	exon15	c.G2836A	p.A946T	.	.	92	7	68	0	C|0.588;T|0.412	91
IFIH1	64135	bcgsc.ca	37	2	163128824	163128824	+	Missense_Mutation	SNP	T	T	C	rs3747517	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IFIH1	NM_022168	exon13	c.A2528G	p.H843R	.	.	197	11	212	1	T|0.368;C|0.632	91
IFIT1	3434	bcgsc.ca	37	10	91162182	91162182	+	Silent	SNP	C	C	T	rs41284944	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IFIT1	NM_001548	exon2	c.C150T	p.Y50Y	.	.	178	9	162	1	C|0.933;T|0.067	90
IFIT1B	439996	bcgsc.ca	37	10	91143529	91143529	+	Silent	SNP	T	T	A	rs55902039		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IFIT1B	NM_001010987	exon2	c.T459A	p.G153G	.	.	125	12	155	0	.	90
IFIT2	3433	bcgsc.ca	37	10	91066460	91066460	+	Silent	SNP	T	T	A	rs954439	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IFIT2	NM_001547	exon2	c.T747A	p.V249V	.	.	123	8	117	0	T|0.338;A|0.662	92
IFIT3	3437	bcgsc.ca	37	10	91099435	91099435	+	Silent	SNP	G	G	A	rs35430629	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IFIT3	NM_001549	exon2	c.G1023A	p.T341T	.	.	109	5	111	0	G|0.980;A|0.020	90
IFNA6	3443	bcgsc.ca	37	9	21350620	21350620	+	Silent	SNP	G	G	A	rs2988573	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IFNA6	NM_021002	exon1	c.C267T	p.N89N	.	.	140	9	174	0	G|0.818;A|0.182	68
IFT46	56912	bcgsc.ca	37	11	118430519	118430519	+	Missense_Mutation	SNP	C	C	T	rs11552421	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IFT46	NM_020153	exon3	c.G26A	p.C9Y	.	.	225	15	157	1	C|0.808;T|0.192	90
IGBP1P1	280655	bcgsc.ca	37	14	35409214	35409214	+	RNA	SNP	T	T	C	rs1967723	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	303	15	248	0	T|0.681;C|0.319	.
IGF1R	3480	bcgsc.ca	37	15	99478225	99478225	+	Silent	SNP	G	G	A	rs2229765	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IGF1R	NM_000875	exon16	c.G3129A	p.E1043E	.	.	193	8	152	2	G|0.625;A|0.375	1490
IGF2BP2	10644	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	185393150	185393150	+	Silent	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IGF2BP2	NM_001007225	exon9	c.C1005T	p.A335A	.	.	141	46	147	0	.	226
IGF2R	3482	bcgsc.ca	37	6	160453978	160453978	+	Silent	SNP	A	A	G	rs1570070	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IGF2R	NM_000876	exon9	c.A1050G	p.S350S	.	.	81	8	113	1	A|0.643;G|0.357	118
IGSF10	285313	bcgsc.ca	37	3	151155248	151155248	+	Silent	SNP	A	A	C	rs16863390	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IGSF10	NM_178822	exon6	c.T7101G	p.P2367P	.	.	151	7	157	0	A|0.969;C|0.031	102
IKBKAP	8518	bcgsc.ca	37	9	111641825	111641825	+	Missense_Mutation	SNP	G	G	A	rs1538660	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IKBKAP	NM_003640	exon33	c.C3473T	p.P1158L	.	.	98	5	96	1	G|0.772;A|0.228	318
IL10RA	3587	bcgsc.ca	37	11	117859209	117859209	+	Silent	SNP	G	G	A	rs4252249	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IL10RA	NM_001558	exon2	c.G180A	p.A60A	.	.	98	6	90	0	G|0.876;A|0.124	91
IL10RA	3587	bcgsc.ca	37	11	117869670	117869670	+	Missense_Mutation	SNP	A	A	G	rs2229113	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IL10RA	NM_001558	exon7	c.A1051G	p.R351G	.	.	62	5	37	0	A|0.247;G|0.753	91
IL17REL	400935	bcgsc.ca	37	22	50435480	50435480	+	Missense_Mutation	SNP	A	A	G	rs5771069	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IL17REL	NM_001001694	exon14	c.T998C	p.L333P	.	.	199	8	189	0	A|0.431;G|0.569	23
IL1RAPL2	26280	bcgsc.ca	37	X	104992963	104992963	+	Silent	SNP	T	T	C	rs3764765	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IL1RAPL2	NM_017416	exon9	c.T1059C	p.Y353Y	.	.	262	11	151	0	T|0.834;C|0.166	194
IL21	59067	bcgsc.ca	37	4	123536963	123536963	+	Silent	SNP	G	G	A	rs4833837	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IL21	NM_001207006	exon3	c.C234T	p.C78C	.	.	102	9	98	0	G|0.208;A|0.792	90
IL31	386653	bcgsc.ca	37	12	122657271	122657271	+	Silent	SNP	G	G	C	rs7974857	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IL31	NM_001014336	exon3	c.C183G	p.G61G	.	.	87	5	72	0	G|0.882;C|0.118	514
IL7R	3575	bcgsc.ca	37	5	35871190	35871190	+	Missense_Mutation	SNP	G	G	A	rs1494555	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IL7R	NM_002185	exon4	c.G412A	p.V138I	.	.	240	7	268	0	G|0.287;A|0.713	157
INF2	64423	ucsc.edu	37	14	105180706	105180706	+	Silent	SNP	C	C	G	rs1128840	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	INF2	NM_022489	exon21	c.A3207G	p.P1069P	.	.	55	6	60	0	A|0.116;C|0.869;G|0.015	492
INF2	64423	ucsc.edu;bcgsc.ca	37	14	105180785	105180785	+	Missense_Mutation	SNP	C	C	T	rs34251364	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	INF2	NM_022489	exon21	c.C3286T	p.P1096S	.	.	73	7	60	0	C|0.946;T|0.054	492
INPP4B	8821	ucsc.edu;bcgsc.ca	37	4	143324094	143324094	+	Silent	SNP	G	G	A	rs1982966	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	INPP4B	NM_003866	exon8	c.C369T	p.D123D	.	.	78	9	94	0	G|0.743;A|0.257	228
INTS2	57508	bcgsc.ca	37	17	59969000	59969000	+	Silent	SNP	T	T	C	rs753765	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	INTS2	NM_020748	exon14	c.A1773G	p.Q591Q	.	.	168	7	155	1	T|0.902;C|0.098	206
INTU	27152	bcgsc.ca	37	4	128584580	128584580	+	Silent	SNP	G	G	A	rs4833380	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	INTU	NM_015693	exon4	c.G813A	p.T271T	.	.	253	11	247	1	G|0.390;A|0.610	91
IQGAP1	8826	bcgsc.ca	37	15	91010776	91010776	+	Silent	SNP	T	T	C	rs1505936	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IQGAP1	NM_003870	exon18	c.T2130C	p.P710P	.	.	141	10	113	1	T|0.557;C|0.442	950
IQSEC1	9922	bcgsc.ca	37	3	12962074	12962074	+	Missense_Mutation	SNP	G	G	A	rs35319679	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IQSEC1	NM_014869	exon6	c.C1918T	p.P640S	.	.	76	4	82	0	G|0.898;A|0.102	91
IRAK4	51135	bcgsc.ca	37	12	44180295	44180295	+	Missense_Mutation	SNP	G	G	A	rs4251545	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	IRAK4	NM_016123	exon11	c.G1282A	p.A428T	.	.	308	12	320	2	G|0.843;A|0.157	1366
ISYNA1	51477	bcgsc.ca	37	19	18545786	18545786	+	Silent	SNP	G	G	T	rs1045631	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ISYNA1	NM_016368	exon11	c.C1614A	p.T538T	.	.	117	8	96	0	G|0.788;T|0.212	92
ITGAE	3682	bcgsc.ca	37	17	3632836	3632836	+	Missense_Mutation	SNP	G	G	A	rs1716	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ITGAE	NM_002208	exon24	c.C2848T	p.R950W	.	.	118	5	122	1	G|0.755;A|0.245	161
ITGB8	3696	bcgsc.ca	37	7	20421490	20421490	+	Silent	SNP	T	T	C	rs2230398	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ITGB8	NM_002214	exon6	c.T942C	p.Y314Y	.	.	88	6	72	0	A|0.000;C|0.397;G|0.000;T|0.603	227
ITIH2	3698	bcgsc.ca	37	10	7772035	7772035	+	Missense_Mutation	SNP	A	A	G	rs35524242	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ITIH2	NM_002216	exon12	c.A1400G	p.N467S	.	.	203	6	198	0	A|0.962;G|0.038	93
ITPA	3704	bcgsc.ca	37	20	3193978	3193978	+	Silent	SNP	G	G	A	rs8362	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ITPA	NM_033453	exon3	c.G138A	p.Q46Q	.	.	156	8	117	0	G|0.607;A|0.393	91
ITPKB	3707	bcgsc.ca	37	1	226923264	226923264	+	Silent	SNP	G	G	A	rs708775	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ITPKB	NM_002221	exon2	c.C1896T	p.A632A	.	.	226	9	156	0	G|0.716;A|0.284	230
ITSN2	50618	bcgsc.ca	37	2	24484531	24484531	+	Silent	SNP	A	A	G	rs41281489	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ITSN2	NM_147152	exon21	c.T2436C	p.Y812Y	.	.	342	13	358	3	A|0.988;G|0.012	539
JARID2	3720	bcgsc.ca	37	6	15468876	15468876	+	Silent	SNP	C	C	G	rs7768621	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	JARID2	NM_004973	exon5	c.C597G	p.T199T	.	.	176	12	124	0	C|0.904;G|0.096;T|0.000	228
JMY	133746	bcgsc.ca	37	5	78596044	78596044	+	Silent	SNP	T	T	C	rs10514159	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	JMY	NM_152405	exon5	c.T1596C	p.D532D	.	.	190	9	166	0	T|0.348;C|0.652	227
JPH3	57338	bcgsc.ca	37	16	87723838	87723838	+	Silent	SNP	T	T	C	rs34767155	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	JPH3	NM_020655	exon4	c.T1872C	p.H624H	.	.	138	7	134	0	T|0.582;C|0.418	92
JRK	8629	bcgsc.ca	37	8	143740311	143740311	+	Missense_Mutation	SNP	A	A	C	rs117839538	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001077527	exon4	c.T1627G	p.L543V	.	.	80	5	63	0	A|0.969;C|0.031	.
KATNA1	11104	bcgsc.ca	37	6	149953981	149953981	+	Silent	SNP	C	C	T	rs9800580	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KATNA1	NM_007044	exon3	c.G234A	p.L78L	.	.	65	5	103	0	C|0.522;T|0.478	91
KAZN	23254	bcgsc.ca	37	1	15382607	15382607	+	Silent	SNP	G	G	A	rs79632856	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KAZN	NM_015209	exon5	c.G747A	p.T249T	.	.	134	7	95	0	G|0.949;A|0.051	91
KCNG4	93107	bcgsc.ca	37	16	84256410	84256410	+	Missense_Mutation	SNP	C	C	T	rs7196482	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KCNG4	NM_172347	exon3	c.G973A	p.G325R	.	.	111	5	112	0	C|0.810;T|0.190	93
KCNMB2	10242	bcgsc.ca	37	3	178560581	178560581	+	Silent	SNP	A	A	C	rs6443583	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KCNMB2	NM_005832	exon6	c.A564C	p.T188T	.	.	140	8	151	2	A|0.352;C|0.648	91
KDM3B	51780	bcgsc.ca	37	5	137708434	137708434	+	Silent	SNP	C	C	T	rs4835678	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KDM3B	NM_016604	exon2	c.C264T	p.I88I	.	.	148	6	143	0	C|0.379;T|0.621	542
KIAA0040	9674	hgsc.bcm.edu;broad.mit.edu	37	1	175129947	175129955	+	In_Frame_Del	DEL	TTCTTCTTG	TTCTTCTTG	-	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	TTCTTCTTG	TTCTTCTTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001162895	exon3	c.195_203del	p.65_68del	.	.	62	15	65	0	.	.
KIAA0100	9703	hgsc.bcm.edu;bcgsc.ca	37	17	26945960	26945960	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KIAA0100	NM_014680	exon32	c.C5672A	p.A1891D	.	.	50	4	43	0	.	93
KIAA0754	643314	bcgsc.ca	37	1	39876573	39876573	+	Missense_Mutation	SNP	A	A	C	rs74607331	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_015038	exon1	c.A636C	p.L212F	.	.	274	9	275	0	A|0.988;C|0.012	.
KIAA1199	57214	ucsc.edu;bcgsc.ca	37	15	81212521	81212521	+	Silent	SNP	T	T	C	rs2271160	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KIAA1199	NM_018689	exon14	c.T1884C	p.C628C	.	.	90	9	96	0	T|0.844;C|0.156	93
KIAA1430	57587	ucsc.edu;bcgsc.ca;mdanderson.org	37	4	186112111	186112111	+	Silent	SNP	G	G	A	rs3108237	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KIAA1430	NM_020827	exon2	c.C240T	p.P80P	.	.	226	27	200	0	G|0.456;A|0.544	68
KIAA1549	57670	bcgsc.ca	37	7	138545996	138545996	+	Silent	SNP	G	G	A	rs12707399	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KIAA1549	NM_020910	exon16	c.C5136T	p.P1712P	.	.	51	5	28	0	G|0.913;A|0.087	369
KIAA1551	55196	bcgsc.ca	37	12	32134926	32134926	+	Missense_Mutation	SNP	G	G	A	rs3207618	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_018169	exon4	c.G1037A	p.S346N	.	.	213	12	249	0	G|0.936;A|0.064	.
KIAA1551	55196	bcgsc.ca	37	12	32137512	32137512	+	Missense_Mutation	SNP	C	C	G	rs3759299	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_018169	exon4	c.C3623G	p.S1208C	.	.	132	7	138	0	C|0.638;G|0.362	.
KIAA1967	57805	bcgsc.ca	37	8	22471824	22471824	+	Silent	SNP	G	G	A	rs3736147	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KIAA1967	NM_021174	exon9	c.G924A	p.S308S	.	.	61	5	82	0	G|0.741;A|0.259	92
KIF16B	55614	bcgsc.ca	37	20	16486698	16486698	+	Silent	SNP	G	G	A	rs2295115	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KIF16B	NM_001199865	exon8	c.C837T	p.L279L	.	.	91	6	80	0	G|0.760;A|0.240	291
KIF19	124602	bcgsc.ca	37	17	72351024	72351024	+	Missense_Mutation	SNP	T	T	C	rs9891620	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KIF19	NM_153209	exon19	c.T2810C	p.L937P	.	.	123	9	97	0	T|0.855;C|0.145	90
KIF20B	9585	bcgsc.ca	37	10	91479211	91479211	+	Missense_Mutation	SNP	G	G	T	rs17484219	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KIF20B	NM_016195	exon13	c.G1470T	p.E490D	.	.	233	11	252	0	G|0.839;T|0.161	93
KIF20B	9585	bcgsc.ca	37	10	91497409	91497409	+	Missense_Mutation	SNP	G	G	T	rs116910696	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KIF20B	NM_016195	exon20	c.G2691T	p.Q897H	.	.	343	10	339	0	G|0.999;T|0.001	93
KLHL38	340359	bcgsc.ca	37	8	124659223	124659223	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KLHL38	NM_001081675	exon2	c.A1382G	p.K461R	.	.	121	8	114	0	.	68
KLK1	3816	bcgsc.ca	37	19	51323232	51323232	+	Missense_Mutation	SNP	T	T	C	rs5517	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KLK1	NM_002257	exon4	c.A556G	p.K186E	.	.	112	7	91	0	T|0.707;C|0.293	226
KLK3	354	bcgsc.ca	37	19	51361382	51361382	+	Missense_Mutation	SNP	G	G	A	rs61752561	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KLK3	NM_001030047	exon3	c.G304A	p.D102N	.	.	56	4	41	0	G|0.975;A|0.025	228
KMO	8564	bcgsc.ca	37	1	241712134	241712134	+	Silent	SNP	C	C	T	rs11556464	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KMO	NM_003679	exon2	c.C60T	p.G20G	.	.	94	8	63	0	C|0.614;T|0.386	92
KRT24	192666	bcgsc.ca	37	17	38857446	38857446	+	Missense_Mutation	SNP	C	C	A	rs874889	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KRT24	NM_019016	exon3	c.G801T	p.M267I	.	.	110	8	106	2	T|0.097;G|0.111	90
KRT24	192666	ucsc.edu;bcgsc.ca	37	17	38855772	38855772	+	Missense_Mutation	SNP	T	T	C	rs2462961	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KRT24	NM_019016	exon6	c.A1285G	p.K429E	.	.	54	7	51	0	T|0.491;C|0.509	90
KRT25	147183	bcgsc.ca	37	17	38911327	38911327	+	Missense_Mutation	SNP	C	C	G	rs35076248	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KRT25	NM_181534	exon1	c.G197C	p.G66A	.	.	88	6	76	0	C|0.849;G|0.151	92
KRT27	342574	bcgsc.ca	37	17	38938557	38938557	+	Silent	SNP	G	G	A	rs67771170	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KRT27	NM_181537	exon1	c.C189T	p.G63G	.	.	67	6	86	0	G|0.899;A|0.101	90
KRT27	342574	ucsc.edu;bcgsc.ca	37	17	38938591	38938591	+	Missense_Mutation	SNP	C	C	G	rs2469826	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KRT27	NM_181537	exon1	c.G155C	p.S52T	.	.	64	6	88	0	C|0.605;G|0.395	90
KRT34	3885	bcgsc.ca	37	17	39535859	39535859	+	Missense_Mutation	SNP	A	A	G	rs2239710	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KRT34	NM_021013	exon4	c.T839C	p.I280T	.	.	82	5	75	0	A|0.261;G|0.739	90
KRT6B	3854	bcgsc.ca	37	12	52841179	52841179	+	Missense_Mutation	SNP	T	T	C	rs61746354	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KRT6B	NM_005555	exon9	c.A1490G	p.Y497C	.	.	109	6	93	0	T|0.961;C|0.039	92
KRT75	9119	bcgsc.ca	37	12	52827740	52827740	+	Missense_Mutation	SNP	G	G	C	rs2232386	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KRT75	NM_004693	exon1	c.C349G	p.P117A	.	.	180	7	140	0	G|0.701;C|0.299	90
KRT75	9119	ucsc.edu;bcgsc.ca	37	12	52818377	52818377	+	Missense_Mutation	SNP	C	C	T	rs61730614	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KRT75	NM_004693	exon9	c.G1580A	p.R527Q	.	.	65	8	51	0	C|0.848;T|0.152	90
KRT83	3889	bcgsc.ca	37	12	52712975	52712975	+	Silent	SNP	G	G	A	rs56040851		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KRT83	NM_002282	exon2	c.C558T	p.N186N	.	.	162	10	164	1	.	91
KRT84	3890	bcgsc.ca	37	12	52774158	52774158	+	Silent	SNP	G	G	A	rs951772	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KRT84	NM_033045	exon7	c.C1413T	p.G471G	.	.	43	4	40	0	G|0.688;A|0.312	91
KRTAP4-3	85290	ucsc.edu;bcgsc.ca	37	17	39324333	39324333	+	Missense_Mutation	SNP	T	T	A	rs12953139	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KRTAP4-3	NM_033187	exon1	c.A92T	p.Q31L	.	.	131	26	113	0	A|0.046;T|0.954	22
KSR1	8844	bcgsc.ca	37	17	25909850	25909850	+	Silent	SNP	G	G	T	rs2293181	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	KSR1	NM_014238	exon5	c.G288T	p.L96L	.	.	105	8	104	0	G|0.591;T|0.409	964
L3HYPDH	112849	bcgsc.ca	37	14	59939727	59939727	+	Missense_Mutation	SNP	T	T	C	rs8660	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_144581	exon5	c.A1021G	p.I341V	.	.	181	16	184	1	T|0.478;C|0.522	.
LAMA1	284217	bcgsc.ca	37	18	6985631	6985631	+	Silent	SNP	C	C	T	rs617206	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LAMA1	NM_005559	exon38	c.G5391A	p.L1797L	.	.	86	6	71	0	C|0.506;T|0.494	149
LAMA2	3908	bcgsc.ca	37	6	129722425	129722425	+	Silent	SNP	G	G	A	rs3749878	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LAMA2	NM_000426	exon38	c.G5502A	p.E1834E	.	.	56	5	95	0	G|0.461;A|0.539	162
LAMA2	3908	ucsc.edu;bcgsc.ca	37	6	129722389	129722389	+	Silent	SNP	A	A	G	rs3749877	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LAMA2	NM_000426	exon38	c.A5466G	p.E1822E	.	.	51	5	87	0	A|0.460;G|0.540	162
LAMB3	3914	bcgsc.ca	37	1	209796329	209796329	+	Missense_Mutation	SNP	T	T	A	rs12748250	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LAMB3	NM_000228	exon17	c.A2554T	p.M852L	.	.	98	6	76	1	T|0.890;A|0.110	156
LANCL2	55915	bcgsc.ca	37	7	55433880	55433880	+	Silent	SNP	G	G	C	rs2272262	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LANCL2	NM_018697	exon1	c.G162C	p.A54A	.	.	151	6	136	1	G|0.685;C|0.315	516
LANCL2	55915	bcgsc.ca	37	7	55433884	55433884	+	Missense_Mutation	SNP	A	A	C	rs2272263	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LANCL2	NM_018697	exon1	c.A166C	p.T56P	.	.	152	7	137	0	A|0.759;C|0.241	516
LARP1B	55132	bcgsc.ca	37	4	129003375	129003375	+	Silent	SNP	A	A	G	rs148060340	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LARP1B	NM_032239	exon5	c.A273G	p.Q91Q	.	.	432	18	379	1	A|0.994;G|0.006	68
LATS1	9113	bcgsc.ca	37	6	149983216	149983216	+	Silent	SNP	G	G	A	rs3924871	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LATS1	NM_004690	exon8	c.C3042T	p.D1014D	.	.	120	7	181	0	G|0.512;A|0.488	992
LATS1	9113	bcgsc.ca	37	6	150004779	150004779	+	Silent	SNP	A	A	G	rs3798761	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LATS1	NM_001270519	exon4	c.T1446C	p.S482S	.	.	80	5	139	0	A|0.510;G|0.490	992
LCE1C	353133	bcgsc.ca	37	1	152777908	152777908	+	Missense_Mutation	SNP	C	C	T	rs2006940	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LCE1C	NM_178351	exon2	c.G47A	p.C16Y	.	.	219	8	189	1	C|0.847;T|0.153	90
LDHAL6B	92483	bcgsc.ca	37	15	59499179	59499179	+	Missense_Mutation	SNP	G	G	A	rs3809530	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LDHAL6B	NM_033195	exon1	c.G40A	p.V14M	.	.	63	5	52	0	G|0.690;A|0.310	226
LDHAL6B	92483	bcgsc.ca	37	15	59499228	59499228	+	Missense_Mutation	SNP	C	C	T	rs3809529	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LDHAL6B	NM_033195	exon1	c.C89T	p.P30L	.	.	62	5	57	0	C|0.613;T|0.387	226
LDHAL6B	92483	bcgsc.ca	37	15	59500116	59500116	+	Missense_Mutation	SNP	T	T	C	rs3825937	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LDHAL6B	NM_033195	exon1	c.T977C	p.I326T	.	.	164	14	176	1	T|0.680;C|0.320	226
LEFTY1	10637	bcgsc.ca	37	1	226074563	226074563	+	Missense_Mutation	SNP	T	T	G	rs360057	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LEFTY1	NM_020997	exon4	c.A965C	p.D322A	.	.	226	12	134	1	T|0.711;G|0.289	90
LEPR	3953	bcgsc.ca	37	1	66036441	66036441	+	Missense_Mutation	SNP	A	A	G	rs1137100	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LEPR	NM_001003680	exon4	c.A326G	p.K109R	.	.	117	9	123	0	A|0.705;G|0.295	91
LILRP2	79166	broad.mit.edu	37	19	55221769	55221769	+	RNA	SNP	C	C	T	rs270773	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	26	3	31	0	C|0.443;T|0.557	.
LIMCH1	22998	bcgsc.ca	37	4	41691601	41691601	+	Silent	SNP	T	T	C	rs1061597	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LIMCH1	NM_014988	exon25	c.T3072C	p.A1024A	.	.	164	6	131	0	T|0.885;C|0.115	26
LIPN	643418	bcgsc.ca	37	10	90530660	90530660	+	Missense_Mutation	SNP	C	C	A	rs10788611	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001102469	exon6	c.C731A	p.T244N	.	.	413	20	364	3	C|0.578;A|0.422	.
LLGL2	3993	bcgsc.ca	37	17	73565171	73565171	+	Missense_Mutation	SNP	T	T	C	rs1671021	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LLGL2	NM_004524	exon13	c.T1435C	p.F479L	.	.	90	5	65	0	T|0.485;C|0.514	251
LMO1	4004	ucsc.edu;bcgsc.ca	37	11	8251921	8251921	+	Silent	SNP	G	G	C	rs3750952	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LMO1	NM_002315	exon2	c.C156G	p.A52A	.	.	69	8	55	0	G|0.474;C|0.526	658
LOC100287639	0	bcgsc.ca	37	3	95374223	95374223	+	RNA	SNP	A	A	G	rs9839680	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	50	5	44	0	A|0.967;G|0.033	.
LOC100507053	0	bcgsc.ca	37	4	100205829	100205829	+	RNA	SNP	T	T	G	rs28364311	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	240	8	220	0	T|0.769;G|0.231	.
LOC151174	0	bcgsc.ca	37	2	239133980	239133980	+	RNA	SNP	C	C	T	rs7558525		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	145	6	124	0	C|0.792;T|0.208	.
LOC200772	0	bcgsc.ca	37	2	241898824	241898824	+	RNA	SNP	A	A	G	rs10169006	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	161	9	152	0	A|0.288;G|0.712	.
LOC392232	0	bcgsc.ca	37	8	73142382	73142382	+	RNA	SNP	C	C	T	rs76718907		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	567	23	529	2	T|1.000;|0.000	.
LOC401010	0	bcgsc.ca	37	2	132201468	132201468	+	RNA	SNP	G	G	A	rs4522649	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	165	6	193	0	G|0.656;A|0.344	.
LOC401010	0	bcgsc.ca	37	2	132201582	132201582	+	RNA	SNP	A	A	G	rs1806886	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	92	5	123	0	A|0.592;G|0.408	.
LOC442028	0	broad.mit.edu;bcgsc.ca	37	2	95552783	95552783	+	RNA	SNP	C	C	T	rs61758133	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	90	8	87	1	C|0.446;T|0.554	.
LOC494127	0	bcgsc.ca	37	9	89699193	89699193	+	RNA	SNP	C	C	G	rs11141677	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	85	6	84	0	C|0.783;G|0.217	.
LOC643387	0	bcgsc.ca	37	2	239140728	239140728	+	RNA	SNP	A	A	G	rs11689033	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	120	6	121	0	A|0.825;G|0.175	.
LOC727924	0	bcgsc.ca	37	15	22297862	22297862	+	RNA	SNP	G	G	C	rs8025192	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	432	19	457	2	G|0.583;C|0.417	.
LPHN3	23284	bcgsc.ca	37	4	62598689	62598689	+	Silent	SNP	C	C	T	rs10434219	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LPHN3	NM_015236	exon5	c.C612T	p.H204H	.	.	114	8	111	0	C|0.231;T|0.769	508
LPHN3	23284	hgsc.bcm.edu	37	4	62758659	62758659	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LPHN3	NM_015236	exon7	c.G1562T	p.C521F	.	.	73	4	76	0	.	508
LRP1B	53353	bcgsc.ca	37	2	141032088	141032088	+	Silent	SNP	C	C	T	rs1386356	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LRP1B	NM_018557	exon85	c.G13047A	p.T4349T	.	.	87	7	69	0	C|0.462;T|0.538	311
LRP2	4036	bcgsc.ca	37	2	170150671	170150671	+	Silent	SNP	G	G	A	rs2229266	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LRP2	NM_004525	exon6	c.C639T	p.D213D	.	.	328	12	294	0	G|0.433;T|0.137	175
LRP2BP	55805	bcgsc.ca	37	4	186299260	186299260	+	Silent	SNP	A	A	G	rs2030802	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LRP2BP	NM_018409	exon1	c.T81C	p.F27F	.	.	179	8	194	1	A|0.641;G|0.359	90
LRRC69	100130742	bcgsc.ca	37	8	92136728	92136728	+	Missense_Mutation	SNP	C	C	T	rs11785003	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001129890	exon2	c.C191T	p.T64I	.	.	101	8	103	1	C|0.555;T|0.445	.
LRRIQ1	84125	bcgsc.ca	37	12	85438499	85438499	+	Missense_Mutation	SNP	G	G	A	rs3765044	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LRRIQ1	NM_001079910	exon4	c.G248A	p.C83Y	.	.	559	20	670	2	G|0.796;A|0.204	95
LRRK2	120892	bcgsc.ca	37	12	40671989	40671989	+	Missense_Mutation	SNP	A	A	G	rs10878307	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LRRK2	NM_198578	exon18	c.A2167G	p.I723V	.	.	155	9	157	1	A|0.947;G|0.053	533
LTF	4057	bcgsc.ca	37	3	46480801	46480801	+	Silent	SNP	A	A	G	rs9110	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LTF	NM_002343	exon15	c.T1894C	p.L632L	.	.	197	7	156	0	T|0.151;G|0.294;C|0.140;A|0.414	703
LTV1	84946	bcgsc.ca	37	6	144181619	144181619	+	Silent	SNP	A	A	G	rs7454959	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LTV1	NM_032860	exon7	c.A852G	p.E284E	.	.	117	7	169	0	A|0.952;G|0.048	91
LY75	4065	bcgsc.ca	37	2	160711045	160711045	+	Missense_Mutation	SNP	G	G	C	rs3951216	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LY75	NM_002349	exon18	c.C2421G	p.D807E	.	.	434	18	464	0	G|0.536;C|0.464	90
LY9	4063	bcgsc.ca	37	1	160793442	160793442	+	Silent	SNP	A	A	G	rs474131	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LY9	NM_002348	exon8	c.A1686G	p.V562V	.	.	131	7	110	1	A|0.447;G|0.553	91
LYST	1130	bcgsc.ca	37	1	235940450	235940450	+	Silent	SNP	C	C	T	rs2273584	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	LYST	NM_000081	exon17	c.G5373A	p.K1791K	.	.	329	11	219	1	C|0.600;T|0.400	143
MACF1	23499	bcgsc.ca	37	1	39908506	39908506	+	Missense_Mutation	SNP	G	G	A	rs587404	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MACF1	NM_012090	exon75	c.G13048A	p.A4350T	.	.	109	9	133	0	G|0.640;A|0.360	165
MACF1	23499	bcgsc.ca	37	1	39914363	39914363	+	Missense_Mutation	SNP	G	G	C	rs668556	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MACF1	NM_012090	exon81	c.G14009C	p.S4670T	.	.	96	6	95	0	G|0.417;C|0.583	165
MAGEA12	4111	bcgsc.ca	37	X	151899913	151899913	+	Silent	SNP	T	T	C	rs2233055	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MAGEA12	NM_005367	exon2	c.A888G	p.G296G	.	.	369	12	212	1	T|0.627;C|0.373	131
MAGEB10	139422	bcgsc.ca	37	X	27839572	27839572	+	Missense_Mutation	SNP	T	T	C	rs1368769	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MAGEB10	NM_182506	exon3	c.T149C	p.F50S	.	.	66	5	66	0	0|0.029;C|0.421	130
MAGEB3	4114	bcgsc.ca	37	X	30254361	30254361	+	Missense_Mutation	SNP	G	G	A	rs2071308	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MAGEB3	NM_002365	exon5	c.G320A	p.R107H	.	.	92	8	119	1	G|0.568;A|0.432	130
MAGEC1	9947	bcgsc.ca	37	X	140994591	140994591	+	Missense_Mutation	SNP	C	C	G	rs176048	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MAGEC1	NM_005462	exon4	c.C1401G	p.H467Q	.	.	177	10	108	0	C|0.811;G|0.189	133
MAGI2	9863	bcgsc.ca	37	7	77789403	77789403	+	Silent	SNP	A	A	G	rs1009524	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MAGI2	NM_012301	exon16	c.T2784C	p.N928N	.	.	71	5	86	0	A|0.879;G|0.121	461
MAGI3	260425	bcgsc.ca	37	1	114226143	114226143	+	Missense_Mutation	SNP	G	G	A	rs61742849	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MAGI3	NM_001142782	exon21	c.G3953A	p.G1318D	.	.	364	14	344	0	G|0.977;A|0.023	524
MAL2	114569	bcgsc.ca	37	8	120233910	120233910	+	Silent	SNP	C	C	T	rs34920533	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_052886	exon3	c.C216T	p.S72S	.	.	161	11	173	0	C|0.945;T|0.055	.
MAML3	55534	bcgsc.ca	37	4	140640703	140640703	+	Missense_Mutation	SNP	G	G	T	rs61747885	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MAML3	NM_018717	exon6	c.C3179A	p.P1060H	.	.	46	5	60	0	G|0.877;T|0.123	455
MAN2B1	4125	bcgsc.ca	37	19	12774208	12774208	+	Missense_Mutation	SNP	G	G	C	rs1054486	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MAN2B1	NM_001173498	exon6	c.C832G	p.L278V	.	.	46	4	46	0	G|0.590;C|0.410	94
MAP2K5	5607	bcgsc.ca	37	15	67984818	67984818	+	Silent	SNP	C	C	T	rs55966838	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MAP2K5	NM_145160	exon14	c.C849T	p.D283D	.	.	183	9	160	0	C|0.994;T|0.006	546
MAP3K6	9064	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	27682196	27682196	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MAP3K6	NM_004672	exon28	c.A3752G	p.Y1251C	.	.	97	35	92	0	.	1523
MAP3K9	4293	bcgsc.ca	37	14	71199452	71199452	+	Silent	SNP	G	G	A	rs3829955	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MAP3K9	NM_033141	exon12	c.C2676T	p.N892N	.	.	137	8	131	0	G|0.774;A|0.226	546
MAP4	4134	bcgsc.ca	37	3	47957996	47957996	+	Missense_Mutation	SNP	C	C	G	rs2230169	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MAP4	NM_001134364	exon7	c.G1321C	p.E441Q	.	.	140	9	146	1	C|0.742;G|0.258	93
MAP4K5	11183	bcgsc.ca	37	14	50911878	50911878	+	Missense_Mutation	SNP	G	G	A	rs34818002	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MAP4K5	NM_006575	exon18	c.C1220T	p.P407L	.	.	139	6	168	0	G|0.992;A|0.008	546
MATN4	8785	ucsc.edu	37	20	43932988	43932988	+	Missense_Mutation	SNP	G	G	A	rs188299540	by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MATN4	NM_030592	exon3	c.C523T	p.R175C	.	.	48	4	25	0	G|0.999;A|0.000	90
MBD4	8930	bcgsc.ca	37	3	129155414	129155414	+	Missense_Mutation	SNP	A	A	G	rs2307298	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MBD4	NM_003925	exon3	c.T1073C	p.I358T	.	.	152	9	142	0	A|0.993;G|0.007	228
MBOAT1	154141	bcgsc.ca	37	6	20126808	20126808	+	Silent	SNP	C	C	T	rs150830540	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MBOAT1	NM_001080480	exon7	c.G654A	p.K218K	.	.	166	6	139	1	C|0.999;T|0.001	68
MBOAT4	619373	mdanderson.org	37	8	29989564	29989564	+	Missense_Mutation	SNP	A	A	C	rs7844812	byfrequency;alternate_allele	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MBOAT4	NM_001100916	exon3	c.T1203G	p.S401R	.	.	131	6	196	0	A|0.240;G|0.760	68
MCF2L2	23101	bcgsc.ca	37	3	183056598	183056598	+	Missense_Mutation	SNP	G	G	A	rs12632177	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MCF2L2	NM_015078	exon5	c.C476T	p.T159M	.	.	101	5	95	1	G|0.942;A|0.058	293
MCM8	84515	bcgsc.ca	37	20	5967972	5967972	+	Silent	SNP	C	C	T	rs34887921	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MCM8	NM_032485	exon17	c.C2208T	p.D736D	.	.	573	15	582	0	C|0.996;T|0.004	227
MCMDC2	157777	bcgsc.ca	37	8	67796120	67796120	+	Missense_Mutation	SNP	C	C	G	rs17332410	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_173518	exon9	c.C964G	p.L322V	.	.	111	6	88	0	C|0.950;G|0.050	.
MCPH1	79648	bcgsc.ca	37	8	6302154	6302154	+	Missense_Mutation	SNP	G	G	T	rs2083914	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MCPH1	NM_001172574	exon8	c.G911T	p.R304I	.	.	157	9	226	0	G|0.900;T|0.100	229
MCPH1	79648	bcgsc.ca	37	8	6303025	6303025	+	Silent	SNP	G	G	A	rs2584	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MCPH1	NM_001172574	exon8	c.G1782A	p.T594T	.	.	174	12	249	0	G|0.814;A|0.186	229
MCPH1	79648	bcgsc.ca	37	8	6500544	6500544	+	Missense_Mutation	SNP	C	C	T	rs1057091	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MCPH1	NM_024596	exon14	c.C2482T	p.P828S	.	.	43	4	67	0	C|0.750;T|0.250	229
MDN1	23195	ucsc.edu;bcgsc.ca	37	6	90497589	90497589	+	Missense_Mutation	SNP	A	A	C	rs4707569	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MDN1	NM_014611	exon8	c.T1318G	p.F440V	.	.	32	4	38	0	A|0.832;C|0.168	100
MED12	9968	ucsc.edu;bcgsc.ca	37	X	70349947	70349947	+	Silent	SNP	A	A	C	rs5030619	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MED12	NM_005120	exon28	c.A3930C	p.P1310P	.	.	121	12	109	0	A|0.854;0|0.007	272
MED14	9282	bcgsc.ca	37	X	40542212	40542212	+	Silent	SNP	T	T	C	rs12558065	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MED14	NM_004229	exon17	c.A2094G	p.Q698Q	.	.	86	5	91	0	T|0.985;C|0.015	289
MEP1A	4224	bcgsc.ca	37	6	46793175	46793175	+	Silent	SNP	G	G	A	rs6920863	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MEP1A	NM_005588	exon8	c.G723A	p.Q241Q	.	.	135	7	97	1	G|0.598;A|0.402	183
MEP1A	4224	bcgsc.ca	37	6	46806809	46806809	+	Missense_Mutation	SNP	C	C	T	rs1804211	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MEP1A	NM_005588	exon14	c.C2177T	p.T726M	.	.	60	4	48	0	C|0.738;T|0.262	183
MERTK	10461	bcgsc.ca	37	2	112686988	112686988	+	Missense_Mutation	SNP	G	G	A	rs13027171	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MERTK	NM_006343	exon2	c.G353A	p.S118N	.	.	270	11	247	0	G|0.804;A|0.196	1463
METTL14	57721	bcgsc.ca	37	4	119610606	119610606	+	Silent	SNP	A	A	G	rs62328061	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	METTL14	NM_020961	exon3	c.A237G	p.E79E	.	.	584	19	573	0	A|0.951;G|0.049	90
METTL21A	151194	bcgsc.ca	37	2	208478055	208478055	+	Silent	SNP	A	A	G	rs17520056	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	METTL21A	NM_145280	exon4	c.T372C	p.T124T	.	.	166	17	158	0	A|0.705;G|0.295	69
METTL2B	55798	bcgsc.ca	37	7	128140982	128140982	+	Silent	SNP	T	T	C	rs80061969		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	METTL2B	NM_018396	exon8	c.T942C	p.Y314Y	.	.	181	9	180	0	.	23
METTL4	64863	bcgsc.ca	37	18	2555002	2555002	+	Silent	SNP	C	C	T	rs12607882	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	METTL4	NM_022840	exon4	c.G495A	p.L165L	.	.	168	9	144	0	C|0.894;T|0.106	227
METTL4	64863	bcgsc.ca	37	18	2555005	2555005	+	Silent	SNP	C	C	T	rs61730027	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	METTL4	NM_022840	exon4	c.G492A	p.Q164Q	.	.	159	8	139	0	C|0.895;T|0.105	227
METTL4	64863	bcgsc.ca	37	18	2555008	2555008	+	Missense_Mutation	SNP	T	T	G	rs12606220	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	METTL4	NM_022840	exon4	c.A489C	p.L163F	.	.	155	8	138	0	T|0.885;G|0.115	227
METTL8	79828	bcgsc.ca	37	2	172188368	172188368	+	Silent	SNP	C	C	T	rs13023973	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	METTL8	.	.	.	.	.	.	165	8	209	0	C|0.820;T|0.180	91
MGME1	92667	bcgsc.ca	37	20	17968923	17968923	+	Silent	SNP	T	T	C	rs28455091	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_052865	exon4	c.T846C	p.D282D	.	.	101	8	104	0	T|0.732;C|0.268	.
MIDN	90007	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	1254228	1254228	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MIDN	NM_177401	exon5	c.G447A	p.M149I	.	.	24	9	25	0	.	90
MKI67	4288	bcgsc.ca	37	10	129899778	129899778	+	Missense_Mutation	SNP	G	G	C	rs11106	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MKI67	NM_002417	exon14	c.C9449G	p.T3150S	.	.	117	5	87	1	G|0.537;C|0.463	519
MKI67	4288	bcgsc.ca	37	10	129903016	129903016	+	Missense_Mutation	SNP	T	T	C	rs7071768	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MKI67	NM_002417	exon13	c.A7088G	p.N2363S	.	.	180	8	131	2	T|0.519;C|0.481	519
MKI67	4288	bcgsc.ca	37	10	129905429	129905429	+	Missense_Mutation	SNP	C	C	T	rs7918199	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MKI67	NM_002417	exon13	c.G4675A	p.V1559M	.	.	194	8	182	0	C|0.914;T|0.086	519
MKI67	4288	bcgsc.ca	37	10	129907544	129907544	+	Missense_Mutation	SNP	G	G	C	rs2240	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MKI67	NM_002417	exon13	c.C2560G	p.L854V	.	.	116	7	99	0	G|0.776;C|0.224	519
MKI67	4288	bcgsc.ca	37	10	129917560	129917560	+	Missense_Mutation	SNP	T	T	C	rs2071498	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MKI67	NM_001145966	exon5	c.A311G	p.N104S	.	.	139	11	108	0	T|0.378;C|0.622	519
MLIP	90523	bcgsc.ca	37	6	53883843	53883843	+	Missense_Mutation	SNP	G	G	A	rs17625497	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MLIP	NM_138569	exon1	c.G17A	p.R6H	.	.	405	12	301	0	G|0.784;A|0.216	99
MLL4	8085	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	36211874	36211874	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MLL4	NM_014727	exon3	c.C1625G	p.T542R	.	.	46	14	46	0	.	697
MLLT10	8028	bcgsc.ca	37	10	21827796	21827796	+	Silent	SNP	G	G	A	rs1802669	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MLLT10	NM_001195630	exon3	c.G195A	p.P65P	.	.	138	7	151	0	A|0.343;G|0.656;T|0.000	658
MMADHC	27249	bcgsc.ca	37	2	150432976	150432976	+	Silent	SNP	C	C	T	rs11545261	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MMADHC	NM_015702	exon5	c.G453A	p.Q151Q	.	.	254	21	233	0	C|0.220;T|0.780	226
MMP10	4319	bcgsc.ca	37	11	102650246	102650246	+	Silent	SNP	G	G	A	rs17860949	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MMP10	NM_002425	exon2	c.C336T	p.H112H	.	.	174	6	130	0	G|0.872;A|0.128	713
MMS22L	253714	broad.mit.edu;bcgsc.ca	37	6	97613321	97613321	+	Missense_Mutation	SNP	C	C	T	rs138542381		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MMS22L	NM_198468	exon21	c.G3022A	p.V1008M	.	.	64	6	97	0	C|1.000;T|0.000	92
MNDA	4332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	158813106	158813106	+	Silent	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MNDA	NM_002432	exon3	c.G303A	p.V101V	.	.	481	91	318	0	.	94
MOK	5891	bcgsc.ca	37	14	102695693	102695693	+	Missense_Mutation	SNP	T	T	C	rs2236493	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_014226	exon12	c.A1193G	p.Q398R	.	.	67	5	76	0	T|0.713;C|0.287	.
MON1B	22879	bcgsc.ca	37	16	77225440	77225440	+	Missense_Mutation	SNP	G	G	T	rs35193130	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MON1B	NM_014940	exon2	c.G58T	p.D20Y	.	.	132	7	149	0	G|0.991;T|0.009	90
MPC2	25874	bcgsc.ca	37	1	167893759	167893759	+	Silent	SNP	G	G	A	rs9618	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001143674	exon3	c.C126T	p.F42F	.	.	567	33	487	2	G|0.610;A|0.390	.
MPDZ	8777	bcgsc.ca	37	9	13219570	13219570	+	Silent	SNP	T	T	C	rs13297480	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MPDZ	NM_003829	exon8	c.A1074G	p.T358T	.	.	178	8	150	0	T|0.880;C|0.120	231
MPEG1	219972	ucsc.edu;bcgsc.ca	37	11	58978940	58978940	+	Missense_Mutation	SNP	C	C	T	rs544864	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MPEG1	NM_001039396	exon1	c.G1399A	p.A467T	.	.	39	4	46	0	C|0.735;T|0.265	70
MPHOSPH6	10200	bcgsc.ca	37	16	82182418	82182418	+	Missense_Mutation	SNP	T	T	C	rs34375324	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MPHOSPH6	NM_005792	exon5	c.A401G	p.D134G	.	.	130	7	147	1	T|0.990;C|0.010	90
MPP5	64398	bcgsc.ca	37	14	67759282	67759282	+	Missense_Mutation	SNP	C	C	A	rs61744208	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MPP5	NM_022474	exon4	c.C422A	p.S141Y	.	.	270	14	285	1	C|0.976;A|0.024	91
MRGPRX2	117194	bcgsc.ca	37	11	19077765	19077765	+	Missense_Mutation	SNP	T	T	C	rs10833049	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MRGPRX2	NM_054030	exon2	c.A185G	p.N62S	.	.	102	9	115	0	C|0.329;G|0.000;T|0.671	91
MRGPRX4	117196	bcgsc.ca	37	11	18194827	18194827	+	Missense_Mutation	SNP	C	C	G	rs2468774	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MRGPRX4	NM_054032	exon1	c.C24G	p.F8L	.	.	111	6	129	0	C|0.620;G|0.380	91
MROH2B	133558	bcgsc.ca	37	5	41069852	41069852	+	Missense_Mutation	SNP	T	T	C	rs13174484	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_173489	exon2	c.A31G	p.M11V	.	.	321	10	358	0	T|0.743;C|0.257	.
MROH8	140699	bcgsc.ca	37	20	35740794	35740794	+	Missense_Mutation	SNP	T	T	C	rs1744760	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	129	6	106	0	T|0.596;C|0.404	.
MROH8	140699	bcgsc.ca	37	20	35769647	35769647	+	Missense_Mutation	SNP	G	G	T	rs1780680	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	200	8	162	0	G|0.594;N|0.000	.
MROH9	80133	bcgsc.ca	37	1	170934394	170934394	+	Missense_Mutation	SNP	T	T	C	rs16863872	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_025063	exon7	c.T478C	p.Y160H	.	.	298	9	187	1	T|0.955;C|0.045	.
MROH9	80133	bcgsc.ca	37	1	170959029	170959029	+	Silent	SNP	C	C	T	rs16863922	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_025063	exon11	c.C913T	p.L305L	.	.	144	7	106	0	C|0.805;T|0.195	.
MROH9	80133	bcgsc.ca	37	1	170959088	170959088	+	Silent	SNP	C	C	T	rs28634500	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_025063	exon11	c.C972T	p.C324C	.	.	178	8	131	0	C|0.791;T|0.209	.
MRPL40	64976	bcgsc.ca	37	22	19420109	19420109	+	Missense_Mutation	SNP	T	T	C	rs1128399	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MRPL40	NM_003776	exon1	c.T32C	p.L11P	.	.	90	5	102	0	T|0.920;C|0.080	90
MRPS10	55173	bcgsc.ca	37	6	42185564	42185564	+	Silent	SNP	A	A	C	rs9471809	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MRPS10	NM_018141	exon1	c.T24G	p.G8G	.	.	58	5	31	1	A|0.679;C|0.321	90
MS4A7	58475	bcgsc.ca	37	11	60152584	60152584	+	Silent	SNP	G	G	A	rs950802	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MS4A7	NM_021201	exon3	c.G171A	p.L57L	.	.	142	7	139	0	G|0.609;A|0.391	91
MSGN1	343930	bcgsc.ca	37	2	17998095	17998095	+	Missense_Mutation	SNP	C	C	T	rs35858730	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MSGN1	NM_001105569	exon1	c.C310T	p.H104Y	.	.	138	11	114	1	C|0.602;T|0.398	69
MSGN1	343930	ucsc.edu;bcgsc.ca	37	2	17998331	17998331	+	Silent	SNP	T	T	C	rs13001625	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MSGN1	NM_001105569	exon1	c.T546C	p.L182L	.	.	90	10	90	1	T|0.586;C|0.414	69
MSH3	4437	bcgsc.ca	37	5	80168937	80168937	+	Missense_Mutation	SNP	G	G	A	rs26279	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MSH3	NM_002439	exon23	c.G3133A	p.A1045T	.	.	265	21	208	0	G|0.309;A|0.691	661
MSL3P1	151507	bcgsc.ca	37	2	234775675	234775675	+	RNA	SNP	G	G	T	rs213544	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	141	8	159	0	G|0.944;T|0.056	.
MTF1	4520	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	38297937	38297937	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MTF1	NM_005955	exon7	c.T1048G	p.L350V	.	.	109	36	90	0	.	92
MTHFR	4524	bcgsc.ca	37	1	11863057	11863057	+	Silent	SNP	G	G	A	rs2066470	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MTHFR	NM_005957	exon2	c.C117T	p.P39P	.	.	81	5	61	0	G|0.910;A|0.090	90
MTIF2	4528	bcgsc.ca	37	2	55481322	55481322	+	Silent	SNP	T	T	A	rs2230370	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MTIF2	NM_002453	exon7	c.A519T	p.P173P	.	.	147	13	182	0	T|0.695;A|0.305	91
MTIF3	219402	ucsc.edu;bcgsc.ca	37	13	28009851	28009851	+	Silent	SNP	G	G	A	rs7669	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MTIF3	NM_001166263	exon6	c.C798T	p.D266D	.	.	106	11	106	0	A|0.137;C|0.000;G|0.863	92
MTOR	2475	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	11259619	11259619	+	Silent	SNP	T	T	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MTOR	NM_004958	exon27	c.A4086G	p.E1362E	.	.	89	32	103	0	.	1439
MTPAP	55149	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	30629287	30629287	+	Silent	SNP	T	T	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MTPAP	NM_018109	exon3	c.A423G	p.A141A	.	.	106	39	112	0	.	91
MTPAP	55149	ucsc.edu;bcgsc.ca	37	10	30629226	30629226	+	Missense_Mutation	SNP	G	G	A	rs1047991	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MTPAP	NM_018109	exon3	c.C484T	p.R162C	.	.	91	9	101	0	G|0.755;A|0.245	91
MUC16	94025	bcgsc.ca	37	19	9048320	9048320	+	Missense_Mutation	SNP	C	C	T	rs56334501	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon5	c.G33311A	p.S11104N	.	.	122	6	125	1	C|0.795;T|0.205	566
MUC16	94025	bcgsc.ca	37	19	9056989	9056989	+	Missense_Mutation	SNP	C	C	G	rs4804381	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon3	c.G30457C	p.E10153Q	.	.	127	7	135	0	C|0.780;G|0.220	566
MUC16	94025	bcgsc.ca	37	19	9057721	9057721	+	Missense_Mutation	SNP	C	C	T	rs2216662	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon3	c.G29725A	p.V9909I	.	.	130	6	138	0	C|0.565;T|0.435	566
MUC16	94025	bcgsc.ca	37	19	9058907	9058907	+	Missense_Mutation	SNP	G	G	C	rs1833777	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon3	c.C28539G	p.H9513Q	.	.	111	8	85	1	G|0.589;C|0.411	566
MUC16	94025	bcgsc.ca	37	19	9058942	9058942	+	Missense_Mutation	SNP	C	C	T	rs1833778	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon3	c.G28504A	p.A9502T	.	.	106	10	94	1	C|0.535;T|0.465	566
MUC16	94025	bcgsc.ca	37	19	9060085	9060085	+	Missense_Mutation	SNP	C	C	T	rs4804382	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon3	c.G27361A	p.A9121T	.	.	147	7	93	0	C|0.786;T|0.214	566
MUC16	94025	bcgsc.ca	37	19	9060541	9060541	+	Missense_Mutation	SNP	C	C	T	rs11882256	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon3	c.G26905A	p.V8969M	.	.	224	8	202	0	C|0.616;T|0.384	566
MUC16	94025	bcgsc.ca	37	19	9060572	9060572	+	Silent	SNP	G	G	A	rs56405542	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon3	c.C26874T	p.G8958G	.	.	228	9	196	1	G|0.788;A|0.212	566
MUC16	94025	bcgsc.ca	37	19	9060656	9060656	+	Silent	SNP	C	C	T	rs2216663	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon3	c.G26790A	p.E8930E	.	.	151	6	136	2	C|0.788;T|0.212	566
MUC16	94025	bcgsc.ca	37	19	9072742	9072742	+	Missense_Mutation	SNP	T	T	C	rs2591590	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon3	c.A14704G	p.I4902V	.	.	247	10	249	3	T|0.787;C|0.213	566
MUC16	94025	bcgsc.ca	37	19	9072875	9072875	+	Silent	SNP	G	G	A	rs73009098	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon3	c.C14571T	p.V4857V	.	.	282	10	283	0	G|0.809;A|0.191	566
MUC16	94025	bcgsc.ca	37	19	9075969	9075969	+	Missense_Mutation	SNP	C	C	T	rs2591593	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon3	c.G11477A	p.G3826E	.	.	120	7	137	1	C|0.750;T|0.250	566
MUC16	94025	bcgsc.ca	37	19	9076728	9076728	+	Missense_Mutation	SNP	C	C	T	rs2591594	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon3	c.G10718A	p.R3573H	.	.	202	10	158	1	C|0.751;T|0.249	566
MUC16	94025	bcgsc.ca	37	19	9077264	9077264	+	Silent	SNP	T	T	G	rs1862461	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon3	c.A10182C	p.V3394V	.	.	130	6	141	0	T|0.748;G|0.252	566
MUC16	94025	bcgsc.ca	37	19	9086318	9086318	+	Missense_Mutation	SNP	G	G	A	rs4520945	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon1	c.C5497T	p.L1833F	.	.	85	6	95	0	G|0.812;A|0.188	566
MUC16	94025	bcgsc.ca	37	19	9088330	9088330	+	Missense_Mutation	SNP	G	G	A	rs17000947	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC16	NM_024690	exon1	c.C3485T	p.T1162I	.	.	140	9	119	0	G|0.811;A|0.189	566
MUC17	140453	bcgsc.ca	37	7	100681359	100681359	+	Missense_Mutation	SNP	C	C	G	rs11979706	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC17	NM_001040105	exon3	c.C6662G	p.P2221R	.	.	65	6	94	0	C|0.384;G|0.616	95
MUC17	140453	ucsc.edu;bcgsc.ca	37	7	100679902	100679902	+	Silent	SNP	A	A	G	rs55974941	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC17	NM_001040105	exon3	c.A5205G	p.E1735E	.	.	87	9	81	0	A|0.600;G|0.400	95
MUC4	4585	bcgsc.ca	37	3	195501162	195501162	+	Missense_Mutation	SNP	G	G	A	rs151016062	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC4	NM_018406	exon4	c.C12958T	p.P4320S	.	.	117	5	97	0	G|0.998;A|0.002	90
MUC4	4585	bcgsc.ca	37	3	195510827	195510827	+	Missense_Mutation	SNP	C	C	T	rs413807		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC4	NM_018406	exon2	c.G7624A	p.A2542T	.	.	186	8	184	0	C|0.500;T|0.500	90
MUC4	4585	bcgsc.ca	37	3	195513345	195513345	+	Silent	SNP	A	A	C	rs71321841	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC4	NM_018406	exon2	c.T5106G	p.V1702V	.	.	231	15	217	1	A|0.500;C|0.500	90
MUC4	4585	broad.mit.edu;bcgsc.ca	37	3	195512343	195512343	+	Silent	SNP	G	G	A	rs113457754		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC4	NM_018406	exon2	c.C6108T	p.T2036T	.	.	36	5	30	0	G|0.500;A|0.500	90
MUC4	4585	ucsc.edu;bcgsc.ca	37	3	195509955	195509955	+	Silent	SNP	A	A	C	rs71635078		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUC4	NM_018406	exon2	c.T8496G	p.S2832S	.	.	131	12	134	0	C|1.000;|0.000	90
MUM1	84939	bcgsc.ca	37	19	1370675	1370675	+	Silent	SNP	C	C	G	rs12608765	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MUM1	NM_032853	exon12	c.C1587G	p.V529V	.	.	167	7	151	1	C|0.666;G|0.334	90
MYCBPAP	84073	bcgsc.ca	37	17	48603503	48603503	+	Missense_Mutation	SNP	C	C	T	rs9890721	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYCBPAP	NM_032133	exon14	c.C2173T	p.R725W	.	.	83	6	83	1	C|0.507;N|0.000	230
MYH13	8735	bcgsc.ca	37	17	10236465	10236465	+	Silent	SNP	G	G	A	rs2240579	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYH13	NM_003802	exon19	c.C2100T	p.N700N	.	.	49	5	51	0	G|0.544;A|0.455	6
MYH3	4621	bcgsc.ca	37	17	10536018	10536018	+	Silent	SNP	G	G	A	rs2285479	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYH3	NM_002470	exon34	c.C4731T	p.I1577I	.	.	87	7	87	0	G|0.468;A|0.532	95
MYH3	4621	bcgsc.ca	37	17	10542471	10542471	+	Silent	SNP	T	T	G	rs2285475	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYH3	NM_002470	exon25	c.A3138C	p.R1046R	.	.	117	5	112	0	T|0.464;G|0.536	95
MYH3	4621	bcgsc.ca	37	17	10542765	10542765	+	Silent	SNP	A	A	G	rs2285474	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYH3	NM_002470	exon24	c.T2952C	p.S984S	.	.	136	8	167	2	G|0.531;N|0.001	95
MYH3	4621	bcgsc.ca	37	17	10543463	10543463	+	Silent	SNP	T	T	C	rs2285469	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYH3	NM_002470	exon22	c.A2532G	p.A844A	.	.	156	7	138	0	T|0.434;C|0.566	95
MYH3	4621	bcgsc.ca	37	17	10544416	10544416	+	Silent	SNP	G	G	T	rs876657	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYH3	NM_002470	exon19	c.C2151A	p.G717G	.	.	265	12	257	0	G|0.466;T|0.534	95
MYH3	4621	ucsc.edu;bcgsc.ca	37	17	10542886	10542886	+	Silent	SNP	T	T	C	rs2285472	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYH3	NM_002470	exon23	c.A2916G	p.T972T	.	.	84	8	80	0	T|0.432;C|0.568	95
MYH6	4624	ucsc.edu;bcgsc.ca	37	14	23876267	23876267	+	Missense_Mutation	SNP	C	C	T	rs28711516	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYH6	NM_002471	exon3	c.G166A	p.G56R	.	.	48	6	69	0	C|0.924;T|0.076	94
MYH8	4626	bcgsc.ca	37	17	10296486	10296486	+	Silent	SNP	G	G	A	rs33969260	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYH8	NM_002472	exon36	c.C5208T	p.D1736D	.	.	142	11	144	0	G|0.826;A|0.174	101
MYH8	4626	ucsc.edu;bcgsc.ca	37	17	10304261	10304261	+	Silent	SNP	G	G	A	rs3744552	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYH8	NM_002472	exon26	c.C3270T	p.I1090I	.	.	69	8	53	0	G|0.433;A|0.567	101
MYO18B	84700	bcgsc.ca	37	22	26304363	26304363	+	Silent	SNP	G	G	A	rs58609797	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYO18B	NM_032608	exon32	c.G5223A	p.E1741E	.	.	54	5	67	0	G|0.952;A|0.048	142
MYO1G	64005	bcgsc.ca	37	7	45015107	45015107	+	Silent	SNP	G	G	A	rs61738857	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYO1G	NM_033054	exon4	c.C540T	p.H180H	.	.	118	7	86	0	G|0.831;A|0.169	137
MYO3A	53904	bcgsc.ca	37	10	26434455	26434455	+	Missense_Mutation	SNP	G	G	T	rs33947968	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYO3A	NM_017433	exon22	c.G2497T	p.A833S	.	.	314	9	294	0	G|0.941;T|0.059	1007
MYO5C	55930	bcgsc.ca	37	15	52527951	52527951	+	Missense_Mutation	SNP	T	T	C	rs55753304	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYO5C	NM_018728	exon23	c.A2878G	p.K960E	.	.	81	6	92	0	T|0.980;C|0.020	145
MYOM2	9172	ucsc.edu;bcgsc.ca	37	8	2021421	2021421	+	Missense_Mutation	SNP	G	G	T	rs2272720	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYOM2	NM_003970	exon10	c.G961T	p.V321L	.	.	42	5	75	0	G|0.687;T|0.313	95
MYOM3	127294	bcgsc.ca	37	1	24406647	24406647	+	Silent	SNP	G	G	A	rs4649175	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYOM3	NM_152372	exon20	c.C2445T	p.A815A	.	.	110	5	94	0	G|0.639;A|0.361	93
MYOM3	127294	bcgsc.ca	37	1	24421950	24421950	+	Missense_Mutation	SNP	C	C	G	rs4319261	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYOM3	NM_152372	exon8	c.G772C	p.D258H	.	.	122	6	141	1	C|0.542;G|0.458	93
MYOM3	127294	ucsc.edu;bcgsc.ca	37	1	24409191	24409191	+	Missense_Mutation	SNP	C	C	T	rs4320729	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYOM3	NM_152372	exon17	c.G1984A	p.G662R	.	.	44	5	53	0	C|0.679;T|0.321	93
MYOM3	127294	ucsc.edu;bcgsc.ca	37	1	24416070	24416070	+	Silent	SNP	G	G	C	rs7533060	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYOM3	NM_152372	exon14	c.C1572G	p.P524P	.	.	73	7	71	0	G|0.447;C|0.553	93
MYRIP	25924	bcgsc.ca	37	3	40251392	40251392	+	Silent	SNP	T	T	C	rs1799418	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYRIP	NM_015460	exon11	c.T1713C	p.D571D	.	.	153	10	191	0	C|0.439;N|0.001	94
MYT1	4661	bcgsc.ca	37	20	62850358	62850358	+	Silent	SNP	C	C	T	rs41279348	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	MYT1	NM_004535	exon12	c.C1941T	p.L647L	.	.	62	5	58	0	C|0.907;T|0.093	704
NAA50	80218	bcgsc.ca	37	3	113441818	113441818	+	Silent	SNP	T	T	C	rs34588634	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NAA50	NM_025146	exon4	c.A267G	p.G89G	.	.	724	25	766	0	T|0.983;C|0.017	90
NAAA	27163	bcgsc.ca	37	4	76857309	76857309	+	Missense_Mutation	SNP	C	C	T	rs4859571	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NAAA	NM_014435	exon3	c.G451A	p.V151I	.	.	100	7	118	0	C|0.772;N|0.000	91
NAAA	27163	bcgsc.ca	37	4	76857388	76857388	+	Silent	SNP	C	C	T	rs4859572	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NAAA	NM_014435	exon3	c.G372A	p.V124V	.	.	96	7	88	0	C|0.772;T|0.228	91
NACA2	342538	bcgsc.ca	37	17	59668352	59668352	+	Missense_Mutation	SNP	C	C	T	rs17531723	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NACA2	NM_199290	exon1	c.G190A	p.V64I	.	.	143	6	129	1	C|0.884;T|0.116	91
NAT2	10	ucsc.edu;bcgsc.ca	37	8	18258103	18258103	+	Missense_Mutation	SNP	G	G	A	rs1799930	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NAT2	NM_000015	exon2	c.G590A	p.R197Q	.	.	58	7	85	0	G|0.742;A|0.257	516
NAT2	10	ucsc.edu;bcgsc.ca;mdanderson.org	37	8	18258316	18258316	+	Missense_Mutation	SNP	G	G	A	rs1208	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NAT2	NM_000015	exon2	c.G803A	p.R268K	.	.	55	10	74	0	G|0.370;A|0.630	516
NAV2	89797	bcgsc.ca	37	11	20065673	20065673	+	Missense_Mutation	SNP	G	G	T	rs3802799	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NAV2	NM_001244963	exon14	c.G3123T	p.E1041D	.	.	105	7	84	0	G|0.806;T|0.194	96
NBEA	26960	bcgsc.ca	37	13	36229873	36229873	+	Silent	SNP	C	C	T	rs2274550	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NBEA	NM_015678	exon54	c.C8286T	p.D2762D	.	.	104	6	120	1	C|0.889;T|0.111	144
NBN	4683	bcgsc.ca	37	8	90990479	90990479	+	Missense_Mutation	SNP	C	C	G	rs1805794	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NBN	NM_002485	exon5	c.G553C	p.E185Q	.	.	204	8	227	1	C|0.681;G|0.319	1395
NBN	4683	bcgsc.ca	37	8	90995019	90995019	+	Silent	SNP	C	C	T	rs1063045	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NBN	NM_002485	exon2	c.G102A	p.L34L	.	.	120	7	74	1	C|0.663;T|0.337	1395
NCS1	23413	ucsc.edu;bcgsc.ca	37	9	132988709	132988709	+	Silent	SNP	T	T	G	rs2277200	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NCS1	NM_014286	exon7	c.T516G	p.G172G	.	.	55	6	43	1	T|0.646;G|0.354	90
NDST3	9348	bcgsc.ca	37	4	118975146	118975146	+	Silent	SNP	C	C	T	rs13152576	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NDST3	NM_004784	exon2	c.C81T	p.I27I	.	.	104	9	99	0	C|0.816;T|0.184	153
NEB	4703	bcgsc.ca	37	2	152422087	152422087	+	Silent	SNP	A	A	G	rs2288211	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NEB	NM_001271208	exon116	c.T18294C	p.Y6098Y	.	.	177	8	199	0	A|0.732;G|0.268	145
NEK1	4750	bcgsc.ca	37	4	170398454	170398454	+	Missense_Mutation	SNP	T	T	C	rs34099167	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NEK1	NM_001199397	exon26	c.A2255G	p.E752G	.	.	260	9	217	0	T|0.885;C|0.115	361
NEK2	4751	bcgsc.ca	37	1	211836789	211836789	+	Silent	SNP	T	T	C	rs12031285	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NEK2	NM_002497	exon8	c.A1317G	p.R439R	.	.	209	8	134	0	T|0.733;C|0.267	765
NEK2	4751	bcgsc.ca	37	1	211846876	211846876	+	Silent	SNP	A	A	G	rs701929	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NEK2	NM_002497	exon3	c.T504C	p.H168H	.	.	262	9	215	0	A|0.463;G|0.537	765
NEK5	341676	bcgsc.ca	37	13	52667228	52667228	+	Silent	SNP	G	G	A	rs55715265	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NEK5	NM_199289	exon13	c.C1170T	p.Y390Y	.	.	199	9	186	0	G|0.967;A|0.033	334
NFU1	27247	bcgsc.ca	37	2	69659126	69659126	+	Missense_Mutation	SNP	A	A	T	rs4453725	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NFU1	NM_001002755	exon2	c.T74A	p.M25K	.	.	162	13	142	0	A|0.540;T|0.460	90
NID2	22795	bcgsc.ca	37	14	52507491	52507491	+	Missense_Mutation	SNP	C	C	A	rs117965887	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NID2	NM_007361	exon8	c.G1904T	p.G635V	.	.	145	7	158	1	C|0.998;A|0.002	158
NID2	22795	bcgsc.ca	37	14	52520746	52520746	+	Missense_Mutation	SNP	G	G	T	rs35657569	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NID2	NM_007361	exon4	c.C1061A	p.P354H	.	.	102	7	101	0	G|0.939;T|0.061	158
NKX2-3	159296	hgsc.bcm.edu	37	10	101295226	101295226	+	Silent	SNP	C	C	A	rs10082511		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NKX2-3	NM_145285	exon2	c.C843A	p.A281A	.	.	26	4	6	0	.	91
NLGN1	22871	bcgsc.ca	37	3	173998955	173998955	+	Silent	SNP	C	C	T	rs16858840	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NLGN1	NM_014932	exon7	c.C2334T	p.P778P	.	.	90	5	73	0	C|0.977;T|0.023	231
NLRC5	84166	bcgsc.ca	37	16	57059427	57059427	+	Missense_Mutation	SNP	C	C	T	rs74439742	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NLRC5	NM_032206	exon5	c.C572T	p.P191L	.	.	77	5	81	0	C|0.861;T|0.139	159
NLRP14	338323	bcgsc.ca	37	11	7091569	7091569	+	Missense_Mutation	SNP	C	C	T	rs17280682	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NLRP14	NM_176822	exon11	c.C3028T	p.L1010F	.	.	106	5	121	1	C|0.850;T|0.150	295
NLRP2	55655	bcgsc.ca	37	19	55494651	55494651	+	Missense_Mutation	SNP	A	A	G	rs34804158	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NLRP2	NM_017852	exon6	c.A1585G	p.T529A	.	.	105	6	104	2	A|0.808;G|0.192	120
NLRP2	55655	bcgsc.ca	37	19	55494740	55494740	+	Silent	SNP	T	T	C	rs10412915	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NLRP2	NM_017852	exon6	c.T1674C	p.F558F	.	.	114	6	88	1	T|0.710;C|0.290	120
NLRP8	126205	bcgsc.ca	37	19	56465982	56465982	+	Silent	SNP	G	G	A	rs149337413	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NLRP8	NM_176811	exon3	c.G558A	p.E186E	.	.	173	6	198	0	G|0.998;A|0.002	361
NLRP9	338321	bcgsc.ca	37	19	56249672	56249672	+	Silent	SNP	A	A	G	rs56211941	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NLRP9	NM_176820	exon1	c.T69C	p.F23F	.	.	124	6	109	1	A|0.852;G|0.148	294
NME8	51314	bcgsc.ca	37	7	37890267	37890267	+	Missense_Mutation	SNP	G	G	A	rs2722372	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_016616	exon5	c.G128A	p.R43K	.	.	122	6	110	0	G|0.715;A|0.285	.
NME8	51314	ucsc.edu;bcgsc.ca	37	7	37896896	37896896	+	Silent	SNP	G	G	A	rs3213976	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_016616	exon6	c.G219A	p.V73V	.	.	124	15	137	0	G|0.912;A|0.088	.
NMI	9111	bcgsc.ca	37	2	152138522	152138522	+	Silent	SNP	T	T	C	rs3771886	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NMI	NM_004688	exon3	c.A117G	p.Q39Q	.	.	351	14	327	0	T|0.430;C|0.570	90
NMU	10874	bcgsc.ca	37	4	56475338	56475338	+	Silent	SNP	G	G	A	rs3805383	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NMU	NM_006681	exon4	c.C228T	p.N76N	.	.	143	8	145	0	G|0.795;A|0.205	650
NMUR2	56923	bcgsc.ca	37	5	151771852	151771852	+	Missense_Mutation	SNP	G	G	A	rs4958532	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NMUR2	NM_020167	exon4	c.C1148T	p.P383L	.	.	174	6	154	0	G|0.874;A|0.126	526
NNT	23530	bcgsc.ca	37	5	43609343	43609343	+	Silent	SNP	C	C	T	rs10057103	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NNT	NM_182977	exon2	c.C46T	p.L16L	.	.	229	9	236	0	C|0.373;T|0.627	92
NOMO1	23420	bcgsc.ca	37	16	14969016	14969016	+	Missense_Mutation	SNP	T	T	A	rs79100490		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NOMO1	NM_014287	exon19	c.T2178A	p.N726K	.	.	565	30	555	1	.	45
NOMO1	23420	bcgsc.ca	37	16	14972670	14972670	+	Silent	SNP	C	C	A	rs393246	bycluster	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NOMO1	NM_014287	exon23	c.C2736A	p.G912G	.	.	1248	44	1140	4	.	45
NOP56	10528	bcgsc.ca	37	20	2633936	2633936	+	Silent	SNP	T	T	C	rs2073194	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NOP56	NM_006392	exon3	c.T105C	p.S35S	.	.	127	8	119	0	T|0.123;G|0.228;C|0.609;A|0.040	92
NOSTRIN	115677	bcgsc.ca	37	2	169681151	169681151	+	Silent	SNP	C	C	T	rs3732031	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NOSTRIN	NM_001039724	exon3	c.C121T	p.L41L	.	.	604	18	548	0	C|0.900;T|0.100	90
NOTCH2	4853	bcgsc.ca	37	1	120548095	120548095	+	Missense_Mutation	SNP	C	C	A	rs143195893	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NOTCH2	NM_001200001	exon3	c.G272T	p.R91L	.	.	322	8	331	3	C|0.992;A|0.008	1441
NOVA2	4858	bcgsc.ca	37	19	46443739	46443739	+	Silent	SNP	T	T	G	rs28742045	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NOVA2	NM_002516	exon4	c.A861C	p.A287A	.	.	80	5	73	0	T|0.280;G|0.720	226
NPAS2	4862	ucsc.edu	37	2	101591304	101591304	+	Missense_Mutation	SNP	A	A	G	rs2305160	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NPAS2	NM_002518	exon13	c.A1180G	p.T394A	.	.	67	6	61	0	A|0.235;G|0.765	94
NPAS3	64067	bcgsc.ca	37	14	34269167	34269167	+	Missense_Mutation	SNP	G	G	C	rs12434716	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NPAS3	NM_001164749	exon12	c.G1654C	p.A552P	.	.	44	4	41	1	G|0.846;C|0.154	93
NPHP4	261734	bcgsc.ca	37	1	5927169	5927169	+	Missense_Mutation	SNP	G	G	A	rs113445782	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NPHP4	NM_015102	exon25	c.C3479T	p.P1160L	.	.	82	5	55	0	G|0.992;A|0.008	515
NR1H2	7376	ucsc.edu	37	19	50881825	50881825	+	Silent	SNP	G	G	A	rs55817866	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NR1H2	NM_007121	exon6	c.G519A	p.Q173Q	.	.	83	7	65	0	G|0.903;A|0.097	186
NSUN4	387338	bcgsc.ca	37	1	46806550	46806550	+	Missense_Mutation	SNP	C	C	T	rs41293277	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NSUN4	NM_199044	exon1	c.C52T	p.L18F	.	.	126	7	118	1	C|0.790;T|0.210	90
NUF2	83540	bcgsc.ca	37	1	163309219	163309219	+	Silent	SNP	A	A	T	rs1509022	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NUF2	NM_145697	exon8	c.A558T	p.G186G	.	.	149	10	99	0	A|0.599;T|0.401	231
NUP133	55746	bcgsc.ca	37	1	229622162	229622162	+	Silent	SNP	A	A	G	rs1065675	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NUP133	NM_018230	exon11	c.T1456C	p.L486L	.	.	227	9	199	0	A|0.689;G|0.311	271
NUP155	9631	bcgsc.ca	37	5	37333727	37333727	+	Silent	SNP	A	A	G	rs150594	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NUP155	NM_153485	exon13	c.T1356C	p.A452A	.	.	72	5	113	0	A|0.658;G|0.342	205
NUPL1	9818	bcgsc.ca	37	13	25887811	25887811	+	Missense_Mutation	SNP	T	T	C	rs12871608	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	NUPL1	NM_014089	exon5	c.T496C	p.S166P	.	.	263	9	261	2	T|0.971;C|0.029	205
OAT	4942	bcgsc.ca	37	10	126089434	126089434	+	Silent	SNP	G	G	A	rs11461	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OAT	NM_000274	exon9	c.C1134T	p.N378N	.	.	258	12	259	0	G|0.648;A|0.352	68
OBP2A	29991	bcgsc.ca	37	9	138440554	138440554	+	Missense_Mutation	SNP	G	G	C	rs55695858	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OBP2A	NM_014582	exon5	c.G389C	p.G130A	.	.	115	5	130	0	G|0.790;C|0.210	68
OBSCN	84033	bcgsc.ca	37	1	228465561	228465561	+	Splice_Site	SNP	T	T	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OBSCN	NM_001098623	exon25	c.6859+2T>A	.	.	.	246	13	149	1	.	403
OBSCN	84033	bcgsc.ca	37	1	228559994	228559994	+	Missense_Mutation	SNP	C	C	T	rs500049	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OBSCN	NM_001271223	exon105	c.C24386T	p.A8129V	.	.	176	11	88	0	T|0.104;G|0.374	403
OBSL1	23363	bcgsc.ca	37	2	220421417	220421417	+	Missense_Mutation	SNP	C	C	G	rs1983210	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OBSL1	NM_001173431	exon13	c.G4095C	p.E1365D	.	.	146	8	154	0	C|0.289;G|0.711	71
OCIAD2	132299	bcgsc.ca;mdanderson.org	37	4	48894851	48894851	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OCIAD2	NM_001014446	exon6	c.G321C	p.Q107H	.	.	355	19	404	0	.	68
ODF2L	57489	bcgsc.ca	37	1	86852621	86852621	+	Silent	SNP	A	A	G	rs2390096	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ODF2L	NM_001184766	exon2	c.T90C	p.C30C	.	.	92	7	90	0	A|0.692;G|0.308	69
OLFM2	93145	bcgsc.ca	37	19	9964946	9964946	+	Silent	SNP	G	G	A	rs11556088	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OLFM2	NM_058164	exon6	c.C1281T	p.R427R	.	.	124	6	116	0	G|0.905;A|0.095	132
OPN1SW	611	bcgsc.ca	37	7	128415195	128415195	+	Silent	SNP	T	T	G	rs1799922	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OPN1SW	NM_001708	exon2	c.A366C	p.G122G	.	.	52	4	68	0	T|0.710;G|0.290	68
OPRM1	4988	broad.mit.edu;ucsc.edu	37	6	154428666	154428666	+	Nonsense_Mutation	SNP	C	C	T	rs677830	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OPRM1	NM_001145286	exon4	c.C1231T	p.Q411X	.	.	63	7	98	1	C|0.836;T|0.164	69
OR10A6	390093	bcgsc.ca	37	11	7949707	7949707	+	Missense_Mutation	SNP	A	A	G	rs111488559	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR10A6	NM_001004461	exon1	c.T503C	p.F168S	.	.	332	9	351	1	A|0.976;G|0.024	70
OR10A6	390093	bcgsc.ca	37	11	7949791	7949791	+	Missense_Mutation	SNP	A	A	C	rs7933807	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR10A6	NM_001004461	exon1	c.T419G	p.V140G	.	.	280	19	308	2	A|0.600;C|0.400	70
OR10A6	390093	bcgsc.ca	37	11	7949860	7949860	+	Missense_Mutation	SNP	G	G	A	rs7928451	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR10A6	NM_001004461	exon1	c.C350T	p.A117V	.	.	260	20	295	2	G|0.621;A|0.379	70
OR10AG1	282770	bcgsc.ca	37	11	55735681	55735681	+	Missense_Mutation	SNP	C	C	G	rs151187533	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR10AG1	NM_001005491	exon1	c.G259C	p.A87P	.	.	257	13	247	1	C|0.999;G|0.001	70
OR10G3	26533	bcgsc.ca	37	14	22038210	22038210	+	Silent	SNP	G	G	T	rs17792766	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR10G3	NM_001005465	exon1	c.C666A	p.I222I	.	.	141	8	147	1	G|0.868;T|0.132	68
OR10G4	390264	bcgsc.ca	37	11	123886681	123886681	+	Missense_Mutation	SNP	A	A	G	rs1893766	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR10G4	NM_001004462	exon1	c.A400G	p.M134V	.	.	533	26	377	3	A|0.567;G|0.433	93
OR10G4	390264	bcgsc.ca	37	11	123886865	123886865	+	Missense_Mutation	SNP	T	T	A	rs55884373		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR10G4	NM_001004462	exon1	c.T584A	p.V195E	.	.	244	9	211	0	.	93
OR10G4	390264	bcgsc.ca	37	11	123886984	123886984	+	Missense_Mutation	SNP	A	A	G	rs4936880	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR10G4	NM_001004462	exon1	c.A703G	p.R235G	.	.	156	9	129	0	A|0.538;G|0.462	93
OR10J1	26476	bcgsc.ca	37	1	159409884	159409884	+	Missense_Mutation	SNP	G	G	A	rs12118628	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR10J1	NM_012351	exon1	c.G336A	p.M112I	.	.	132	7	121	0	G|0.887;A|0.113	69
OR10Z1	128368	bcgsc.ca	37	1	158577167	158577167	+	Silent	SNP	A	A	T	rs2427808	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR10Z1	NM_001004478	exon1	c.A939T	p.G313G	.	.	102	5	78	1	A|0.898;T|0.102	70
OR13G1	441933	bcgsc.ca	37	1	247835674	247835674	+	Missense_Mutation	SNP	G	G	A	rs28446289	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR13G1	NM_001005487	exon1	c.C670T	p.R224C	.	.	199	7	166	1	G|0.665;A|0.335	69
OR13G1	441933	bcgsc.ca	37	1	247836008	247836008	+	Silent	SNP	G	G	A	rs28555391	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR13G1	NM_001005487	exon1	c.C336T	p.F112F	.	.	159	10	120	0	G|0.664;A|0.336	69
OR1A2	26189	bcgsc.ca	37	17	3101578	3101578	+	Missense_Mutation	SNP	G	G	T	rs2241091	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR1A2	NM_012352	exon1	c.G766T	p.G256C	.	.	143	6	142	0	G|0.704;T|0.295	70
OR1I1	126370	bcgsc.ca	37	19	15198720	15198720	+	Missense_Mutation	SNP	A	A	T	rs75323205	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR1I1	NM_001004713	exon1	c.A844T	p.I282F	.	.	63	5	66	0	A|0.978;T|0.022	71
OR1I1	126370	ucsc.edu;bcgsc.ca	37	19	15198363	15198363	+	Missense_Mutation	SNP	A	A	C	rs76524797	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR1I1	NM_001004713	exon1	c.A487C	p.M163L	.	.	55	6	40	0	A|0.978;C|0.022	71
OR2F1	26211	bcgsc.ca	37	7	143657801	143657801	+	Silent	SNP	A	A	G	rs2072166	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR2F1	NM_012369	exon1	c.A738G	p.T246T	.	.	114	8	116	0	A|0.568;G|0.432	71
OR2T29	343563	bcgsc.ca	37	1	248722777	248722777	+	Missense_Mutation	SNP	T	T	A	rs77589892	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001004694	exon1	c.A16T	p.R6W	.	.	449	14	367	0	T|0.770;A|0.230	.
OR2W1	26692	bcgsc.ca	37	6	29012067	29012067	+	Missense_Mutation	SNP	C	C	T	rs35771565	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR2W1	NM_030903	exon1	c.G886A	p.D296N	.	.	286	16	219	0	C|0.806;T|0.194	93
OR2W1	26692	bcgsc.ca	37	6	29012116	29012116	+	Silent	SNP	G	G	A	rs7341218	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR2W1	NM_030903	exon1	c.C837T	p.T279T	.	.	307	14	242	1	G|0.748;A|0.252	93
OR4C15	81309	bcgsc.ca	37	11	55322539	55322539	+	Missense_Mutation	SNP	G	G	A	rs12790125	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	OR4C15,arm,malignant_melanoma,-2	OR4C15	NM_001001920	exon1	c.G757A	p.V253I	.	.	135	8	129	1	G|0.819;A|0.181	70
OR4C16	219428	ucsc.edu;bcgsc.ca	37	11	55339702	55339702	+	Silent	SNP	C	C	T	rs34100491	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR4C16	NM_001004701	exon1	c.C99T	p.Y33Y	.	.	145	17	137	1	C|0.816;T|0.184	70
OR4C16	219428	ucsc.edu;bcgsc.ca;mdanderson.org	37	11	55339676	55339676	+	Missense_Mutation	SNP	G	G	T	rs12800642	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR4C16	NM_001004701	exon1	c.G73T	p.V25L	.	.	131	19	151	1	G|0.817;T|0.183	70
OR4K1	79544	bcgsc.ca	37	14	20404091	20404091	+	Missense_Mutation	SNP	G	G	A	rs12885778	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR4K1	NM_001004063	exon1	c.G266A	p.R89H	.	.	253	10	234	1	G|0.686;A|0.314	71
OR51D1	390038	bcgsc.ca	37	11	4661285	4661285	+	Missense_Mutation	SNP	A	A	G	rs905871	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR51D1	NM_001004751	exon1	c.A265G	p.I89V	.	.	85	6	81	0	A|0.794;G|0.206	68
OR51S1	119692	bcgsc.ca	37	11	4870269	4870269	+	Missense_Mutation	SNP	A	A	T	rs12417164	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR51S1	NM_001004758	exon1	c.T170A	p.I57N	.	.	142	6	120	0	A|0.842;T|0.158	72
OR52M1	119772	bcgsc.ca	37	11	4567140	4567140	+	Silent	SNP	C	C	A	rs61734243	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR52M1	NM_001004137	exon1	c.C720A	p.T240T	.	.	77	6	101	0	C|0.992;A|0.008	68
OR5AU1	390445	bcgsc.ca	37	14	21623290	21623290	+	Missense_Mutation	SNP	T	T	C	rs7145814	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR5AU1	NM_001004731	exon1	c.A895G	p.I299V	.	.	157	11	137	1	T|0.240;C|0.760	68
OR5F1	338674	bcgsc.ca	37	11	55762060	55762060	+	Silent	SNP	T	T	C	rs71490418	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR5F1	NM_003697	exon1	c.A42G	p.L14L	.	.	183	13	190	1	T|0.844;C|0.156	70
OR5M10	390167	bcgsc.ca	37	11	56344260	56344260	+	Missense_Mutation	SNP	A	A	G	rs10896488	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001004741	exon1	c.T938C	p.I313T	.	.	182	9	185	0	A|0.849;G|0.151	.
OR5M3	219482	bcgsc.ca	37	11	56237722	56237722	+	Missense_Mutation	SNP	T	T	A	rs605734	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR5M3	NM_001004742	exon1	c.A252T	p.L84F	.	.	263	14	266	4	T|0.641;A|0.359	70
OR5R1	219479	bcgsc.ca	37	11	56185159	56185159	+	Missense_Mutation	SNP	A	A	G	rs7930678	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR5R1	NM_001004744	exon1	c.T550C	p.F184L	.	.	158	8	180	0	A|0.676;G|0.324	70
OR5W2	390148	bcgsc.ca	37	11	55681336	55681336	+	Silent	SNP	G	G	A	rs11231529	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR5W2	NM_001001960	exon1	c.C723T	p.C241C	.	.	208	17	199	0	G|0.677;A|0.323	70
OR6B3	150681	bcgsc.ca	37	2	240984833	240984833	+	Silent	SNP	C	C	G	rs13389099	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR6B3	NM_173351	exon1	c.G657C	p.A219A	.	.	343	11	324	1	C|0.751;G|0.249	68
OR6N2	81442	hgsc.bcm.edu;bcgsc.ca	37	1	158747099	158747099	+	Silent	SNP	C	C	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR6N2	NM_001005278	exon1	c.G327T	p.A109A	.	.	341	14	210	0	.	68
OR7A10	390892	bcgsc.ca	37	19	14952017	14952017	+	Missense_Mutation	SNP	T	T	A	rs11880955	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR7A10	NM_001005190	exon1	c.A673T	p.I225L	.	.	92	7	92	0	T|0.831;A|0.169	68
OR7A10	390892	bcgsc.ca	37	19	14952238	14952238	+	Missense_Mutation	SNP	A	A	G	rs12972670	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR7A10	NM_001005190	exon1	c.T452C	p.M151T	.	.	185	16	183	0	A|0.860;G|0.140	68
OR7G2	390882	bcgsc.ca	37	19	9213132	9213132	+	Missense_Mutation	SNP	A	A	G	rs12610094	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR7G2	NM_001005193	exon1	c.T851C	p.V284A	.	.	187	8	165	1	A|0.620;G|0.380	69
OR7G3	390883	bcgsc.ca	37	19	9236886	9236886	+	Silent	SNP	A	A	G	rs10424352	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR7G3	NM_001001958	exon1	c.T741C	p.V247V	.	.	145	6	136	0	A|0.585;G|0.415	69
OR8D4	338662	bcgsc.ca	37	11	123777536	123777536	+	Missense_Mutation	SNP	G	G	A	rs7926767	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR8D4	NM_001005197	exon1	c.G398A	p.R133K	.	.	124	6	84	0	G|0.312;A|0.688	69
OR8J1	219477	bcgsc.ca	37	11	56128081	56128081	+	Missense_Mutation	SNP	A	A	G	rs10896290	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR8J1	NM_001005205	exon1	c.A359G	p.Y120C	.	.	152	9	174	0	A|0.712;G|0.288	70
OR9G4	283189	bcgsc.ca	37	11	56510623	56510623	+	Missense_Mutation	SNP	A	A	G	rs513873	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR9G4	NM_001005284	exon1	c.T665C	p.V222A	.	.	138	6	144	0	A|0.748;G|0.252	71
OR9K2	441639	ucsc.edu;bcgsc.ca	37	12	55523685	55523685	+	Missense_Mutation	SNP	C	C	T	rs12303066	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR9K2	NM_001005243	exon1	c.C133T	p.R45C	.	.	80	9	77	0	C|0.679;T|0.321	69
OR9K2	441639	ucsc.edu;bcgsc.ca	37	12	55523860	55523860	+	Missense_Mutation	SNP	A	A	C	rs7305779	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OR9K2	NM_001005243	exon1	c.A308C	p.E103A	.	.	36	4	43	0	A|0.678;C|0.322	69
OSMR	9180	bcgsc.ca	37	5	38921864	38921864	+	Missense_Mutation	SNP	G	G	A	rs144394280	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OSMR	NM_003999	exon12	c.G1733A	p.G578D	.	.	179	10	208	0	G|0.982;A|0.018	496
OTC	5009	bcgsc.ca	37	X	38226603	38226603	+	Missense_Mutation	SNP	A	A	G	rs1800321	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OTC	NM_000531	exon2	c.A137G	p.K46R	.	.	296	17	288	0	A|0.721;0|0.027	172
OTOA	146183	bcgsc.ca	37	16	21726409	21726409	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OTOA	NM_144672	exon13	c.G1424A	p.R475K	.	.	88	5	82	0	.	92
OTOR	56914	bcgsc.ca	37	20	16729048	16729048	+	Missense_Mutation	SNP	T	T	C	rs17686437	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OTOR	NM_020157	exon1	c.T2C	p.M1T	.	.	116	5	119	0	T|0.968;C|0.032	206
OTUD6B	51633	bcgsc.ca	37	8	92083424	92083424	+	Silent	SNP	A	A	G	rs11557571	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OTUD6B	NM_016023	exon2	c.A231G	p.Q77Q	.	.	217	11	183	0	A|0.518;G|0.482	433
OVCH1	341350	bcgsc.ca	37	12	29628016	29628016	+	Silent	SNP	G	G	A	rs2043623	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OVCH1	NM_183378	exon14	c.C1578T	p.A526A	.	.	362	10	407	1	G|0.461;A|0.539	210
OVCH1	341350	bcgsc.ca	37	12	29642573	29642573	+	Missense_Mutation	SNP	A	A	C	rs967181	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OVCH1	NM_183378	exon6	c.T682G	p.W228G	.	.	103	5	94	1	A|0.579;C|0.420	210
OXR1	55074	bcgsc.ca	37	8	107754473	107754473	+	Silent	SNP	G	G	A	rs1681904	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	OXR1	NM_001198532	exon14	c.G2343A	p.E781E	.	.	267	19	222	1	G|0.627;A|0.373	68
P2RX2	22953	bcgsc.ca	37	12	133196037	133196037	+	Missense_Mutation	SNP	C	C	T	rs75585377	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	P2RX2	NM_012226	exon2	c.C118T	p.R40C	.	.	116	7	122	0	C|0.988;T|0.012	68
P2RX3	5024	bcgsc.ca	37	11	57137424	57137424	+	Missense_Mutation	SNP	C	C	T	rs2276038	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	P2RX3	NM_002559	exon12	c.C1148T	p.A383V	.	.	120	5	125	0	C|0.650;T|0.349	68
P2RY13	53829	bcgsc.ca	37	3	151046604	151046604	+	Silent	SNP	G	G	T	rs3732757	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	P2RY13	NM_176894	exon2	c.C240A	p.I80I	.	.	163	6	169	0	G|0.951;T|0.049	503
PAK2	5062	bcgsc.ca	37	3	196534706	196534706	+	Silent	SNP	T	T	C	rs144954628	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PAK2	NM_002577	exon7	c.T630C	p.H210H	.	.	262	10	222	0	T|0.990;C|0.010	957
PAK2	5062	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	196541330	196541330	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PAK2	NM_002577	exon11	c.T944C	p.V315A	.	.	112	39	137	0	.	957
PALLD	23022	bcgsc.ca	37	4	169846390	169846390	+	Missense_Mutation	SNP	G	G	A	rs184419827		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PALLD	NM_001166108	exon21	c.G3365A	p.R1122Q	.	.	279	8	261	1	G|0.999;A|0.000	94
PARD3B	117583	ucsc.edu	37	2	205990353	205990353	+	Silent	SNP	C	C	T	rs2276676	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PARD3B	NM_205863	exon10	c.C1326T	p.T442T	.	.	87	10	105	2	C|0.706;T|0.294	140
PARP14	54625	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	122419048	122419048	+	Silent	SNP	A	A	G	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PARP14	NM_017554	exon6	c.A1647G	p.V549V	.	.	121	27	143	0	.	525
PBLD	64081	bcgsc.ca	37	10	70044031	70044031	+	Missense_Mutation	SNP	T	T	C	rs4142048	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PBLD	NM_022129	exon10	c.A770G	p.H257R	.	.	116	8	110	0	T|0.753;C|0.247	93
PBXIP1	57326	bcgsc.ca	37	1	154918352	154918352	+	Silent	SNP	G	G	A	rs41264253	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PBXIP1	NM_020524	exon10	c.C1798T	p.L600L	.	.	73	6	73	0	G|0.937;A|0.063	153
PCDH15	65217	bcgsc.ca	37	10	55566406	55566406	+	Missense_Mutation	SNP	T	T	G	rs17704703	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PCDH15	.	.	.	.	.	.	198	9	191	1	T|0.867;G|0.133	193
PCDH15	65217	bcgsc.ca	37	10	55582905	55582905	+	Silent	SNP	G	G	T	rs10825114	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PCDH15	NM_001142763	exon35	c.C4602A	p.P1534P	.	.	133	8	148	0	G|0.809;T|0.191	193
PCDH15	65217	bcgsc.ca	37	10	55955485	55955485	+	Silent	SNP	A	A	G	rs7921598	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PCDH15	NM_001142763	exon12	c.T1278C	p.T426T	.	.	209	11	201	0	A|0.756;G|0.244	193
PCDHAC2	56134	bcgsc.ca	37	5	140346712	140346712	+	Silent	SNP	T	T	C	rs155808	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PCDHAC2	NM_031883	exon1	c.T361C	p.L121L	.	.	92	7	95	0	T|0.675;C|0.325	26
PCDHGA4	56111	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	140735702	140735702	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_018917	exon1	c.C935A	p.S312Y	.	.	138	41	127	0	.	.
PCDHGA8	9708	bcgsc.ca	37	5	140773388	140773388	+	Silent	SNP	G	G	T	rs2240700	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_014004	exon1	c.G1008T	p.S336S	.	.	309	13	333	1	G|0.806;T|0.194	.
PCDHGA9	56107	bcgsc.ca	37	5	140783596	140783596	+	Silent	SNP	C	C	T	rs1363448	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_032089	exon1	c.C1077T	p.D359D	.	.	210	7	207	0	C|0.540;T|0.460	.
PCDHGB6	56100	bcgsc.ca	37	5	140788264	140788264	+	Silent	SNP	C	C	T	rs58047392	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_032100	exon1	c.C495T	p.N165N	.	.	208	8	192	2	C|0.825;T|0.175	.
PCK1	5105	bcgsc.ca	37	20	56137184	56137184	+	Silent	SNP	C	C	T	rs6070157	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PCK1	NM_002591	exon3	c.C282T	p.I94I	.	.	75	5	55	1	C|0.851;T|0.149	227
PCLO	27445	bcgsc.ca	37	7	82544987	82544987	+	Silent	SNP	A	A	G	rs17156844	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PCLO	NM_014510	exon7	c.T12315C	p.H4105H	.	.	168	7	188	1	A|0.590;G|0.409	29
PCLO	27445	bcgsc.ca	37	7	82581859	82581859	+	Missense_Mutation	SNP	C	C	T	rs976714	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	Q9Y6V0-3,NS,carcinoma,+1	PCLO	NM_014510	exon5	c.G8410A	p.A2804T	.	.	188	7	182	1	C|0.673;T|0.327	29
PCLO	27445	bcgsc.ca	37	7	82784832	82784832	+	Missense_Mutation	SNP	C	C	G	rs77721383	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PCLO	NM_014510	exon2	c.G1125C	p.Q375H	.	.	115	6	117	0	C|0.913;G|0.087	29
PCMT1	5110	bcgsc.ca	37	6	150114745	150114745	+	Missense_Mutation	SNP	G	G	A	rs4816	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PCMT1	NM_005389	exon5	c.G532A	p.V178I	.	.	183	9	286	0	G|0.418;A|0.582	91
PCSK5	5125	bcgsc.ca	37	9	78910241	78910241	+	Missense_Mutation	SNP	A	A	C	rs2842480	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PCSK5	NM_001190482	exon26	c.A3236C	p.E1079A	.	.	211	10	197	0	A|0.770;C|0.230	93
PCSK5	5125	bcgsc.ca	37	9	78910273	78910273	+	Missense_Mutation	SNP	G	G	A	rs2643325	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PCSK5	NM_001190482	exon26	c.G3268A	p.G1090S	.	.	229	9	199	0	G|0.768;A|0.232	93
PCSK5	5125	bcgsc.ca	37	9	78969059	78969059	+	Missense_Mutation	SNP	C	C	A	rs7036921	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PCSK5	NM_001190482	exon36	c.C5097A	p.D1699E	.	.	178	10	164	0	C|0.770;A|0.230	93
PDCD6IP	10015	bcgsc.ca	37	3	33893987	33893987	+	Missense_Mutation	SNP	A	A	G	rs9813017	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDCD6IP	NM_001162429	exon13	c.A1664G	p.N555S	.	.	423	13	447	0	A|0.902;G|0.098	228
PDCD6IP	10015	bcgsc.ca	37	3	33895391	33895391	+	Silent	SNP	A	A	G	rs3183982	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDCD6IP	NM_001162429	exon14	c.A1926G	p.S642S	.	.	736	53	740	1	A|0.616;G|0.384	228
PDCD6IP	10015	bcgsc.ca	37	3	33905566	33905566	+	Missense_Mutation	SNP	C	C	T	rs1127732	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDCD6IP	NM_001162429	exon16	c.C2204T	p.S735L	.	.	298	8	299	0	C|0.800;N|0.001	228
PDCD6IP	10015	bcgsc.ca	37	3	33907945	33907945	+	Silent	SNP	A	A	G	rs3183987	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDCD6IP	NM_001162429	exon18	c.A2550G	p.P850P	.	.	121	8	147	1	A|0.707;G|0.293	228
PDE4B	5142	bcgsc.ca	37	1	66831370	66831370	+	Silent	SNP	G	G	A	rs783036	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDE4B	NM_001037341	exon13	c.G1305A	p.E435E	.	.	54	5	69	0	G|0.473;A|0.527	92
PDE6C	5146	bcgsc.ca	37	10	95395364	95395364	+	Silent	SNP	C	C	G	rs3737228	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDE6C	NM_006204	exon10	c.C1380G	p.T460T	.	.	150	9	148	0	C|0.752;G|0.248	94
PDE8B	8622	bcgsc.ca	37	5	76708987	76708987	+	Silent	SNP	A	A	G	rs335614	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDE8B	NM_003719	exon17	c.A1764G	p.E588E	.	.	167	15	158	0	A|0.284;G|0.716	90
PDHA2	5161	bcgsc.ca	37	4	96762288	96762288	+	Silent	SNP	T	T	C	rs143743805	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDHA2	NM_005390	exon1	c.T987C	p.T329T	.	.	213	9	204	0	T|0.999;C|0.001	90
PDLIM5	10611	bcgsc.ca	37	4	95506842	95506842	+	Silent	SNP	G	G	A	rs11097431	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDLIM5	NM_006457	exon6	c.G837A	p.Q279Q	.	.	118	6	135	0	G|0.784;A|0.216	117
PDZD2	23037	bcgsc.ca	37	5	32087802	32087802	+	Silent	SNP	A	A	G	rs157497	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDZD2	NM_178140	exon19	c.A4248G	p.P1416P	.	.	128	9	122	1	A|0.596;G|0.404	563
PDZD2	23037	bcgsc.ca	37	5	32087808	32087808	+	Silent	SNP	G	G	C	rs3733720	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDZD2	NM_178140	exon19	c.G4254C	p.G1418G	.	.	128	9	122	0	G|0.911;C|0.089	563
PDZD2	23037	bcgsc.ca	37	5	32093070	32093070	+	Silent	SNP	G	G	A	rs16889442	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDZD2	NM_178140	exon20	c.G7785A	p.S2595S	.	.	302	11	266	0	G|0.904;A|0.096	563
PDZD3	79849	bcgsc.ca	37	11	119059404	119059404	+	Missense_Mutation	SNP	G	G	A	rs1815811	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDZD3	NM_001168468	exon9	c.G1115A	p.R372Q	.	.	156	8	101	0	G|0.395;A|0.605	153
PDZRN4	29951	bcgsc.ca	37	12	41967677	41967677	+	Silent	SNP	G	G	A	rs3747556	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PDZRN4	NM_001164595	exon10	c.G3096A	p.S1032S	.	.	69	4	50	0	G|0.870;A|0.130	296
PEBP4	157310	bcgsc.ca	37	8	22584718	22584718	+	Missense_Mutation	SNP	T	T	C	rs1129474	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PEBP4	NM_144962	exon5	c.A373G	p.K125E	.	.	47	4	69	0	T|0.516;C|0.484	137
PGLS	25796	ucsc.edu;bcgsc.ca	37	19	17628587	17628587	+	Silent	SNP	A	A	G	rs6743	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PGLS	NM_012088	exon4	c.A567G	p.T189T	.	.	50	6	46	0	A|0.390;G|0.610	90
PGM2L1	283209	bcgsc.ca	37	11	74053547	74053547	+	Missense_Mutation	SNP	C	C	T	rs592644	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PGM2L1	NM_173582	exon12	c.G1591A	p.V531I	.	.	348	18	240	1	C|0.285;T|0.715	91
PGR	5241	bcgsc.ca	37	11	100909991	100909991	+	Silent	SNP	T	T	C	rs500760	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PGR	NM_000926	exon8	c.A2658G	p.Q886Q	.	.	245	10	188	2	T|0.704;C|0.296	652
PGR	5241	bcgsc.ca	37	11	100922202	100922202	+	Silent	SNP	G	G	A	rs1042839	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PGR	NM_000926	exon5	c.C2310T	p.H770H	.	.	430	19	340	0	G|0.892;A|0.108	652
PHC1	1911	bcgsc.ca	37	12	9086553	9086553	+	Silent	SNP	G	G	A	rs1805773	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PHC1	NM_004426	exon9	c.G1986A	p.K662K	.	.	192	6	163	0	G|0.834;A|0.166	154
PHF20L1	51105	bcgsc.ca	37	8	133836260	133836260	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PHF20L1	NM_016018	exon13	c.A1591G	p.T531A	.	.	313	8	315	1	.	92
PHIP	55023	bcgsc.ca	37	6	79675701	79675701	+	Missense_Mutation	SNP	A	A	G	rs9350797	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PHIP	NM_017934	exon28	c.T3278C	p.L1093P	.	.	124	12	178	0	A|0.746;G|0.254	579
PHKA1	5255	bcgsc.ca	37	X	71830942	71830942	+	Missense_Mutation	SNP	C	C	T	rs139803629	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PHKA1	NM_002637	exon22	c.G2462A	p.R821H	.	.	210	11	221	1	C|0.997;T|0.003	134
PHLPP1	23239	ucsc.edu;bcgsc.ca	37	18	60562298	60562298	+	Silent	SNP	A	A	T	rs624821	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_194449	exon5	c.A2121T	p.P707P	.	.	110	12	116	0	A|0.483;T|0.517	.
PHYHD1	254295	bcgsc.ca	37	9	131702891	131702891	+	Missense_Mutation	SNP	A	A	G	rs2273866	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PHYHD1	NM_174933	exon10	c.A578G	p.E193G	.	.	85	5	56	0	A|0.643;G|0.357	90
PIEZO1	9780	broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	88783449	88783449	+	Silent	SNP	C	C	G	rs8057031	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001142864	exon45	c.G6642C	p.L2214L	.	.	46	7	43	1	C|0.319;G|0.681	.
PIF1	80119	bcgsc.ca	37	15	65113687	65113687	+	Missense_Mutation	SNP	A	A	G	rs118062397	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PIF1	NM_025049	exon5	c.T850C	p.C284R	.	.	119	8	123	0	A|0.988;G|0.012	227
PIGQ	9091	bcgsc.ca	37	16	626214	626214	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PIGQ	NM_148920	exon4	c.G902A	p.R301H	.	.	81	5	52	0	.	226
PIGR	5284	bcgsc.ca	37	1	207110936	207110936	+	Silent	SNP	T	T	C	rs291096	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PIGR	NM_002644	exon4	c.A549G	p.V183V	.	.	115	6	86	0	T|0.418;C|0.582	92
PIGX	54965	bcgsc.ca	37	3	196457870	196457870	+	Silent	SNP	G	G	C	rs78867326	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PIGX	NM_001166304	exon6	c.G594C	p.P198P	.	.	115	10	134	0	G|0.991;C|0.009	90
PIM2	11040	ucsc.edu;bcgsc.ca	37	X	48772616	48772616	+	Silent	SNP	T	T	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PIM2	NM_006875	exon4	c.A276G	p.A92A	.	.	39	4	41	0	.	995
PIN4	5303	bcgsc.ca	37	X	71417349	71417349	+	Silent	SNP	T	T	C	rs35470967	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PIN4	NM_006223	exon4	c.T444C	p.H148H	.	.	218	12	201	0	T|0.990;C|0.010	130
PIP5K1B	8395	bcgsc.ca	37	9	71549847	71549847	+	Missense_Mutation	SNP	G	G	A	rs55897616	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PIP5K1B	NM_003558	exon13	c.G1243A	p.A415T	.	.	206	8	186	1	G|0.955;A|0.045	240
PIPSL	266971	bcgsc.ca	37	10	95719201	95719201	+	RNA	SNP	G	G	A	rs144783321	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	203	13	175	0	G|0.986;A|0.014	.
PITPNM3	83394	bcgsc.ca	37	17	6441376	6441376	+	Missense_Mutation	SNP	G	G	A	rs28493751	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	PITPNM3,brain,glioma,0	PITPNM3	NM_031220	exon2	c.C49T	p.P17S	.	.	205	6	201	0	G|0.926;A|0.074	228
PITRM1	10531	bcgsc.ca	37	10	3202065	3202065	+	Missense_Mutation	SNP	T	T	C	rs4242746	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PITRM1	NM_001242307	exon9	c.A982G	p.I328V	.	.	134	9	127	0	T|0.360;C|0.640	91
PITRM1	10531	ucsc.edu;bcgsc.ca	37	10	3189380	3189380	+	Silent	SNP	C	C	T	rs3740607	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PITRM1	NM_001242307	exon20	c.G2301A	p.P767P	.	.	99	10	83	0	C|0.430;T|0.570	91
PKD1L1	168507	bcgsc.ca	37	7	47971626	47971626	+	Silent	SNP	G	G	A	rs885338	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PKD1L1	NM_138295	exon5	c.C426T	p.I142I	.	.	53	4	45	0	G|0.878;A|0.122	145
PKD1L3	342372	bcgsc.ca	37	16	71967927	71967927	+	RNA	SNP	C	C	T	rs17358402	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PKD1L3	.	.	.	.	.	.	100	5	91	0	C|0.836;T|0.164	68
PLA2G1B	5319	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	120763805	120763805	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLA2G1B	NM_000928	exon2	c.G53A	p.G18D	.	.	45	9	43	0	.	91
PLA2G4E	123745	bcgsc.ca	37	15	42279477	42279477	+	Missense_Mutation	SNP	C	C	T	rs146301749	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001206670	exon17	c.G1928A	p.R643Q	.	.	162	6	179	2	C|0.999;T|0.001	.
PLA2R1	22925	bcgsc.ca	37	2	160901517	160901517	+	Silent	SNP	A	A	G	rs4665143	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLA2R1	NM_001195641	exon2	c.T261C	p.S87S	.	.	123	6	102	0	A|0.497;G|0.503	93
PLB1	151056	bcgsc.ca	37	2	28854958	28854958	+	Missense_Mutation	SNP	C	C	T	rs2199619	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLB1	NM_153021	exon55	c.C3953T	p.A1318V	.	.	90	5	68	0	C|0.742;A|0.002	141
PLBD1	79887	bcgsc.ca	37	12	14656768	14656768	+	Missense_Mutation	SNP	G	G	C	rs1600	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLBD1	NM_024829	exon11	c.C1600G	p.P534A	.	.	219	12	228	0	G|0.491;C|0.509	90
PLBD1	79887	bcgsc.ca	37	12	14664595	14664595	+	Silent	SNP	A	A	G	rs10846013	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLBD1	NM_024829	exon7	c.T895C	p.L299L	.	.	94	5	111	0	A|0.734;G|0.266	90
PLCE1	51196	bcgsc.ca	37	10	95791613	95791613	+	Silent	SNP	T	T	C	rs17109671	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLCE1	NM_016341	exon2	c.T810C	p.C270C	.	.	209	10	224	0	T|0.608;C|0.392	229
PLCE1	51196	bcgsc.ca	37	10	95791763	95791763	+	Silent	SNP	G	G	A	rs17109674	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLCE1	NM_016341	exon2	c.G960A	p.E320E	.	.	194	15	217	0	G|0.627;A|0.373	229
PLCG1	5335	bcgsc.ca	37	20	39797465	39797465	+	Missense_Mutation	SNP	T	T	C	rs753381	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLCG1	NM_182811	exon21	c.T2438C	p.I813T	.	.	134	10	129	2	T|0.302;C|0.698	911
PLCH1	23007	bcgsc.ca	37	3	155200563	155200563	+	Silent	SNP	G	G	T	rs1816522	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLCH1	NM_001130960	exon23	c.C3276A	p.P1092P	.	.	120	8	103	0	A|0.000;G|0.948;T|0.052	151
PLCL1	5334	bcgsc.ca	37	2	198950029	198950029	+	Silent	SNP	A	A	G	rs2228135	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLCL1	NM_006226	exon2	c.A1788G	p.Q596Q	.	.	114	6	113	0	A|0.767;G|0.233	228
PLEKHG3	26030	bcgsc.ca	37	14	65197767	65197767	+	Silent	SNP	G	G	A	rs229624	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLEKHG3	NM_015549	exon5	c.G561A	p.K187K	.	.	71	5	74	0	G|0.853;A|0.147	91
PLEKHN1	84069	bcgsc.ca	37	1	909309	909309	+	Missense_Mutation	SNP	T	T	C	rs3829738	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLEKHN1	NM_032129	exon14	c.T1531C	p.S511P	.	.	47	5	46	1	T|0.804;C|0.196	227
PLEKHS1	79949	bcgsc.ca	37	10	115535599	115535599	+	Silent	SNP	T	T	C	rs3750901	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_024889	exon11	c.T1065C	p.A355A	.	.	92	8	95	1	T|0.813;C|0.187	.
PLK4	10733	bcgsc.ca	37	4	128814964	128814964	+	Missense_Mutation	SNP	G	G	T	rs17012739	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLK4	NM_014264	exon13	c.G2490T	p.E830D	.	.	235	16	279	1	G|0.291;N|0.000	333
PLXNC1	10154	bcgsc.ca	37	12	94613898	94613898	+	Missense_Mutation	SNP	G	G	A	rs115651556	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PLXNC1	NM_005761	exon6	c.G1661A	p.R554Q	.	.	77	5	81	0	G|0.991;A|0.009	92
POLR1A	25885	bcgsc.ca	37	2	86272758	86272758	+	Silent	SNP	G	G	A	rs1561328	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	POLR1A	NM_015425	exon20	c.C2868T	p.L956L	.	.	357	15	353	3	G|0.811;A|0.189	93
POLR1D	51082	bcgsc.ca	37	13	28239970	28239970	+	Silent	SNP	G	G	A	rs14105	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	POLR1D	NM_152705	exon3	c.G249A	p.P83P	.	.	95	7	82	0	G|0.646;A|0.354	90
POLR2B	5431	bcgsc.ca	37	4	57876955	57876955	+	Silent	SNP	G	G	A	rs1718878	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	POLR2B	NM_000938	exon12	c.G1590A	p.A530A	.	.	416	16	432	2	G|0.635;A|0.365	92
POLR2B	5431	bcgsc.ca	37	4	57881715	57881715	+	Silent	SNP	G	G	A	rs1713982	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	POLR2B	NM_000938	exon14	c.G1848A	p.T616T	.	.	148	12	169	0	G|0.634;A|0.366	92
POLR2J4	84820	bcgsc.ca	37	7	44005528	44005528	+	RNA	SNP	C	C	T	rs11766894	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	127	6	149	0	C|0.874;T|0.126	.
POM121L2	94026	bcgsc.ca	37	6	27278020	27278020	+	Missense_Mutation	SNP	C	C	A	rs16897515	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_033482	exon1	c.G1930T	p.G644C	.	.	154	8	161	0	C|0.850;A|0.150	.
POU5F1B	5462	bcgsc.ca	37	8	128428795	128428795	+	Silent	SNP	G	G	A	rs6998254	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001159542	exon1	c.G684A	p.Q228Q	.	.	126	6	134	1	A|0.505;G|0.495	.
POU5F1B	5462	bcgsc.ca	37	8	128428823	128428823	+	Missense_Mutation	SNP	G	G	C	rs7002225	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001159542	exon1	c.G712C	p.E238Q	.	.	137	5	153	1	G|0.500;C|0.500	.
PPA2	27068	bcgsc.ca	37	4	106317429	106317429	+	Missense_Mutation	SNP	C	C	G	rs13787	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PPA2	NM_176869	exon9	c.G846C	p.K282N	.	.	400	17	364	3	C|0.611;G|0.389	91
PPAP2C	8612	broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	282795	282795	+	Missense_Mutation	SNP	G	G	A	rs201440917		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PPAP2C	NM_177543	exon4	c.C560T	p.S187L	.	.	56	23	69	1	.	90
PPARGC1B	133522	bcgsc.ca	37	5	149212243	149212243	+	Missense_Mutation	SNP	G	G	C	rs7732671	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PPARGC1B	NM_133263	exon5	c.G607C	p.A203P	.	.	159	7	124	0	G|0.891;C|0.109	186
PPFIA2	8499	bcgsc.ca	37	12	81769581	81769581	+	Silent	SNP	C	C	T	rs10862301	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PPFIA2	NM_001220476	exon9	c.G1125A	p.L375L	.	.	122	5	109	0	C|0.573;N|0.000	231
PPIL6	285755	bcgsc.ca	37	6	109752451	109752451	+	Missense_Mutation	SNP	T	T	C	rs9398200	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PPIL6	NM_001111298	exon3	c.A329G	p.H110R	.	.	78	7	166	1	T|0.955;C|0.045	90
PPIP5K2	23262	bcgsc.ca	37	5	102503827	102503827	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PPIP5K2	NM_015216	exon18	c.C2114T	p.S705F	.	.	436	14	494	0	.	92
PPP1R15A	23645	bcgsc.ca	37	19	49377436	49377436	+	Missense_Mutation	SNP	G	G	C	rs556052	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PPP1R15A	NM_014330	exon2	c.G946C	p.A316P	.	.	105	7	79	0	G|0.500;C|0.500	226
PPP1R15A	23645	bcgsc.ca	37	19	49377918	49377918	+	Missense_Mutation	SNP	G	G	T	rs35087747	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PPP1R15A	NM_014330	exon2	c.G1428T	p.R476S	.	.	147	7	115	0	A|0.000;C|0.000;G|0.864;T|0.136	226
PPP1R1A	5502	bcgsc.ca	37	12	54974803	54974803	+	Silent	SNP	C	C	T	rs8407	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PPP1R1A	NM_006741	exon6	c.G435A	p.E145E	.	.	133	7	124	0	C|0.825;T|0.175	226
PPP1R9A	55607	bcgsc.ca	37	7	94540416	94540416	+	Missense_Mutation	SNP	A	A	G	rs10230714	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PPP1R9A	NM_017650	exon2	c.A991G	p.M331V	.	.	158	8	154	1	A|0.847;G|0.153	208
PPP2R3A	5523	bcgsc.ca	37	3	135720851	135720851	+	Missense_Mutation	SNP	G	G	T	rs6779903	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PPP2R3A	NM_002718	exon2	c.G511T	p.A171S	.	.	119	8	145	1	G|0.660;T|0.340	662
PPP6R1	22870	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	55742007	55742007	+	Silent	SNP	C	C	T	rs200738242		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PPP6R1	NM_014931	exon23	c.G2616A	p.P872P	.	.	64	19	45	0	C|0.999;T|0.001	67
PPWD1	23398	bcgsc.ca	37	5	64881936	64881936	+	Silent	SNP	A	A	G	rs27141	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PPWD1	NM_015342	exon10	c.A1725G	p.P575P	.	.	142	8	150	3	A|0.396;G|0.604	91
PRDM8	56978	bcgsc.ca	37	4	81124596	81124596	+	Silent	SNP	G	G	C	rs12780	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PRDM8	NM_001099403	exon4	c.G1980C	p.R660R	.	.	149	7	128	0	G|0.507;C|0.493	91
PRMT7	54496	bcgsc.ca	37	16	68390697	68390697	+	Silent	SNP	C	C	T	rs61733486	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PRMT7	NM_019023	exon18	c.C1905T	p.P635P	.	.	60	5	70	0	C|0.941;T|0.059	90
PROKR1	10887	bcgsc.ca	37	2	68873071	68873071	+	Missense_Mutation	SNP	A	A	G	rs7570797	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PROKR1	NM_138964	exon1	c.A118G	p.S40G	.	.	102	6	105	0	A|0.839;G|0.161	523
PROS1	5627	bcgsc.ca	37	3	93629525	93629525	+	Missense_Mutation	SNP	C	C	T	rs144526169	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PROS1	NM_000313	exon4	c.G284A	p.G95E	.	.	523	13	505	1	C|0.999;T|0.001	153
PROS1	5627	hgsc.bcm.edu;bcgsc.ca	37	3	93619663	93619663	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PROS1	NM_000313	exon7	c.T712C	p.S238P	.	.	84	7	101	0	.	153
PRPF8	10594	bcgsc.ca	37	17	1578939	1578939	+	Silent	SNP	C	C	T	rs33965342	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PRPF8	NM_006445	exon19	c.G2847A	p.P949P	.	.	120	8	102	0	C|0.711;T|0.289	525
PRPF8	10594	bcgsc.ca	37	17	1584324	1584324	+	Silent	SNP	A	A	G	rs7503397	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PRPF8	NM_006445	exon7	c.T891C	p.N297N	.	.	170	13	165	0	A|0.695;G|0.305	525
PRR21	643905	bcgsc.ca	37	2	240982116	240982116	+	Missense_Mutation	SNP	C	C	A	rs72993513	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PRR21	NM_001080835	exon1	c.G284T	p.R95L	.	.	65	7	53	1	C|0.741;A|0.259	70
PRUNE2	158471	bcgsc.ca	37	9	79324439	79324439	+	Silent	SNP	A	A	G	rs12238013	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PRUNE2	NM_015225	exon8	c.T2751C	p.D917D	.	.	164	7	176	0	A|0.747;G|0.253	157
PRUNE2	158471	bcgsc.ca	37	9	79324955	79324955	+	Missense_Mutation	SNP	C	C	T	rs11145017	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PRUNE2	NM_015225	exon8	c.G2235A	p.M745I	.	.	150	6	160	0	C|0.743;N|0.000	157
PRUNE2	158471	bcgsc.ca	37	9	79325759	79325759	+	Silent	SNP	C	C	T	rs11145019	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PRUNE2	NM_015225	exon8	c.G1431A	p.V477V	.	.	61	5	86	0	C|0.748;T|0.252	157
PSG11	5680	bcgsc.ca	37	19	43519362	43519362	+	Silent	SNP	C	C	T	rs11083680	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_002785	exon4	c.G870A	p.Q290Q	.	.	198	9	184	0	C|0.423;T|0.577	.
PSKH2	85481	bcgsc.ca	37	8	87076520	87076520	+	Missense_Mutation	SNP	C	C	A	rs6998760	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PSKH2	NM_033126	exon2	c.G526T	p.A176S	.	.	64	5	65	0	C|0.705;A|0.295	385
PTOV1	53635	bcgsc.ca	37	19	50360989	50360989	+	Missense_Mutation	SNP	A	A	G	rs59595912	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PTOV1	NM_017432	exon7	c.A754G	p.I252V	.	.	185	7	163	1	A|0.928;G|0.072	226
PTPLB	201562	bcgsc.ca	37	3	123303821	123303821	+	Silent	SNP	G	G	C	rs1271004		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PTPLB	NM_198402	exon1	c.C54G	p.G18G	.	.	96	9	75	0	G|0.387;C|0.613	226
PTPRD	5789	bcgsc.ca	37	9	8389364	8389364	+	Silent	SNP	C	C	G	rs2279776	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PTPRD	NM_002839	exon37	c.G4254C	p.G1418G	.	.	91	6	122	1	C|0.506;G|0.494	912
PTPRQ	374462	broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	80900348	80900348	+	Missense_Mutation	SNP	T	T	G	rs7965277	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001145026	exon13	c.T1940G	p.V647G	.	.	87	9	56	0	T|0.685;G|0.315	.
PTX4	390667	bcgsc.ca	37	16	1536535	1536535	+	Missense_Mutation	SNP	C	C	T	rs2745098	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PTX4	NM_001013658	exon3	c.G827A	p.R276K	.	.	156	6	137	0	C|0.507;T|0.493	90
PUS7L	83448	bcgsc.ca	37	12	44148259	44148259	+	Missense_Mutation	SNP	T	T	C	rs1057190	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PUS7L	NM_001098614	exon2	c.A790G	p.K264E	.	.	367	17	391	1	T|0.749;C|0.251	91
PUS7L	83448	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	44148151	44148151	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PUS7L	NM_001098614	exon2	c.G898T	p.V300F	.	.	232	89	229	1	.	91
PYCRL	65263	bcgsc.ca	37	8	144689146	144689146	+	Missense_Mutation	SNP	C	C	T	rs2242089	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	PYCRL	NM_023078	exon3	c.G349A	p.V117M	.	.	132	10	112	0	C|0.785;T|0.215	90
QPCTL	54814	bcgsc.ca	37	19	46206262	46206262	+	Silent	SNP	G	G	A	rs17850756	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	QPCTL	NM_017659	exon7	c.G1104A	p.L368L	.	.	101	7	103	0	G|0.727;A|0.273	91
QRFPR	84109	bcgsc.ca	37	4	122254014	122254014	+	Silent	SNP	A	A	G	rs55975435	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	QRFPR	NM_198179	exon4	c.T759C	p.L253L	.	.	302	10	318	4	A|0.909;G|0.091	90
RAB23	51715	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	57075158	57075158	+	Silent	SNP	T	T	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RAB23	NM_016277	exon2	c.A21G	p.E7E	.	.	147	35	107	0	.	660
RAB3IL1	5866	bcgsc.ca	37	11	61672265	61672265	+	Silent	SNP	T	T	C	rs174474	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RAB3IL1	NM_013401	exon6	c.A747G	p.R249R	.	.	144	8	157	0	T|0.759;C|0.241	228
RAD21L1	642636	bcgsc.ca	37	20	1212186	1212186	+	Silent	SNP	A	A	G	rs77353889	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001136566	exon4	c.A291G	p.P97P	.	.	425	10	390	1	A|0.972;G|0.028	.
RAET1E	135250	bcgsc.ca	37	6	150210681	150210681	+	Missense_Mutation	SNP	G	G	A	rs9371533	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RAET1E	NM_139165	exon3	c.C425T	p.T142I	.	.	75	6	101	1	G|0.403;A|0.597	90
RAET1E	135250	bcgsc.ca	37	6	150210685	150210685	+	Missense_Mutation	SNP	C	C	T	rs9383921	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RAET1E	NM_139165	exon3	c.G421A	p.A141T	.	.	73	5	97	1	C|0.608;T|0.392	90
RAET1E	135250	ucsc.edu;bcgsc.ca	37	6	150209717	150209717	+	Missense_Mutation	SNP	C	C	G	rs2342767	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RAET1E	NM_139165	exon4	c.G709C	p.V237L	.	.	67	7	118	0	C|0.523;G|0.477	90
RAP1GAP2	23108	bcgsc.ca	37	17	2883588	2883588	+	Missense_Mutation	SNP	C	C	A	rs17762452	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RAP1GAP2	NM_015085	exon9	c.C604A	p.L202M	.	.	87	5	85	2	C|0.737;A|0.263	1
RARS2	57038	ucsc.edu;bcgsc.ca	37	6	88224164	88224164	+	Silent	SNP	T	T	C	rs8802	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RARS2	NM_020320	exon20	c.A1704G	p.K568K	.	.	167	16	265	1	T|0.871;C|0.129	92
RARS	5917	bcgsc.ca	37	5	167919825	167919825	+	Silent	SNP	G	G	A	rs2305728	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RARS	NM_002887	exon3	c.G342A	p.Q114Q	.	.	139	8	145	0	G|0.881;A|0.119	93
RASGRP4	115727	bcgsc.ca	37	19	38905683	38905683	+	Silent	SNP	A	A	G	rs10412098	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RASGRP4	NM_170604	exon9	c.T1035C	p.G345G	.	.	104	6	73	1	A|0.657;G|0.343	660
RB1CC1	9821	bcgsc.ca	37	8	53555069	53555069	+	Silent	SNP	A	A	G	rs2305427	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RB1CC1	NM_001083617	exon18	c.T4179C	p.R1393R	.	.	122	7	137	0	A|0.779;G|0.221	170
RB1CC1	9821	bcgsc.ca	37	8	53586706	53586706	+	Missense_Mutation	SNP	A	A	G	rs17337252	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RB1CC1	NM_001083617	exon7	c.T701C	p.M234T	.	.	158	10	166	0	A|0.533;G|0.467	170
RBL2	5934	bcgsc.ca	37	16	53504721	53504721	+	Silent	SNP	T	T	C	rs10748	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RBL2	NM_005611	exon17	c.T2590C	p.L864L	.	.	179	7	170	0	T|0.470;C|0.530	841
RBM23	55147	ucsc.edu	37	14	23371268	23371268	+	Silent	SNP	A	A	G	rs56708790	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RBM23	NM_001077351	exon12	c.T1167C	p.A389A	.	.	60	12	42	1	A|0.887;G|0.113	91
REC8	9985	bcgsc.ca	37	14	24647814	24647814	+	Silent	SNP	T	T	C	rs1885711	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	REC8	NM_001048205	exon13	c.T996C	p.P332P	.	.	61	5	59	0	T|0.305;C|0.695	90
REPS1	85021	ucsc.edu;bcgsc.ca	37	6	139229872	139229872	+	Missense_Mutation	SNP	C	C	T	rs1044418	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	REPS1	NM_031922	exon18	c.G2146A	p.V716I	.	.	102	12	149	0	C|0.886;T|0.114	522
RFPL4B	442247	bcgsc.ca	37	6	112671611	112671611	+	Missense_Mutation	SNP	G	G	A	rs11153361	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RFPL4B	NM_001013734	exon3	c.G701A	p.G234D	.	.	68	5	112	1	G|0.808;A|0.192	68
RFTN1	23180	bcgsc.ca	37	3	16358584	16358584	+	Silent	SNP	T	T	C	rs690241	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RFTN1	NM_015150	exon10	c.A1488G	p.S496S	.	.	70	6	56	0	T|0.400;C|0.600	93
RFTN1	23180	ucsc.edu;bcgsc.ca	37	3	16364919	16364919	+	Silent	SNP	A	A	C	rs690216	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RFTN1	NM_015150	exon9	c.T1296G	p.P432P	.	.	105	11	85	0	A|0.402;C|0.598	93
RGPD3	653489	bcgsc.ca	37	2	107029670	107029670	+	Silent	SNP	G	G	A	rs199970422		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RGPD3	NM_001144013	exon22	c.C5136T	p.H1712H	.	.	1564	43	1488	2	G|0.999;A|0.001	23
RHNO1	83695	bcgsc.ca	37	12	2997397	2997397	+	Silent	SNP	G	G	A	rs2907608	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001257098	exon3	c.G489A	p.S163S	.	.	142	11	101	0	G|0.532;A|0.468	.
RIBC2	26150	bcgsc.ca	37	22	45813687	45813687	+	Silent	SNP	G	G	A	rs12172195	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RIBC2	.	.	.	.	.	.	269	23	278	0	G|0.865;A|0.135	90
RILPL1	353116	ucsc.edu;bcgsc.ca	37	12	124008073	124008073	+	Silent	SNP	A	A	G	rs2292500	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_178314	exon2	c.T429C	p.N143N	.	.	60	6	49	0	A|0.156;G|0.844;T|0.000	.
RIN3	79890	bcgsc.ca	37	14	93118038	93118038	+	Missense_Mutation	SNP	A	A	G	rs3829947	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RIN3	NM_024832	exon6	c.A644G	p.H215R	.	.	114	9	73	1	G|0.492;A|0.508	522
RIPK3	11035	bcgsc.ca	37	14	24805463	24805463	+	Missense_Mutation	SNP	G	G	T	rs3212254	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RIPK3	NM_006871	exon10	c.C1475A	p.P492Q	.	.	62	4	76	0	G|0.896;T|0.104	946
RNF13	11342	bcgsc.ca	37	3	149619941	149619941	+	Silent	SNP	T	T	C	rs148516101	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RNF13	NM_007282	exon7	c.T492C	p.Y164Y	.	.	591	23	564	1	T|0.994;C|0.006	227
RNF213	57674	broad.mit.edu	37	17	78349672	78349672	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RNF213	NM_001256071	exon51	c.13185+2T>C	.	.	.	81	9	68	0	.	577
RNF8	9025	bcgsc.ca	37	6	37349066	37349066	+	Silent	SNP	G	G	A	rs34150698	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RNF8	NM_003958	exon7	c.G1377A	p.K459K	.	.	237	12	149	0	G|0.947;A|0.053	227
RNFT1	51136	bcgsc.ca	37	17	58037438	58037438	+	Missense_Mutation	SNP	A	A	C	rs188842766		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RNFT1	NM_016125	exon4	c.T683G	p.L228R	.	.	1044	35	997	0	A|0.999;C|0.000	226
RNPEP	6051	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	201969092	201969092	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RNPEP	NM_020216	exon6	c.A1153G	p.I385V	.	.	82	23	78	0	.	91
ROBO1	6091	bcgsc.ca	37	3	78685024	78685024	+	Missense_Mutation	SNP	C	C	T	rs35456279	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ROBO1	NM_002941	exon23	c.G3272A	p.S1091N	.	.	143	6	124	1	C|0.969;T|0.031	67
RP1L1	94137	ucsc.edu;bcgsc.ca	37	8	10465190	10465190	+	Missense_Mutation	SNP	C	C	T	rs72494282	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RP1L1	NM_178857	exon4	c.G6418A	p.E2140K	.	.	37	4	63	0	C|0.835;T|0.165	139
RPA1	6117	bcgsc.ca	37	17	1733399	1733399	+	Silent	SNP	A	A	G	rs5030749	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RPA1	NM_002945	exon1	c.A12G	p.Q4Q	.	.	127	7	101	0	A|0.425;G|0.575	651
RPAP1	26015	bcgsc.ca	37	15	41829178	41829178	+	Missense_Mutation	SNP	G	G	A	rs112536229	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RPAP1	NM_015540	exon2	c.C146T	p.P49L	.	.	52	4	40	0	G|0.982;A|0.018	153
RPF1	80135	bcgsc.ca	37	1	84961108	84961108	+	Missense_Mutation	SNP	G	G	A	rs7528067	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RPF1	NM_025065	exon6	c.G669A	p.M223I	.	.	91	5	80	0	G|0.938;A|0.062	90
RPL13	6137	bcgsc.ca	37	16	89628073	89628073	+	Missense_Mutation	SNP	G	G	A	rs9930567	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RPL13	NM_000977	exon4	c.G334A	p.A112T	.	.	180	8	152	0	G|0.853;A|0.147	90
RPS6KA4	8986	bcgsc.ca	37	11	64138805	64138805	+	Silent	SNP	T	T	C	rs11542299	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RPS6KA4	NM_003942	exon17	c.T2172C	p.N724N	.	.	182	9	176	0	T|0.729;C|0.271	1036
RPTOR	57521	bcgsc.ca	37	17	78519519	78519519	+	Silent	SNP	T	T	C	rs61750765	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RPTOR	NM_001163034	exon1	c.T90C	p.F30F	.	.	119	9	117	0	T|0.903;C|0.097	847
RPTOR	57521	bcgsc.ca	37	17	78921117	78921117	+	Silent	SNP	C	C	T	rs4969231	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RPTOR	NM_020761	exon27	c.C3231T	p.N1077N	.	.	95	7	62	0	C|0.763;T|0.237	847
RREB1	6239	bcgsc.ca	37	6	7247344	7247344	+	Missense_Mutation	SNP	C	C	A	rs35742417	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RREB1	NM_001003699	exon12	c.C4661A	p.S1554Y	.	.	214	8	180	0	C|0.843;A|0.157	144
RRP12	23223	bcgsc.ca	37	10	99141484	99141484	+	Silent	SNP	C	C	T	rs12218483	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	RRP12,NS,carcinoma,-1	RRP12	NM_015179	exon11	c.G1308A	p.T436T	.	.	182	10	178	1	C|0.770;T|0.230	92
RRP12	23223	ucsc.edu;bcgsc.ca	37	10	99155984	99155984	+	Silent	SNP	G	G	A	rs3814553	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RRP12	NM_001145114	exon3	c.C444T	p.F148F	.	.	77	9	71	0	G|0.618;A|0.382	92
RTKN2	219790	bcgsc.ca	37	10	63976913	63976918	+	In_Frame_Del	DEL	AGCTTC	AGCTTC	-	rs149331212		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	AGCTTC	AGCTTC	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RTKN2	NM_145307	exon9	c.979_984del	p.327_328del	.	.	127	5	130	0	AGCTTC|0.861;-|0.139	68
RUFY1	80230	bcgsc.ca	37	5	179025789	179025789	+	Silent	SNP	G	G	A	rs72824522	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RUFY1	NM_025158	exon14	c.G1728A	p.R576R	.	.	299	13	300	0	G|0.912;A|0.088	157
RYR2	6262	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	237777779	237777779	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RYR2	NM_001035	exon37	c.T5351G	p.L1784R	.	.	173	19	103	0	.	158
RYR3	6263	bcgsc.ca	37	15	33926902	33926902	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	RYR3	NM_001243996	exon25	c.G3143T	p.G1048V	.	.	96	6	97	0	.	520
SAC3D1	29901	hgsc.bcm.edu	37	11	64809167	64809167	+	Missense_Mutation	SNP	A	A	G	rs10792456		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SAC3D1	NM_013299	exon1	c.A403G	p.T135A	.	.	5	5	0	0	A|0.059;G|0.941	90
SACS	26278	bcgsc.ca	37	13	23905711	23905711	+	Silent	SNP	A	A	G	rs2737699	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SACS	NM_014363	exon10	c.T12304C	p.L4102L	.	.	166	9	177	0	G|0.232;N|0.000	298
SACS	26278	bcgsc.ca	37	13	23907909	23907909	+	Missense_Mutation	SNP	A	A	G	rs17078605	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SACS	NM_014363	exon10	c.T10106C	p.V3369A	.	.	155	10	161	0	A|0.769;G|0.231	298
SACS	26278	bcgsc.ca	37	13	23909162	23909162	+	Silent	SNP	A	A	G	rs9552929	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SACS	NM_014363	exon10	c.T8853C	p.V2951V	.	.	107	7	110	0	A|0.767;G|0.233	298
SALL1	6299	hgsc.bcm.edu	37	16	51175655	51175655	+	Missense_Mutation	SNP	C	C	T	rs199760974		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SALL1	NM_002968	exon2	c.G478A	p.G160S	.	.	62	3	62	0	.	98
SAMM50	25813	bcgsc.ca	37	22	44368122	44368122	+	Missense_Mutation	SNP	A	A	G	rs3761472	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SAMM50	NM_015380	exon5	c.A329G	p.D110G	.	.	163	8	171	0	A|0.790;G|0.210	91
SAMSN1	64092	bcgsc.ca	37	21	15954660	15954660	+	Missense_Mutation	SNP	T	T	C	rs2822787	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SAMSN1	NM_001256370	exon2	c.A58G	p.N20D	.	.	157	12	142	0	T|0.263;C|0.737	94
SBK1	388228	bcgsc.ca	37	16	28328916	28328916	+	Silent	SNP	C	C	T	rs113394773	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SBK1	NM_001024401	exon2	c.C204T	p.D68D	.	.	220	10	182	0	C|0.945;T|0.055	311
SBNO1	55206	bcgsc.ca	37	12	123829948	123829948	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SBNO1	NM_001167856	exon3	c.C407T	p.A136V	.	.	279	8	256	0	.	292
SCLT1	132320	bcgsc.ca	37	4	129913345	129913345	+	Silent	SNP	G	G	A	rs13151322	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SCLT1	NM_144643	exon9	c.C663T	p.I221I	.	.	103	6	93	1	G|0.897;A|0.103	525
SCLY	51540	bcgsc.ca	37	2	239006879	239006879	+	Silent	SNP	C	C	T	rs12993309	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SCLY	NM_016510	exon12	c.C1245T	p.F415F	.	.	72	5	73	0	C|0.786;T|0.214	92
SCN7A	6332	bcgsc.ca	37	2	167269629	167269629	+	Silent	SNP	T	T	G	rs33922582	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SCN7A	NM_002976	exon21	c.A3417C	p.A1139A	.	.	586	20	740	0	T|0.946;G|0.054	67
SCN9A	6335	bcgsc.ca	37	2	167168093	167168093	+	Silent	SNP	C	C	T	rs6432901	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SCN9A	NM_002977	exon2	c.G174A	p.Q58Q	.	.	93	6	64	0	C|0.431;T|0.569	181
SELENBP1	8991	broad.mit.edu;bcgsc.ca	37	1	151341554	151341562	+	In_Frame_Del	DEL	GCACCAGCT	GCACCAGCT	-	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	GCACCAGCT	GCACCAGCT	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SELENBP1	NM_001258289	exon4	c.404_412del	p.135_138del	.	.	185	8	152	0	.	90
SEMA3E	9723	bcgsc.ca	37	7	83029438	83029438	+	Silent	SNP	C	C	T	rs2722974	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SEMA3E	NM_012431	exon11	c.G1272A	p.L424L	.	.	278	20	221	1	C|0.661;N|0.000	93
SEMA4B	10509	bcgsc.ca	37	15	90768320	90768320	+	Silent	SNP	C	C	T	rs11073918	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SEMA4B	NM_020210	exon11	c.C1315T	p.L439L	.	.	46	4	36	0	C|0.755;T|0.245	272
SENP7	57337	bcgsc.ca	37	3	101080694	101080694	+	Silent	SNP	T	T	C	rs7616677	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SENP7	NM_020654	exon11	c.A1488G	p.E496E	.	.	443	11	503	3	T|0.605;C|0.395	661
SERAC1	84947	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	158579374	158579374	+	Missense_Mutation	SNP	C	C	T	rs115387731	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SERAC1	NM_032861	exon2	c.G22A	p.V8I	.	.	52	30	81	0	C|0.999;T|0.001	90
SERPINA10	51156	bcgsc.ca	37	14	94756450	94756450	+	Missense_Mutation	SNP	T	T	A	rs2232700	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SERPINA10	NM_001100607	exon2	c.A481T	p.T161S	.	.	142	7	153	2	T|0.673;N|0.000	228
SERPINA1	5265	bcgsc.ca	37	14	94844843	94844843	+	Missense_Mutation	SNP	T	T	G	rs1303	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SERPINA1	NM_001127701	exon7	c.A1200C	p.E400D	.	.	140	8	130	0	T|0.775;G|0.225	226
SERPINB11	89778	bcgsc.ca	37	18	61387277	61387277	+	Missense_Mutation	SNP	C	C	T	rs61740078	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SERPINB11	.	.	.	.	.	.	276	8	219	0	C|0.978;T|0.022	67
SERPINB11	89778	bcgsc.ca	37	18	61387312	61387312	+	Missense_Mutation	SNP	G	G	A	rs1506418	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SERPINB11	.	.	.	.	.	.	329	14	294	0	G|0.548;A|0.452	67
SERPINB11	89778	bcgsc.ca	37	18	61387333	61387333	+	Missense_Mutation	SNP	T	T	A	rs1506419	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SERPINB11	.	.	.	.	.	.	363	10	322	0	T|0.566;A|0.434	67
SERPINB11	89778	bcgsc.ca	37	18	61387389	61387389	+	Silent	SNP	G	G	A	rs1506420	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SERPINB11	.	.	.	.	.	.	333	12	314	0	G|0.562;A|0.438	67
SERPINB2	5055	bcgsc.ca	37	18	61565062	61565062	+	Silent	SNP	C	C	G	rs6105	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SERPINB2	NM_002575	exon5	c.C519G	p.V173V	.	.	384	16	429	1	C|0.956;G|0.044	226
SERPINB3	6317	bcgsc.ca	37	18	61322995	61322995	+	Missense_Mutation	SNP	T	T	C	rs1065205	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SERPINB3	NM_006919	exon8	c.A1069G	p.T357A	.	.	218	8	219	0	T|0.864;C|0.136	228
SERPINB3	6317	bcgsc.ca	37	18	61323012	61323012	+	Missense_Mutation	SNP	C	C	G	rs3180227	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SERPINB3	NM_006919	exon8	c.G1052C	p.G351A	.	.	218	7	196	0	C|0.611;G|0.389	228
SERPINH1	871	bcgsc.ca	37	11	75279846	75279846	+	Silent	SNP	C	C	T	rs649257	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SERPINH1	NM_001207014	exon4	c.C693T	p.T231T	.	.	105	7	86	0	C|0.660;T|0.340	228
SETMAR	6419	bcgsc.ca	37	3	4354697	4354697	+	Missense_Mutation	SNP	G	G	A	rs6801634	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SETMAR	NM_001243723	exon2	c.G272A	p.R91H	.	.	112	8	120	0	G|0.871;A|0.129	91
SF3B1	23451	bcgsc.ca	37	2	198257795	198257795	+	Silent	SNP	T	T	C	rs4685	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SF3B1	NM_012433	exon24	c.A3657G	p.V1219V	.	.	325	22	261	1	T|0.202;G|0.145;C|0.593;A|0.059	140
SF3B1	23451	bcgsc.ca	37	2	198265526	198265526	+	Silent	SNP	A	A	G	rs788018	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SF3B1	NM_012433	exon18	c.T2631C	p.G877G	.	.	125	9	132	0	A|0.263;G|0.737	140
SFTPB	6439	bcgsc.ca	37	2	85895338	85895338	+	Missense_Mutation	SNP	T	T	G	rs2077079	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SFTPB	NM_198843	exon2	c.A5C	p.H2P	.	.	128	8	117	1	T|0.575;G|0.425	91
SGCD	6444	bcgsc.ca	37	5	155771579	155771579	+	Silent	SNP	T	T	C	rs1801193	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_000337	exon3	c.T84C	p.Y28Y	.	.	192	8	152	0	T|0.516;C|0.484	.
SH2D4B	387694	bcgsc.ca	37	10	82363405	82363405	+	Silent	SNP	C	C	T	rs1913762	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SH2D4B	NM_207372	exon5	c.C714T	p.H238H	.	.	66	5	75	0	C|0.943;T|0.057	90
SHPRH	257218	bcgsc.ca	37	6	146234644	146234644	+	Silent	SNP	G	G	A	rs9497426	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SHPRH	NM_173082	exon24	c.C4308T	p.C1436C	.	.	87	8	115	0	G|0.174;A|0.826	92
SHROOM2	357	ucsc.edu;bcgsc.ca	37	X	9859098	9859098	+	Silent	SNP	A	A	G	rs6640543	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SHROOM2	NM_001649	exon3	c.A399G	p.P133P	.	.	75	7	97	0	A|0.147;G|0.853	198
SIGLEC12	89858	bcgsc.ca	37	19	52000672	52000672	+	Missense_Mutation	SNP	G	G	A	rs3829658	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SIGLEC12	NM_053003	exon6	c.C1433T	p.T478M	.	.	93	5	101	0	G|0.381;A|0.619	96
SIGLEC12	89858	bcgsc.ca	37	19	52004795	52004795	+	Silent	SNP	G	G	T	rs61742108	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SIGLEC12	NM_053003	exon1	c.C193A	p.R65R	.	.	96	7	126	0	G|0.365;T|0.635	96
SIGLEC1	6614	bcgsc.ca	37	20	3682149	3682149	+	Silent	SNP	G	G	A	rs13037869	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SIGLEC1	NM_023068	exon6	c.C1368T	p.S456S	.	.	108	6	105	0	G|0.723;A|0.277	167
SIGLEC5	8778	bcgsc.ca	37	19	52130830	52130830	+	Silent	SNP	C	C	A	rs8107754	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SIGLEC5	NM_003830	exon6	c.G1167T	p.G389G	.	.	49	5	53	1	C|0.575;A|0.425	92
SIRPG	55423	bcgsc.ca	37	20	1616137	1616137	+	Missense_Mutation	SNP	G	G	A	rs6034239	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SIRPG	NM_018556	exon4	c.C857T	p.S286L	.	.	181	11	183	0	G|0.459;A|0.541	23
SIRPG	55423	bcgsc.ca	37	20	1616892	1616892	+	Silent	SNP	A	A	G	rs2277760	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SIRPG	NM_001039508	exon3	c.T690C	p.H230H	.	.	224	9	217	1	A|0.764;G|0.236	23
SIVA1	10572	ucsc.edu;bcgsc.ca	37	14	105222037	105222037	+	Silent	SNP	C	C	T	rs1132975	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SIVA1	NM_006427	exon2	c.C189T	p.A63A	.	.	57	6	71	0	C|0.646;T|0.354	514
SIX5	147912	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	46269999	46269999	+	Silent	SNP	T	T	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SIX5	NM_175875	exon2	c.A1218G	p.K406K	.	.	36	11	42	0	.	91
SIX5	147912	ucsc.edu;bcgsc.ca	37	19	46268902	46268902	+	Missense_Mutation	SNP	C	C	T	rs2341097	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SIX5	NM_175875	exon3	c.G2077A	p.V693M	.	.	31	7	47	0	C|0.678;T|0.322	91
SIX6	4990	bcgsc.ca	37	14	60976537	60976537	+	Missense_Mutation	SNP	C	C	A	rs33912345	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SIX6	NM_007374	exon1	c.C421A	p.H141N	.	.	93	6	91	0	C|0.576;A|0.424	90
SLC13A2	9058	bcgsc.ca	37	17	26824156	26824156	+	Missense_Mutation	SNP	A	A	G	rs11567842	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLC13A2	NM_001145975	exon12	c.A1795G	p.I599V	.	.	74	5	65	0	A|0.560;G|0.440	90
SLC16A6	9120	bcgsc.ca	37	17	66267752	66267752	+	Silent	SNP	G	G	A	rs62087130	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLC16A6	NM_001174166	exon6	c.C549T	p.L183L	.	.	108	5	90	0	G|0.995;A|0.005	90
SLC1A1	6505	bcgsc.ca	37	9	4564432	4564432	+	Silent	SNP	G	G	A	rs2228622	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLC1A1	NM_004170	exon4	c.G414A	p.T138T	.	.	75	5	101	0	G|0.657;A|0.343	514
SLC20A1	6574	bcgsc.ca	37	2	113404708	113404708	+	Silent	SNP	G	G	A	rs4849091	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLC20A1	NM_005415	exon2	c.G303A	p.L101L	.	.	123	8	144	1	G|0.602;A|0.398	92
SLC22A16	85413	ucsc.edu;bcgsc.ca	37	6	110777962	110777962	+	Silent	SNP	A	A	G	rs6907567	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLC22A16	NM_033125	exon2	c.T312C	p.N104N	.	.	70	8	111	0	A|0.716;G|0.284	91
SLC22A16	85413	ucsc.edu;bcgsc.ca	37	6	110778128	110778128	+	Missense_Mutation	SNP	T	T	C	rs714368	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLC22A16	NM_033125	exon2	c.A146G	p.H49R	.	.	63	9	107	0	T|0.701;C|0.299	91
SLC26A7	115111	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	92301473	92301473	+	Silent	SNP	A	A	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLC26A7	NM_134266	exon3	c.A303T	p.T101T	.	.	104	10	119	0	.	92
SLC36A4	120103	bcgsc.ca	37	11	92895920	92895920	+	Missense_Mutation	SNP	T	T	C	rs78676517	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLC36A4	NM_152313	exon9	c.A989G	p.H330R	.	.	290	10	271	1	T|0.949;C|0.051	93
SLC38A10	124565	bcgsc.ca	37	17	79255998	79255998	+	Silent	SNP	G	G	A	rs10871494	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLC38A10	NM_001037984	exon5	c.C492T	p.F164F	.	.	129	8	156	1	G|0.845;A|0.155	70
SLC45A1	50651	bcgsc.ca	37	1	8390384	8390384	+	Silent	SNP	G	G	C	rs56125713	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLC45A1	NM_001080397	exon4	c.G831C	p.L277L	.	.	103	6	96	1	G|0.867;C|0.133	494
SLC4A1AP	22950	bcgsc.ca	37	2	27887034	27887034	+	Missense_Mutation	SNP	C	C	A	rs9678851	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLC4A1AP	NM_018158	exon1	c.C415A	p.P139T	.	.	107	10	106	0	C|0.590;A|0.410	90
SLC52A3	113278	ucsc.edu;bcgsc.ca	37	20	746197	746197	+	Missense_Mutation	SNP	G	G	C	rs35655964	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_033409	exon2	c.C222G	p.I74M	.	.	75	8	78	0	G|0.589;C|0.411	.
SLC7A9	11136	bcgsc.ca	37	19	33355081	33355081	+	Silent	SNP	G	G	A	rs35170371	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLC7A9	NM_001243036	exon4	c.C399T	p.S133S	.	.	87	5	69	0	G|0.782;A|0.218	91
SLC8A3	6547	bcgsc.ca	37	14	70634546	70634546	+	Silent	SNP	C	C	T	rs7161524	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLC8A3	NM_183002	exon2	c.G594A	p.K198K	.	.	105	7	98	0	C|0.830;T|0.170	225
SLC9C1	285335	bcgsc.ca	37	3	111918215	111918215	+	Missense_Mutation	SNP	C	C	T	rs28516377	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_183061	exon20	c.G2476A	p.G826S	.	.	160	8	184	0	C|0.725;T|0.275	.
SLC9C1	285335	bcgsc.ca	37	3	111962851	111962851	+	Missense_Mutation	SNP	T	T	C	rs6768523	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_183061	exon11	c.A1270G	p.T424A	.	.	308	12	311	0	T|0.708;C|0.292	.
SLC9C1	285335	bcgsc.ca	37	3	111985107	111985107	+	Missense_Mutation	SNP	T	T	C	rs9872691	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_183061	exon8	c.A856G	p.I286V	.	.	758	24	679	0	T|0.705;C|0.295	.
SLC9C1	285335	bcgsc.ca	37	3	111996554	111996554	+	Missense_Mutation	SNP	T	T	C	rs9828502	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_183061	exon5	c.A472G	p.I158V	.	.	419	13	445	1	T|0.713;C|0.287	.
SLCO1B1	10599	bcgsc.ca	37	12	21329738	21329738	+	Missense_Mutation	SNP	A	A	G	rs2306283	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLCO1B1	NM_006446	exon5	c.A388G	p.N130D	.	.	513	22	520	3	A|0.422;G|0.578	97
SLCO1B1	10599	bcgsc.ca	37	12	21331549	21331549	+	Missense_Mutation	SNP	T	T	C	rs4149056	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLCO1B1	NM_006446	exon6	c.T521C	p.V174A	.	.	336	11	326	2	T|0.890;C|0.110	97
SLCO4A1	28231	bcgsc.ca	37	20	61288038	61288038	+	Missense_Mutation	SNP	G	G	A	rs1047099	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLCO4A1	NM_016354	exon2	c.G232A	p.V78I	.	.	56	5	37	0	A|0.172;C|0.010	91
SLCO4A1	28231	bcgsc.ca	37	20	61288355	61288355	+	Silent	SNP	G	G	T	rs3195701	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLCO4A1	NM_016354	exon2	c.G549T	p.G183G	.	.	56	5	38	0	G|0.820;T|0.180	91
SLCO6A1	133482	bcgsc.ca	37	5	101724448	101724448	+	Missense_Mutation	SNP	G	G	C	rs10055840	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLCO6A1	NM_173488	exon12	c.C1961G	p.T654R	.	.	436	16	470	1	G|0.778;C|0.222	96
SLIT2	9353	bcgsc.ca	37	4	20544184	20544184	+	Silent	SNP	C	C	T	rs7690492	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLIT2	NM_004787	exon21	c.C2211T	p.V737V	.	.	198	10	161	1	C|0.682;T|0.318	521
SLPI	6590	bcgsc.ca	37	20	43882256	43882256	+	Silent	SNP	A	A	G	rs144962719		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SLPI	NM_003064	exon2	c.T204C	p.C68C	.	.	127	7	132	1	A|1.000;G|0.000	515
SMC1B	27127	bcgsc.ca	37	22	45782903	45782903	+	Silent	SNP	T	T	C	rs6007010	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SMC1B	NM_148674	exon11	c.A1755G	p.L585L	.	.	151	8	147	0	T|0.518;C|0.482	229
SMC3	9126	bcgsc.ca	37	10	112349422	112349422	+	Silent	SNP	T	T	C	rs75323904	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SMC3	NM_005445	exon14	c.T1365C	p.Y455Y	.	.	544	18	568	0	T|0.942;C|0.058	92
SMC5	23137	bcgsc.ca	37	9	72897440	72897440	+	Missense_Mutation	SNP	T	T	C	rs1180117	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SMC5	NM_015110	exon7	c.T922C	p.C308R	.	.	548	24	522	3	T|0.778;C|0.222	229
SMOC1	64093	bcgsc.ca	37	14	70418881	70418881	+	Silent	SNP	G	G	A	rs3742909	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SMOC1	NM_001034852	exon2	c.G126A	p.Q42Q	.	.	91	7	92	0	G|0.784;A|0.216	92
SNAP91	9892	ucsc.edu;bcgsc.ca	37	6	84300997	84300997	+	Silent	SNP	A	A	G	rs2273363	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SNAP91	NM_001242792	exon21	c.T1947C	p.S649S	.	.	62	6	70	0	A|0.813;G|0.187	23
SNAPC4	6621	bcgsc.ca	37	9	139275294	139275294	+	Missense_Mutation	SNP	G	G	C	rs3812571	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SNAPC4	NM_003086	exon19	c.C2397G	p.H799Q	.	.	51	4	37	0	G|0.591;C|0.409	90
SNX5	27131	bcgsc.ca	37	20	17932210	17932210	+	Silent	SNP	C	C	T	rs2273448	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SNX5	NM_014426	exon6	c.G543A	p.E181E	.	.	570	18	556	2	C|0.749;T|0.251	289
SOCS7	30837	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	36508877	36508877	+	Silent	SNP	C	C	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SOCS7	NM_014598	exon1	c.C750T	p.D250D	.	.	34	14	42	0	.	227
SORBS1	10580	bcgsc.ca	37	10	97174269	97174269	+	Silent	SNP	C	C	T	rs11188316	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SORBS1	NM_001034955	exon7	c.G792A	p.T264T	.	.	48	4	53	0	C|0.952;T|0.048	155
SORCS3	22986	bcgsc.ca	37	10	106907440	106907440	+	Silent	SNP	C	C	T	rs791125	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SORCS3	NM_014978	exon9	c.C1368T	p.N456N	.	.	136	6	133	2	C|0.497;T|0.503	99
SORT1	6272	bcgsc.ca	37	1	109878903	109878903	+	Missense_Mutation	SNP	C	C	G	rs2228606	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SORT1	NM_002959	exon11	c.G1330C	p.E444Q	.	.	108	8	86	0	C|0.984;G|0.016	91
SORT1	6272	ucsc.edu;bcgsc.ca	37	1	109884775	109884775	+	Silent	SNP	T	T	G	rs2228604	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SORT1	NM_002959	exon9	c.A969C	p.T323T	.	.	75	8	95	0	T|0.284;G|0.716	91
SP140	11262	bcgsc.ca	37	2	231112645	231112645	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SP140	NM_007237	exon8	c.G757A	p.G253R	.	.	246	12	206	1	.	90
SPAG17	200162	bcgsc.ca	37	1	118644524	118644524	+	Missense_Mutation	SNP	T	T	A	rs17185492	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPAG17	NM_206996	exon5	c.A473T	p.E158V	.	.	107	6	73	1	T|0.860;A|0.140	158
SPATA22	84690	bcgsc.ca	37	17	3343534	3343534	+	Silent	SNP	C	C	T	rs9901726	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPATA22	NM_032598	exon9	c.G999A	p.P333P	.	.	393	12	435	2	C|0.943;T|0.057	90
SPATA31D1	389763	bcgsc.ca	37	9	84607758	84607758	+	Silent	SNP	T	T	A	rs10867826	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001001670	exon4	c.T2373A	p.T791T	.	.	436	30	443	1	T|0.426;A|0.574	.
SPDYE3	441272	ucsc.edu;bcgsc.ca	37	7	99917416	99917416	+	Silent	SNP	G	G	A	rs112622797	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPDYE3	NM_001004351	exon9	c.G1575A	p.P525P	.	.	67	8	66	0	G|0.905;A|0.095	22
SPEF2	79925	bcgsc.ca	37	5	35705844	35705844	+	Missense_Mutation	SNP	A	A	C	rs72738833	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPEF2	NM_024867	exon18	c.A2599C	p.K867Q	.	.	474	21	456	0	A|0.974;C|0.026	26
SPEN	23013	bcgsc.ca	37	1	16259434	16259434	+	Silent	SNP	C	C	T	rs138786955	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPEN	NM_015001	exon11	c.C6699T	p.F2233F	.	.	152	8	142	0	C|0.997;T|0.003	298
SPEN	23013	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	16259420	16259420	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPEN	NM_015001	exon11	c.G6685A	p.E2229K	.	.	168	54	152	0	.	298
SPIRE1	56907	ucsc.edu	37	18	12464950	12464950	+	Missense_Mutation	SNP	G	G	A	rs139795292		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPIRE1	NM_001128626	exon11	c.C1412T	p.T471M	.	.	42	5	37	0	G|1.000;A|0.000	90
SPNS3	201305	bcgsc.ca	37	17	4337412	4337412	+	Silent	SNP	C	C	G	rs3809853	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPNS3	NM_182538	exon1	c.C150G	p.V50V	.	.	106	7	94	0	C|0.584;G|0.416	153
SPP1	6696	bcgsc.ca	37	4	88902692	88902692	+	Silent	SNP	T	T	C	rs4754	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPP1	NM_001251830	exon7	c.T321C	p.D107D	.	.	141	7	121	0	T|0.713;C|0.287	555
SPRR1A	6698	hgsc.bcm.edu;bcgsc.ca;mdanderson.org	37	1	152957772	152957772	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPRR1A	NM_001199828	exon2	c.A66T	p.K22N	.	.	126	10	118	0	.	68
SPRR1B	6699	bcgsc.ca	37	1	153004848	153004848	+	Silent	SNP	T	T	C	rs3795381	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPRR1B	NM_003125	exon2	c.T27C	p.P9P	.	.	223	9	152	0	T|0.497;C|0.503	69
SPRR1B	6699	bcgsc.ca	37	1	153004853	153004853	+	Missense_Mutation	SNP	C	C	T	rs3795382	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPRR1B	NM_003125	exon2	c.C32T	p.T11I	.	.	219	8	147	1	C|0.497;T|0.503	69
SPRR4	163778	bcgsc.ca	37	1	152944594	152944594	+	Silent	SNP	C	C	T	rs3170863	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPRR4	NM_173080	exon2	c.C228T	p.S76S	.	.	189	8	145	0	C|0.355;T|0.645	68
SPTA1	6708	bcgsc.ca	37	1	158626378	158626378	+	Silent	SNP	C	C	T	rs857691	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SPTA1	NM_003126	exon20	c.G2874A	p.L958L	.	.	108	5	87	0	C|0.581;T|0.419	142
SRBD1	55133	bcgsc.ca	37	2	45640374	45640374	+	Missense_Mutation	SNP	C	C	A	rs3755073	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SRBD1	NM_018079	exon19	c.G2392T	p.V798F	.	.	119	9	120	0	C|0.818;A|0.182	90
SRCIN1	80725	ucsc.edu	37	17	36700163	36700163	+	Silent	SNP	C	C	T	rs35262222	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_025248	exon18	c.G3312A	p.P1104P	.	.	40	4	28	0	C|0.926;T|0.074	.
SRFBP1	153443	bcgsc.ca	37	5	121355961	121355961	+	Silent	SNP	G	G	A	rs55708726	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SRFBP1	NM_152546	exon6	c.G531A	p.A177A	.	.	176	7	158	0	G|0.890;A|0.110	90
SRRM5	100170229	bcgsc.ca	37	19	44116430	44116430	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001145641	exon1	c.C157T	p.R53C	.	.	170	9	188	1	.	.
SSMEM1	0	bcgsc.ca	37	7	129855837	129855837	+	Missense_Mutation	SNP	C	C	T	rs4728190	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_145268	exon3	c.C262T	p.R88W	.	.	228	9	204	1	C|0.758;T|0.242	.
ST8SIA3	51046	bcgsc.ca	37	18	55027334	55027334	+	Silent	SNP	G	G	T	rs1153626	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ST8SIA3	NM_015879	exon4	c.G969T	p.P323P	.	.	204	8	203	1	T|0.211;G|0.577;C|0.141;A|0.071	136
STAG3	10734	ucsc.edu	37	7	99778285	99778285	+	Missense_Mutation	SNP	A	A	C	rs2272343	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	STAG3	NM_012447	exon2	c.A106C	p.T36P	.	.	77	8	60	1	A|0.837;C|0.163	543
STAG3L3	442578	bcgsc.ca	37	7	72469999	72469999	+	RNA	SNP	G	G	T	rs3735506	bycluster;byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	1594	60	1561	6	G|0.500;T|0.500	.
STAT1	6772	bcgsc.ca	37	2	191874667	191874667	+	Silent	SNP	A	A	G	rs2066802	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	STAT1	NM_007315	exon3	c.T63C	p.L21L	.	.	169	6	155	0	A|0.910;G|0.090	1335
STEAP1B	256227	bcgsc.ca	37	7	22478207	22478207	+	Silent	SNP	G	G	T	rs2528843	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001164460	exon5	c.C930A	p.A310A	.	.	111	6	94	0	G|0.487;T|0.513	.
STEAP1B	256227	bcgsc.ca	37	7	22534456	22534456	+	Missense_Mutation	SNP	T	T	C	rs7787814	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001164460	exon2	c.A19G	p.I7V	.	.	440	17	432	0	T|0.939;C|0.061	.
STK32A	202374	bcgsc.ca	37	5	146619206	146619206	+	Silent	SNP	G	G	C	rs4705132	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	STK32A	NM_145001	exon2	c.G9C	p.A3A	.	.	326	10	299	1	G|0.476;C|0.524	521
STK36	27148	bcgsc.ca	37	2	219562675	219562675	+	Missense_Mutation	SNP	G	G	A	rs1863704	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	STK36	NM_015690	exon25	c.G3008A	p.G1003D	.	.	57	5	60	0	G|0.767;A|0.233	1004
STON1	11037	bcgsc.ca	37	2	48822381	48822381	+	Silent	SNP	G	G	A	rs2140551	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	STON1	NM_001198595	exon5	c.G2148A	p.K716K	.	.	122	6	134	2	G|0.518;A|0.482	91
STON1-GTF2A1L	286749	ucsc.edu;bcgsc.ca	37	2	48873978	48873978	+	Missense_Mutation	SNP	A	A	G	rs10432667	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	STON1-GTF2A1L	NM_001198593	exon8	c.A2887G	p.N963D	.	.	139	17	151	1	A|0.779;G|0.221	27
STPG2	285555	bcgsc.ca	37	4	98633911	98633911	+	Missense_Mutation	SNP	A	A	G	rs17026871	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_174952	exon10	c.T1259C	p.V420A	.	.	398	16	415	1	A|0.955;G|0.045	.
STYXL1	51657	bcgsc.ca	37	7	75659815	75659815	+	Silent	SNP	T	T	C	rs1044483	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	STYXL1	NM_016086	exon2	c.A27G	p.P9P	.	.	188	9	205	0	T|0.322;G|0.122;C|0.426;A|0.131	278
SUN5	140732	bcgsc.ca	37	20	31590439	31590439	+	Silent	SNP	G	G	A	rs34427973	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SUN5	NM_080675	exon3	c.C165T	p.N55N	.	.	117	7	105	0	G|0.993;A|0.007	91
SVEP1	79987	bcgsc.ca	37	9	113208250	113208250	+	Missense_Mutation	SNP	T	T	G	rs7863519	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SVEP1	NM_153366	exon26	c.A4330C	p.M1444L	.	.	138	7	135	0	T|0.684;G|0.316	75
SVIL	6840	bcgsc.ca	37	10	29822159	29822159	+	Silent	SNP	T	T	C	rs7076239	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SVIL	NM_021738	exon8	c.A1137G	p.L379L	.	.	71	4	107	1	T|0.634;C|0.366	96
SYDE2	84144	bcgsc.ca	37	1	85624661	85624661	+	Silent	SNP	A	A	G	rs74980814	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SYDE2	NM_032184	exon7	c.T3357C	p.D1119D	.	.	202	6	211	1	A|0.951;G|0.049	70
SYDE2	84144	bcgsc.ca	37	1	85634892	85634892	+	Silent	SNP	A	A	G	rs61752463	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SYDE2	NM_032184	exon5	c.T2688C	p.Y896Y	.	.	262	11	230	1	A|0.952;G|0.048	70
SYDE2	84144	bcgsc.ca	37	1	85647868	85647868	+	Silent	SNP	T	T	C	rs17122989	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SYDE2	NM_032184	exon3	c.A2457G	p.Q819Q	.	.	336	16	364	0	T|0.930;C|0.070	70
SYT10	341359	bcgsc.ca	37	12	33535289	33535289	+	Silent	SNP	G	G	A	rs10844571	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SYT10	NM_198992	exon5	c.C1365T	p.Y455Y	.	.	78	6	89	0	G|0.800;A|0.200	92
SYT6	148281	bcgsc.ca	37	1	114680540	114680540	+	Silent	SNP	C	C	T	rs17032441	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	SYT6	NM_205848	exon3	c.G393A	p.S131S	.	.	56	5	44	0	C|0.783;N|0.001	94
T	6862	ucsc.edu;bcgsc.ca	37	6	166579270	166579270	+	Missense_Mutation	SNP	C	C	T	rs2305089	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	T	NM_003181	exon4	c.G530A	p.G177D	.	.	52	7	68	0	C|0.583;T|0.417	516
TAAR1	134864	bcgsc.ca	37	6	132966207	132966207	+	Silent	SNP	T	T	C	rs8192621	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAAR1	NM_138327	exon1	c.A936G	p.R312R	.	.	251	14	348	1	T|0.971;C|0.029	90
TAAR2	9287	bcgsc.ca	37	6	132939071	132939071	+	Silent	SNP	G	G	A	rs8192647	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAAR2	NM_001033080	exon2	c.C274T	p.L92L	.	.	119	6	161	1	G|0.979;A|0.021	91
TACR1	6869	bcgsc.ca	37	2	75425728	75425728	+	Silent	SNP	A	A	G	rs6715729	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TACR1	NM_001058	exon1	c.T333C	p.F111F	.	.	113	5	111	1	A|0.425;G|0.575	523
TANC2	26115	bcgsc.ca	37	17	61483598	61483598	+	Silent	SNP	C	C	T	rs138962211	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TANC2	NM_025185	exon19	c.C3327T	p.S1109S	.	.	68	5	74	0	C|0.998;T|0.002	24
TAS1R2	80834	bcgsc.ca	37	1	19166294	19166294	+	Silent	SNP	G	G	A	rs12033832	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS1R2	NM_152232	exon6	c.C2319T	p.S773S	.	.	132	8	125	0	G|0.691;A|0.309	93
TAS2R19	259294	bcgsc.ca	37	12	11174498	11174498	+	Missense_Mutation	SNP	T	T	C	rs115299813	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R19	NM_176888	exon1	c.A673G	p.I225V	.	.	170	10	183	1	T|0.986;C|0.014	91
TAS2R20	259295	bcgsc.ca	37	12	11149720	11149720	+	Missense_Mutation	SNP	A	A	G	rs10845280	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R20	NM_176889	exon1	c.T755C	p.F252S	.	.	261	24	263	0	A|0.670;G|0.329	90
TAS2R20	259295	bcgsc.ca	37	12	11149769	11149769	+	Missense_Mutation	SNP	T	T	C	rs10845281	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R20	NM_176889	exon1	c.A706G	p.I236V	.	.	207	17	245	0	T|0.675;C|0.325	90
TAS2R20	259295	bcgsc.ca	37	12	11150033	11150033	+	Missense_Mutation	SNP	G	G	T	rs12226919	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R20	NM_176889	exon1	c.C442A	p.H148N	.	.	144	13	151	0	G|0.664;T|0.336	90
TAS2R20	259295	bcgsc.ca	37	12	11150214	11150214	+	Silent	SNP	G	G	A	rs11054142	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R20	NM_176889	exon1	c.C261T	p.A87A	.	.	235	11	245	0	G|0.672;A|0.328	90
TAS2R20	259295	bcgsc.ca	37	12	11150319	11150319	+	Silent	SNP	T	T	C	rs11054143	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R20	NM_176889	exon1	c.A156G	p.A52A	.	.	310	20	246	2	T|0.678;C|0.322	90
TAS2R20	259295	ucsc.edu;bcgsc.ca	37	12	11150046	11150046	+	Missense_Mutation	SNP	G	G	T	rs12226920	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R20	NM_176889	exon1	c.C429A	p.H143Q	.	.	142	13	142	0	G|0.671;T|0.329	90
TAS2R20	259295	ucsc.edu;bcgsc.ca;mdanderson.org	37	12	11149711	11149711	+	Missense_Mutation	SNP	C	C	A	rs10845279	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R20	NM_176889	exon1	c.G764T	p.R255L	.	.	265	26	264	0	C|0.671;A|0.329	90
TAS2R30	259293	bcgsc.ca	37	12	11286379	11286379	+	Silent	SNP	T	T	C	rs112849631	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001097643	exon1	c.A465G	p.T155T	.	.	245	12	217	0	T|0.985;C|0.015	.
TAS2R42	353164	bcgsc.ca	37	12	11338750	11338750	+	Missense_Mutation	SNP	T	T	C	rs1451772	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R42	NM_181429	exon1	c.A794G	p.Y265C	.	.	212	8	205	1	C|0.238;N|0.001	69
TAS2R43	259289	bcgsc.ca	37	12	11244194	11244194	+	Missense_Mutation	SNP	T	T	C	rs71443637	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R43	NM_176884	exon1	c.A635G	p.H212R	.	.	205	13	200	1	T|0.599;C|0.401	1
TAS2R43	259289	bcgsc.ca	37	12	11244230	11244230	+	Missense_Mutation	SNP	C	C	A	rs144622176		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R43	NM_176884	exon1	c.G599T	p.C200F	.	.	237	11	196	0	C|0.984;A|0.016	1
TAS2R43	259289	bcgsc.ca	37	12	11244319	11244319	+	Missense_Mutation	SNP	A	A	C	rs116243872	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R43	NM_176884	exon1	c.T510G	p.S170R	.	.	219	12	236	1	A|0.986;C|0.014	1
TAS2R43	259289	bcgsc.ca	37	12	11244369	11244369	+	Missense_Mutation	SNP	G	G	C	rs200586631		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R43	NM_176884	exon1	c.C460G	p.R154G	.	.	194	10	188	0	.	1
TAS2R43	259289	bcgsc.ca	37	12	11244559	11244559	+	Silent	SNP	C	C	T	rs144614950	by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R43	NM_176884	exon1	c.G270A	p.V90V	.	.	183	14	205	1	C|0.803;T|0.197	1
TAS2R43	259289	bcgsc.ca	37	12	11244679	11244696	+	In_Frame_Del	DEL	AGCAGTGAGAATTTGGTC	AGCAGTGAGAATTTGGTC	-	rs200922417		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	AGCAGTGAGAATTTGGTC	AGCAGTGAGAATTTGGTC	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R43	NM_176884	exon1	c.133_150del	p.45_50del	.	.	219	5	213	0	-|0.008;|0.000	1
TAS2R43	259289	bcgsc.ca	37	12	11244725	11244725	+	Missense_Mutation	SNP	C	C	G	rs68157013	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R43	NM_176884	exon1	c.G104C	p.W35S	.	.	207	12	203	2	C|0.597;G|0.403	1
TAS2R43	259289	ucsc.edu;bcgsc.ca	37	12	11244166	11244166	+	Silent	SNP	G	G	C	rs35720106		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAS2R43	NM_176884	exon1	c.C663G	p.T221T	.	.	219	25	208	0	G|0.384;C|0.616	1
TAT	6898	bcgsc.ca	37	16	71610276	71610276	+	Missense_Mutation	SNP	G	G	A	rs74344827	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TAT	NM_000353	exon2	c.C43T	p.P15S	.	.	56	4	77	0	G|0.838;A|0.162	92
TATDN2	9797	ucsc.edu;bcgsc.ca	37	3	10302172	10302172	+	Missense_Mutation	SNP	G	G	A	rs394558	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TATDN2	NM_014760	exon3	c.G766A	p.V256I	.	.	106	10	108	1	G|0.518;A|0.482	92
TBK1	29110	bcgsc.ca	37	12	64882317	64882317	+	Missense_Mutation	SNP	T	T	C	rs35635889	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TBK1	NM_013254	exon12	c.T1391C	p.V464A	.	.	425	22	520	2	T|0.988;C|0.012	1459
TCEANC	170082	bcgsc.ca	37	X	13681638	13681638	+	Silent	SNP	C	C	T	rs5935649	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TCEANC	NM_152634	exon4	c.C1101T	p.N367N	.	.	131	7	141	1	C|0.470;T|0.530	41
TCF20	6942	bcgsc.ca	37	22	42606257	42606257	+	Silent	SNP	C	C	T	rs2070116	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TCF20	NM_181492	exon1	c.G5055A	p.S1685S	.	.	77	6	93	0	C|0.788;T|0.212	95
TCF7L1	83439	hgsc.bcm.edu	37	2	85360829	85360831	+	In_Frame_Del	DEL	GGC	GGC	-	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	GGC	GGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TCF7L1	NM_031283	exon1	c.22_24del	p.8_8del	.	.	10	10	0	0	.	585
TCHH	7062	ucsc.edu	37	1	152084213	152084213	+	Missense_Mutation	SNP	C	C	G	rs199978168	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TCHH	NM_007113	exon3	c.G1480C	p.E494Q	.	.	44	7	20	0	C|0.978;G|0.023	72
TCHP	84260	bcgsc.ca	37	12	110352361	110352361	+	Missense_Mutation	SNP	G	G	A	rs16940680	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TCHP	NM_001143852	exon11	c.G1249A	p.E417K	.	.	111	5	130	0	G|0.890;A|0.110	91
TCP10L2	401285	bcgsc.ca	37	6	167590541	167590541	+	Silent	SNP	G	G	A	rs67250502	bycluster	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001145121	exon4	c.G417A	p.T139T	.	.	346	17	411	0	A|1.000;|0.000	.
TCTE1	202500	bcgsc.ca	37	6	44255368	44255368	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TCTE1	NM_182539	exon2	c.T195G	p.I65M	.	.	213	10	183	0	.	94
TCTEX1D1	200132	bcgsc.ca	37	1	67243024	67243024	+	Missense_Mutation	SNP	C	C	A	rs2133173	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TCTEX1D1	NM_152665	exon5	c.C427A	p.L143I	.	.	154	10	167	0	C|0.762;N|0.000	90
TDGF1	6997	bcgsc.ca	37	3	46621450	46621450	+	Silent	SNP	G	G	T	rs13075468	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TDGF1	NM_003212	exon5	c.G348T	p.G116G	.	.	114	6	114	0	G|0.976;T|0.024	90
TECPR2	9895	bcgsc.ca	37	14	102900768	102900768	+	Silent	SNP	A	A	G	rs17791240	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TECPR2	NM_001172631	exon9	c.A1614G	p.P538P	.	.	168	6	157	0	A|0.958;G|0.042	92
TECTB	6975	bcgsc.ca	37	10	114053546	114053546	+	Silent	SNP	C	C	G	rs726009	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TECTB	NM_058222	exon5	c.C534G	p.S178S	.	.	189	15	157	1	C|0.418;G|0.582	90
TEKT1	83659	bcgsc.ca	37	17	6733672	6733672	+	Silent	SNP	T	T	C	rs8078571	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TEKT1	NM_053285	exon2	c.A24G	p.P8P	.	.	207	11	228	1	T|0.415;C|0.585	92
TENM3	55714	bcgsc.ca	37	4	183664522	183664522	+	Silent	SNP	T	T	C	rs7654255	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001080477	exon18	c.T3579C	p.Y1193Y	.	.	184	14	161	0	T|0.751;C|0.249	.
TENM4	26011	bcgsc.ca	37	11	78482113	78482113	+	Silent	SNP	G	G	A	rs34863597	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001098816	exon18	c.C2463T	p.C821C	.	.	95	7	54	0	G|0.952;A|0.048	.
TENM4	26011	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	78482152	78482152	+	Silent	SNP	G	G	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001098816	exon18	c.C2424A	p.G808G	.	.	103	23	72	0	.	.
TEX11	56159	bcgsc.ca	37	X	69772000	69772000	+	Silent	SNP	A	A	G	rs16991177	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TEX11	NM_001003811	exon29	c.T2541C	p.D847D	.	.	164	12	159	0	A|0.895;0|0.017	178
TEX11	56159	bcgsc.ca	37	X	69890301	69890301	+	Missense_Mutation	SNP	C	C	T	rs4844247	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TEX11	NM_001003811	exon17	c.G1351A	p.E451K	.	.	204	12	220	0	C|0.910;T|0.090	178
TEX26	122046	bcgsc.ca	37	13	31531009	31531009	+	Splice_Site	SNP	G	G	A	rs12857479	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_152325	exon4	c.313-1G>A	.	.	.	123	6	119	0	G|0.732;A|0.268	.
TEX29	121793	bcgsc.ca	37	13	111992247	111992247	+	Silent	SNP	C	C	A	rs35344026	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_152324	exon4	c.C207A	p.I69I	.	.	49	4	66	0	C|0.939;A|0.061	.
TEX35	84066	bcgsc.ca	37	1	178489978	178489978	+	Missense_Mutation	SNP	T	T	G	rs3813636	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001170722	exon7	c.T536G	p.L179R	.	.	206	9	143	0	C|0.001;G|0.385;T|0.614	.
TGM4	7047	bcgsc.ca	37	3	44943069	44943069	+	Silent	SNP	C	C	T	rs1995640	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TGM4	NM_003241	exon7	c.C711T	p.Y237Y	.	.	125	7	132	0	C|0.521;T|0.479	91
THBS2	7058	ucsc.edu;bcgsc.ca	37	6	169622490	169622490	+	Silent	SNP	G	G	A	rs9505895	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	THBS2	NM_003247	exon20	c.C3075T	p.A1025A	.	.	72	10	112	0	G|0.783;A|0.217	95
THBS2	7058	ucsc.edu;bcgsc.ca	37	6	169632219	169632219	+	Silent	SNP	G	G	A	rs35935937	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	THBS2	NM_003247	exon14	c.C2007T	p.G669G	.	.	44	7	60	0	T|0.055;G|0.623;C|0.216;A|0.107	95
THBS2	7058	ucsc.edu;bcgsc.ca	37	6	169637763	169637763	+	Silent	SNP	G	G	C	rs9766671	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	THBS2	NM_003247	exon9	c.C1257G	p.S419S	.	.	36	5	47	0	G|0.786;C|0.214	95
THBS2	7058	ucsc.edu;bcgsc.ca	37	6	169648767	169648767	+	Silent	SNP	G	G	A	rs12178180	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	THBS2	NM_003247	exon4	c.C354T	p.N118N	.	.	44	6	79	0	A|0.184;C|0.000;G|0.816	95
THNSL1	79896	bcgsc.ca	37	10	25313818	25313818	+	Silent	SNP	C	C	T	rs7086282	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	THNSL1	NM_024838	exon3	c.C1666T	p.L556L	.	.	91	7	100	1	C|0.530;T|0.470	91
THSD1	55901	bcgsc.ca	37	13	52951802	52951802	+	Missense_Mutation	SNP	T	T	C	rs9536041	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	THSD1	NM_018676	exon5	c.A2303G	p.K768R	.	.	154	6	154	0	T|0.965;C|0.035	94
THUMPD3	25917	bcgsc.ca	37	3	9406836	9406836	+	Silent	SNP	T	T	C	rs1054975	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	THUMPD3	NM_001114092	exon2	c.T84C	p.S28S	.	.	149	7	153	1	T|0.410;C|0.590	227
TIMP3	7078	bcgsc.ca	37	22	33253280	33253280	+	Silent	SNP	T	T	C	rs9862	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TIMP3	NM_000362	exon3	c.T249C	p.H83H	.	.	96	5	114	1	T|0.372;C|0.628	226
TINAG	27283	bcgsc.ca	37	6	54173413	54173413	+	Missense_Mutation	SNP	A	A	G	rs2297980	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TINAG	NM_014464	exon1	c.A65G	p.Q22R	.	.	302	23	206	3	A|0.911;G|0.089	93
TINAG	27283	bcgsc.ca	37	6	54219326	54219326	+	Missense_Mutation	SNP	G	G	A	rs3195579	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TINAG	NM_014464	exon9	c.G1142A	p.R381H	.	.	310	9	231	0	A|0.135;C|0.000;G|0.865	93
TM4SF19	116211	bcgsc.ca	37	3	196054439	196054439	+	Missense_Mutation	SNP	T	T	G	rs6785339	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TM4SF19	NM_001204897	exon2	c.A23C	p.Q8P	.	.	65	6	56	0	T|0.414;G|0.586	68
TM6SF1	53346	bcgsc.ca	37	15	83781631	83781631	+	Missense_Mutation	SNP	C	C	T	rs1989	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TM6SF1	NM_001144903	exon2	c.C175T	p.P59S	.	.	117	7	139	0	C|0.934;T|0.066	91
TMC1	117531	bcgsc.ca	37	9	75315438	75315438	+	Missense_Mutation	SNP	G	G	A	rs1796993	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMC1	NM_138691	exon8	c.G241A	p.E81K	.	.	181	8	165	0	G|0.761;A|0.239	91
TMC4	147798	bcgsc.ca	37	19	54664752	54664752	+	Silent	SNP	A	A	C	rs36656	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMC4	NM_001145303	exon13	c.T1854G	p.L618L	.	.	90	6	71	0	A|0.558;C|0.442	91
TMCO3	55002	bcgsc.ca	37	13	114152755	114152755	+	Silent	SNP	C	C	T	rs2260218	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMCO3	NM_017905	exon3	c.C543T	p.D181D	.	.	111	5	121	0	C|0.795;T|0.205	90
TMCO3	55002	bcgsc.ca	37	13	114154419	114154419	+	Silent	SNP	G	G	A	rs2260159	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMCO3	NM_017905	exon4	c.G771A	p.K257K	.	.	110	6	129	0	G|0.796;A|0.204	90
TMCO4	255104	bcgsc.ca	37	1	20009737	20009737	+	Silent	SNP	G	G	A	rs10917514	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMCO4	NM_181719	exon16	c.C1701T	p.S567S	.	.	176	6	163	0	G|0.888;A|0.112	68
TMEM106B	54664	bcgsc.ca	37	7	12269417	12269417	+	Missense_Mutation	SNP	C	C	G	rs3173615	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMEM106B	NM_001134232	exon5	c.C554G	p.T185S	.	.	753	22	743	4	C|0.481;G|0.519	90
TMEM106C	79022	bcgsc.ca	37	12	48359676	48359676	+	Missense_Mutation	SNP	G	G	T	rs35000511	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMEM106C	NM_001143843	exon4	c.G307T	p.V103F	.	.	152	8	141	1	G|0.957;T|0.043	90
TMEM175	84286	ucsc.edu;bcgsc.ca	37	4	944210	944210	+	Missense_Mutation	SNP	A	A	C	rs34884217	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMEM175	NM_032326	exon4	c.A194C	p.Q65P	.	.	131	15	124	0	A|0.930;C|0.070	90
TMEM184A	202915	bcgsc.ca	37	7	1587439	1587439	+	Silent	SNP	G	G	A	rs187596987		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMEM184A	NM_001097620	exon8	c.C951T	p.S317S	.	.	108	10	140	0	G|0.998;A|0.002	90
TMEM2	23670	bcgsc.ca	37	9	74344821	74344821	+	Silent	SNP	T	T	C	rs25693	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMEM2	NM_013390	exon10	c.A1989G	p.S663S	.	.	329	13	289	0	T|0.937;C|0.063	92
TMEM240	339453	bcgsc.ca	37	1	1471126	1471126	+	Silent	SNP	G	G	A	rs114114317	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001114748	exon3	c.C216T	p.D72D	.	.	99	5	97	0	G|0.994;A|0.006	.
TMEM52	339456	bcgsc.ca	37	1	1849744	1849744	+	Silent	SNP	G	G	A	rs1884455	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMEM52	NM_178545	exon4	c.C297T	p.D99D	.	.	94	5	88	0	G|0.867;A|0.133	68
TMEM59L	25789	bcgsc.ca	37	19	18726856	18726856	+	Silent	SNP	T	T	C	rs709679	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMEM59L	NM_012109	exon4	c.T480C	p.L160L	.	.	111	7	101	0	T|0.504;C|0.496	94
TMEM88B	643965	bcgsc.ca	37	1	1361633	1361633	+	Silent	SNP	G	G	A	rs12022947	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001146685	exon1	c.G126A	p.S42S	.	.	60	4	47	0	G|0.634;A|0.366	.
TMIGD2	126259	bcgsc.ca	37	19	4294807	4294807	+	Missense_Mutation	SNP	G	G	A	rs78320454	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMIGD2	NM_144615	exon3	c.C413T	p.P138L	.	.	64	4	41	0	G|0.889;A|0.111	90
TMPRSS11A	339967	bcgsc.ca	37	4	68810246	68810246	+	Silent	SNP	G	G	A	rs1370840	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMPRSS11A	NM_001114387	exon3	c.C243T	p.T81T	.	.	172	6	184	0	G|0.709;A|0.291	69
TMPRSS11E	28983	bcgsc.ca	37	4	69337325	69337325	+	Missense_Mutation	SNP	C	C	G	rs2603188	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMPRSS11E	NM_014058	exon5	c.C474G	p.H158Q	.	.	859	23	829	2	C|0.617;G|0.383	70
TMPRSS6	164656	bcgsc.ca	37	22	37466565	37466565	+	Silent	SNP	G	G	A	rs145814440	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMPRSS6	NM_153609	exon15	c.C1827T	p.D609D	.	.	116	6	113	0	G|0.992;A|0.008	292
TMTC4	84899	bcgsc.ca	37	13	101287340	101287340	+	Missense_Mutation	SNP	C	C	T	rs946837	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TMTC4	NM_032813	exon11	c.G1312A	p.V438I	.	.	103	11	109	0	C|0.645;N|0.001	155
TNIP1	10318	bcgsc.ca	37	5	150441713	150441713	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TNIP1	NM_001252385	exon4	c.C332A	p.A111E	.	.	84	5	76	0	.	91
TNR	7143	bcgsc.ca	37	1	175348723	175348723	+	Missense_Mutation	SNP	C	C	T	rs859427	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TNR	NM_003285	exon9	c.G1928A	p.R643K	.	.	109	5	71	0	C|0.319;T|0.681	324
TNR	7143	bcgsc.ca	37	1	175375469	175375469	+	Missense_Mutation	SNP	C	C	A	rs2239819	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TNR	NM_003285	exon3	c.G382T	p.A128S	.	.	168	11	124	0	C|0.755;N|0.000	324
TOPORS	10210	bcgsc.ca	37	9	32542204	32542204	+	Silent	SNP	A	A	G	rs10971019	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TOPORS	NM_005802	exon3	c.T2319C	p.S773S	.	.	190	14	168	0	A|0.836;G|0.164	230
TP53	7157	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	7579472	7579472	+	Missense_Mutation	SNP	G	G	C	rs1042522	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	TP53,sinonasal_and_nasal_cavity,lymphoid_neoplasm,-1	TP53	NM_000546	exon4	c.C215G	p.P72R	.	.	81	11	74	0	G|0.449;C|0.551	70225
TPR	7175	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	186310266	186310266	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TPR	NM_003292	exon29	c.3914delT	p.L1305fs	.	.	207	50	148	0	.	228
TRAF3IP3	80342	bcgsc.ca	37	1	209933540	209933540	+	Silent	SNP	A	A	G	rs2076150	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TRAF3IP3	NM_025228	exon3	c.A156G	p.Q52Q	.	.	172	7	118	0	A|0.652;C|0.000;G|0.348	291
TRIB3	57761	bcgsc.ca	37	20	377226	377226	+	Silent	SNP	C	C	T	rs6115830	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TRIB3	NM_021158	exon4	c.C969T	p.A323A	.	.	71	7	59	0	C|0.572;T|0.428	359
TRIM25	7706	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	54991332	54991332	+	Silent	SNP	G	G	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TRIM25	NM_005082	exon1	c.C18A	p.P6P	.	.	39	14	33	0	.	289
TRIM50	135892	bcgsc.ca	37	7	72738561	72738561	+	Silent	SNP	G	G	T	rs61741334	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TRIM50	NM_178125	exon2	c.C225A	p.I75I	.	.	274	10	226	1	G|0.978;T|0.022	227
TRIM56	81844	bcgsc.ca	37	7	100731829	100731829	+	Silent	SNP	T	T	C	rs6948536	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TRIM56	NM_030961	exon3	c.T1236C	p.A412A	.	.	49	4	43	0	T|0.261;C|0.739	226
TRIM5	85363	bcgsc.ca	37	11	5701079	5701079	+	Missense_Mutation	SNP	C	C	T	rs56348930	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TRIM5	NM_033092	exon2	c.G329A	p.G110E	.	.	90	5	80	0	C|0.992;T|0.008	227
TRIM77	390231	bcgsc.ca	37	11	89447375	89447375	+	Missense_Mutation	SNP	C	C	T	rs17221124	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001146162	exon3	c.C523T	p.R175W	.	.	248	9	151	1	C|0.957;T|0.043	.
TRIM9	114088	bcgsc.ca	37	14	51446216	51446216	+	Missense_Mutation	SNP	T	T	G	rs2275462	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TRIM9	NM_015163	exon9	c.A1959C	p.L653F	.	.	155	13	147	0	T|0.451;G|0.549	227
TRIP11	9321	bcgsc.ca	37	14	92441066	92441066	+	Missense_Mutation	SNP	C	C	T	rs1051340	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TRIP11	NM_004239	exon19	c.G5479A	p.G1827S	.	.	364	17	377	1	C|0.709;T|0.291	1400
TRMT6	51605	bcgsc.ca	37	20	5924828	5924828	+	Silent	SNP	A	A	G	rs35861347	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TRMT6	NM_015939	exon4	c.T438C	p.Y146Y	.	.	371	18	336	0	A|0.958;G|0.042	69
TRPM6	140803	bcgsc.ca	37	9	77376647	77376647	+	Missense_Mutation	SNP	T	T	C	rs2274924	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TRPM6	NM_017662	exon27	c.A4750G	p.K1584E	.	.	123	6	98	1	T|0.756;C|0.244	335
TSNAXIP1	55815	bcgsc.ca	37	16	67855107	67855107	+	Silent	SNP	C	C	T	rs62636658	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TSNAXIP1	NM_018430	exon4	c.C204T	p.S68S	.	.	76	5	96	1	C|0.975;T|0.025	90
TSNAXIP1	55815	bcgsc.ca	37	16	67860637	67860637	+	Missense_Mutation	SNP	C	C	T	rs62620177	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TSNAXIP1	NM_018430	exon12	c.C1282T	p.R428C	.	.	125	6	119	0	C|0.970;T|0.030	90
TSPAN11	441631	bcgsc.ca	37	12	31106941	31106941	+	Missense_Mutation	SNP	A	A	C	rs80046313	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TSPAN11	NM_001080509	exon2	c.A16C	p.T6P	.	.	73	5	50	0	A|0.986;C|0.014	68
TSPAN2	10100	bcgsc.ca	37	1	115601528	115601528	+	Silent	SNP	C	C	G	rs3738702	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TSPAN2	NM_005725	exon5	c.G420C	p.G140G	.	.	98	6	104	1	C|0.691;G|0.309	226
TSSC4	10078	bcgsc.ca	37	11	2424541	2424541	+	Missense_Mutation	SNP	C	C	G	rs2234279	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TSSC4	NM_005706	exon2	c.C678G	p.H226Q	.	.	102	6	99	0	C|0.883;G|0.117	90
TTC13	79573	bcgsc.ca	37	1	231057247	231057247	+	Silent	SNP	A	A	T	rs2275333	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TTC13	NM_024525	exon16	c.T1818A	p.G606G	.	.	762	26	551	3	A|0.818;T|0.182	92
TTC27	55622	bcgsc.ca	37	2	32983480	32983480	+	Missense_Mutation	SNP	G	G	A	rs2273664	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TTC27	NM_017735	exon13	c.G1574A	p.R525H	.	.	113	7	123	1	G|0.933;A|0.067	90
TTC29	83894	bcgsc.ca	37	4	147788709	147788709	+	Missense_Mutation	SNP	C	C	T	rs10013280	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TTC29	NM_031956	exon8	c.G826A	p.A276T	.	.	449	14	442	0	C|0.648;T|0.352	90
TTLL4	9654	bcgsc.ca	37	2	219602499	219602499	+	Missense_Mutation	SNP	G	G	C	rs3731877	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TTLL4	NM_014640	exon3	c.G100C	p.E34Q	.	.	147	10	107	1	G|0.525;C|0.475	93
TTLL4	9654	ucsc.edu;bcgsc.ca	37	2	219602819	219602819	+	Silent	SNP	G	G	A	rs3731876	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TTLL4	NM_014640	exon3	c.G420A	p.P140P	.	.	51	7	56	0	G|0.459;A|0.541	93
TTLL6	284076	bcgsc.ca	37	17	46878625	46878625	+	Silent	SNP	A	A	G	rs17634167	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TTLL6	NM_001130918	exon5	c.T603C	p.L201L	.	.	117	9	95	0	A|0.923;G|0.077	90
TTN	7273	bcgsc.ca	37	2	179438727	179438727	+	Silent	SNP	A	A	G	rs56169243	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TTN	NM_001267550	exon326	c.T72132C	p.G24044G	.	.	119	6	124	0	A|0.997;G|0.003	636
TTN	7273	hgsc.bcm.edu	37	2	179546449	179546449	+	Silent	SNP	G	G	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TTN	NM_001267550	exon136	c.C33111A	p.I11037I	.	.	121	5	125	0	.	636
TUBA3C	7278	bcgsc.ca	37	13	19751694	19751694	+	Silent	SNP	A	A	G	rs9507567	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TUBA3C	NM_006001	exon4	c.T429C	p.G143G	.	.	237	10	232	0	A|0.959;G|0.041	95
TULP1	7287	bcgsc.ca	37	6	35479574	35479574	+	Missense_Mutation	SNP	G	G	C	rs7764472	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TULP1	NM_003322	exon4	c.C200G	p.T67R	.	.	123	7	92	1	G|0.133;C|0.867	92
TUT1	64852	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	62343122	62343122	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TUT1	NM_022830	exon9	c.A2183G	p.E728G	.	.	77	33	72	0	.	91
TXLNG	55787	bcgsc.ca	37	X	16859628	16859628	+	Silent	SNP	G	G	A	rs5924530	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TXLNG	NM_018360	exon10	c.G1326A	p.Q442Q	.	.	191	8	193	0	0|0.012;A|0.602	130
TXNRD1	7296	bcgsc.ca	37	12	104709559	104709559	+	Silent	SNP	C	C	T	rs4964287	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TXNRD1	.	.	.	.	.	.	157	6	144	0	C|0.671;N|0.000	90
TXNRD2	10587	ucsc.edu;bcgsc.ca	37	22	19907099	19907099	+	Missense_Mutation	SNP	C	C	A	rs5748469	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TXNRD2	.	.	.	.	.	.	40	6	38	0	C|0.537;A|0.463	92
TXNRD2	10587	ucsc.edu;bcgsc.ca	37	22	19907118	19907118	+	Silent	SNP	G	G	A	rs5748470	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TXNRD2	.	.	.	.	.	.	34	6	33	0	G|0.418;A|0.582	92
TYRO3	7301	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	15	41860482	41860482	+	Silent	SNP	A	A	G	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TYRO3	NM_006293	exon8	c.A1029G	p.E343E	.	.	119	15	117	0	.	1388
TYSND1	219743	bcgsc.ca	37	10	71905695	71905695	+	Silent	SNP	A	A	G	rs10999158		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	TYSND1	NM_001040273	exon1	c.T648C	p.G216G	.	.	81	10	54	0	A|0.679;G|0.321	135
UBASH3B	84959	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	122650347	122650347	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UBASH3B	NM_032873	exon4	c.C545A	p.A182E	.	.	73	13	48	0	.	68
UBE2U	148581	bcgsc.ca	37	1	64672478	64672478	+	Silent	SNP	A	A	G	rs35112334	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UBE2U	NM_152489	exon3	c.A180G	p.T60T	.	.	549	18	533	0	A|0.982;G|0.018	90
UBN1	29855	bcgsc.ca	37	16	4930100	4930100	+	Silent	SNP	C	C	T	rs1876359	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UBN1	NM_001079514	exon18	c.C3372T	p.H1124H	.	.	156	9	99	0	C|0.649;T|0.351	92
UBQLNL	143630	bcgsc.ca	37	11	5536415	5536415	+	Silent	SNP	C	C	T	rs10769023	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UBQLNL	NM_145053	exon1	c.G1257A	p.E419E	.	.	109	5	101	0	C|0.719;T|0.281	136
UBQLNL	143630	bcgsc.ca	37	11	5536852	5536852	+	Missense_Mutation	SNP	A	A	G	rs2017434	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UBQLNL	NM_145053	exon1	c.T820C	p.Y274H	.	.	112	9	121	0	A|0.689;G|0.311	136
UBQLNL	143630	bcgsc.ca	37	11	5537045	5537045	+	Silent	SNP	T	T	G	rs872751	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UBQLNL	NM_145053	exon1	c.A627C	p.P209P	.	.	131	7	138	0	T|0.688;G|0.312	136
UBQLNL	143630	bcgsc.ca	37	11	5537161	5537161	+	Missense_Mutation	SNP	A	A	G	rs2047456	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UBQLNL	NM_145053	exon1	c.T511C	p.C171R	.	.	85	5	101	0	A|0.694;G|0.306	136
UBR5	51366	bcgsc.ca	37	8	103306033	103306033	+	Silent	SNP	T	T	C	rs16869352	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UBR5	NM_015902	exon34	c.A4389G	p.V1463V	.	.	96	8	99	0	T|0.958;C|0.042	761
UGGT2	55757	bcgsc.ca	37	13	96506664	96506664	+	Silent	SNP	A	A	G	rs11070154	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UGGT2	NM_020121	exon35	c.T4074C	p.T1358T	.	.	117	10	127	1	A|0.648;G|0.352	92
UGGT2	55757	bcgsc.ca	37	13	96540204	96540204	+	Missense_Mutation	SNP	T	T	G	rs12876018	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UGGT2	NM_020121	exon26	c.A2980C	p.M994L	.	.	518	27	463	3	G|0.357;N|0.001	92
UGT1A8	54576	bcgsc.ca	37	2	234526794	234526794	+	Silent	SNP	T	T	G	rs1042591	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UGT1A8	NM_019076	exon1	c.T441G	p.L147L	.	.	249	12	219	0	T|0.988;G|0.012	27
UGT2B15	7366	bcgsc.ca	37	4	69536084	69536084	+	Missense_Mutation	SNP	A	A	C	rs1902023	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UGT2B15	NM_001076	exon1	c.T253G	p.Y85D	.	.	1397	35	1349	0	A|0.468;C|0.532	46
UHRF1BP1	54887	bcgsc.ca	37	6	34824107	34824107	+	Missense_Mutation	SNP	A	A	C	rs16894945	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UHRF1BP1	NM_017754	exon10	c.A1212C	p.K404N	.	.	147	7	90	0	A|0.884;C|0.116	93
ULK4	54986	bcgsc.ca	37	3	41952852	41952852	+	Missense_Mutation	SNP	T	T	C	rs35263917	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ULK4	NM_017886	exon11	c.A1042G	p.S348G	.	.	393	14	306	3	T|0.888;C|0.112	297
UMODL1	89766	bcgsc.ca	37	21	43531129	43531129	+	Silent	SNP	G	G	A	rs200361969		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UMODL1	NM_173568	exon11	c.G1797A	p.P599P	.	.	202	7	191	0	G|0.998;A|0.002	93
UNC13C	440279	bcgsc.ca	37	15	54557674	54557674	+	Silent	SNP	A	A	G	rs117887090	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UNC13C	NM_001080534	exon8	c.A3798G	p.V1266V	.	.	607	15	556	0	A|0.981;G|0.019	51
UPF2	26019	bcgsc.ca	37	10	12046546	12046546	+	Missense_Mutation	SNP	T	T	C	rs7079388	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UPF2	NM_080599	exon5	c.A1487G	p.N496S	.	.	128	9	134	0	T|0.922;C|0.078	515
URB2	9816	bcgsc.ca	37	1	229790048	229790048	+	Silent	SNP	A	A	G	rs7521953	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	URB2	NM_014777	exon9	c.A4290G	p.R1430R	.	.	248	8	161	1	A|0.436;G|0.564	174
USH1C	10083	bcgsc.ca	37	11	17522638	17522638	+	Silent	SNP	G	G	A	rs10832796	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	USH1C	NM_153676	exon23	c.C2340T	p.V780V	.	.	84	7	53	0	G|0.784;A|0.216	91
USH2A	7399	bcgsc.ca	37	1	216496932	216496932	+	Missense_Mutation	SNP	C	C	G	rs35730265	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	USH2A	NM_007123	exon8	c.G1434C	p.E478D	.	.	277	10	176	0	C|0.724;G|0.276	115
USP10	9100	bcgsc.ca	37	16	84796603	84796603	+	Silent	SNP	A	A	G	rs12932018	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	USP10	NM_001272075	exon10	c.A1575G	p.Q525Q	.	.	85	6	79	0	A|0.753;G|0.247	636
USP29	57663	bcgsc.ca	37	19	57642098	57642098	+	Silent	SNP	G	G	A	rs3764574	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	USP29	NM_020903	exon4	c.G2055A	p.V685V	.	.	126	7	106	0	G|0.565;A|0.435	661
USP47	55031	bcgsc.ca	37	11	11977573	11977573	+	Silent	SNP	T	T	C	rs2307073	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	USP47	NM_017944	exon27	c.T3715C	p.L1239L	.	.	267	8	263	0	T|0.852;C|0.148	660
USP53	54532	bcgsc.ca	37	4	120194799	120194799	+	Silent	SNP	G	G	A	rs61730006	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	USP53	NM_019050	exon16	c.G2187A	p.T729T	.	.	591	15	626	1	G|0.969;A|0.031	660
UTRN	7402	bcgsc.ca	37	6	144869785	144869785	+	Missense_Mutation	SNP	A	A	G	rs1534443	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UTRN	NM_007124	exon46	c.A6605G	p.N2202S	.	.	83	7	118	0	A|0.684;G|0.316	95
UTS2	10911	bcgsc.ca	37	1	7913430	7913430	+	Missense_Mutation	SNP	G	G	A	rs228648	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	UTS2	NM_021995	exon1	c.C62T	p.T21M	.	.	293	12	301	3	G|0.493;A|0.507	90
VCX2	51480	bcgsc.ca	37	X	8138080	8138080	+	Missense_Mutation	SNP	G	G	C	rs1058239	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VCX2	NM_016378	exon3	c.C413G	p.T138S	.	.	217	16	193	3	G|0.326;C|0.674	22
VCX3A	51481	bcgsc.ca	37	X	6451856	6451856	+	Missense_Mutation	SNP	A	A	G	rs75344159		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VCX3A	NM_016379	exon3	c.T491C	p.L164P	.	.	279	11	281	1	.	22
VCX3A	51481	bcgsc.ca	37	X	6451872	6451872	+	Missense_Mutation	SNP	C	C	G	rs77148209		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VCX3A	NM_016379	exon3	c.G475C	p.E159Q	.	.	263	12	256	0	.	22
VN1R2	317701	bcgsc.ca	37	19	53762675	53762675	+	Silent	SNP	G	G	A	rs61734062	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VN1R2	NM_173856	exon1	c.G1047A	p.V349V	.	.	185	8	159	0	G|0.974;A|0.026	90
VNN1	8876	ucsc.edu;bcgsc.ca	37	6	133035098	133035098	+	Missense_Mutation	SNP	G	G	A	rs2294757	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VNN1	NM_004666	exon1	c.C77T	p.T26I	.	.	35	5	58	0	G|0.474;A|0.526	93
VNN2	8875	bcgsc.ca	37	6	133077063	133077063	+	Silent	SNP	T	T	C	rs1883613	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VNN2	NM_004665	exon3	c.A456G	p.T152T	.	.	95	7	140	0	T|0.682;C|0.318	90
VNN3	55350	bcgsc.ca	37	6	133055610	133055610	+	RNA	SNP	G	G	T	rs764262	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VNN3	.	.	.	.	.	.	69	5	107	0	G|0.486;T|0.514	90
VNN3	55350	bcgsc.ca	37	6	133055612	133055612	+	RNA	SNP	G	G	C	rs764263	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VNN3	.	.	.	.	.	.	70	6	111	1	G|0.742;C|0.258	90
VPS13A	23230	bcgsc.ca	37	9	79938131	79938131	+	Silent	SNP	C	C	T	rs41289971	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VPS13A	NM_001018038	exon45	c.C5979T	p.R1993R	.	.	195	12	204	0	A|0.000;C|0.994;T|0.005	161
VPS37C	55048	bcgsc.ca	37	11	60899767	60899767	+	Missense_Mutation	SNP	A	A	G	rs754382	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VPS37C	NM_017966	exon5	c.T593C	p.L198S	.	.	96	8	65	0	A|0.208;G|0.792	90
VRK2	7444	bcgsc.ca	37	2	58316814	58316814	+	Missense_Mutation	SNP	A	A	G	rs1051061	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VRK2	NM_001130480	exon7	c.A499G	p.I167V	.	.	745	27	776	4	A|0.683;G|0.317	334
VWCE	220001	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	61036479	61036479	+	Silent	SNP	C	C	A	rs201645635	alternate_allele	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VWCE	NM_152718	exon15	c.G1797T	p.S599S	.	.	30	8	40	1	C|0.999;T|0.000	91
VWDE	221806	bcgsc.ca	37	7	12406989	12406989	+	Missense_Mutation	SNP	C	C	G	rs6460939	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VWDE	NM_001135924	exon13	c.G2892C	p.K964N	.	.	219	7	253	1	C|0.513;G|0.487	68
VWF	7450	bcgsc.ca	37	12	6173433	6173433	+	Missense_Mutation	SNP	C	C	T	rs1800377	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	VWF	NM_000552	exon12	c.G1411A	p.V471I	.	.	122	6	109	0	C|0.885;T|0.115	163
WAPAL	23063	bcgsc.ca	37	10	88277457	88277457	+	Missense_Mutation	SNP	C	C	T	rs10887621	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WAPAL	NM_015045	exon2	c.G370A	p.V124I	.	.	122	5	142	0	C|0.796;T|0.204	91
WDFY3	23001	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	85634394	85634394	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDFY3	NM_014991	exon52	c.7962-2A>G	.	.	.	52	16	57	0	.	93
WDFY4	57705	bcgsc.ca	37	10	50028308	50028308	+	Silent	SNP	C	C	T	rs41283279	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDFY4	NM_020945	exon33	c.C5535T	p.T1845T	.	.	161	10	114	0	C|0.958;T|0.042	22
WDFY4	57705	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	49951349	49951349	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDFY4	NM_020945	exon12	c.G2215T	p.A739S	.	.	63	25	58	0	.	22
WDR17	116966	bcgsc.ca	37	4	177100644	177100644	+	Missense_Mutation	SNP	G	G	A	rs11736872	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDR17	NM_170710	exon31	c.G3883A	p.A1295T	.	.	112	8	121	0	G|0.774;A|0.226	95
WDR20	91833	bcgsc.ca	37	14	102675350	102675350	+	Silent	SNP	G	G	C	rs6575900	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDR20	NM_001242417	exon4	c.G936C	p.G312G	.	.	106	6	64	0	G|0.664;C|0.336	90
WDR27	253769	bcgsc.ca	37	6	170033086	170033086	+	Missense_Mutation	SNP	G	G	A	rs9396946	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDR27	NM_182552	exon21	c.C2180T	p.A727V	.	.	46	4	57	0	G|0.798;A|0.202	69
WDR36	134430	bcgsc.ca	37	5	110439509	110439509	+	Missense_Mutation	SNP	A	A	G	rs11241095	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDR36	NM_139281	exon7	c.A790G	p.I264V	.	.	347	11	351	2	A|0.756;G|0.243	92
WDR36	134430	bcgsc.ca	37	5	110456704	110456704	+	Silent	SNP	A	A	T	rs13186912	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDR36	NM_139281	exon19	c.A2181T	p.V727V	.	.	273	10	263	1	A|0.757;T|0.243	92
WDR63	126820	bcgsc.ca	37	1	85594466	85594466	+	Missense_Mutation	SNP	G	G	A	rs709783	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDR63	NM_145172	exon21	c.G2393A	p.R798H	.	.	363	15	401	0	G|0.780;A|0.220	95
WDR65	149465	bcgsc.ca	37	1	43649393	43649393	+	Silent	SNP	T	T	C	rs663336	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDR65	NM_001195831	exon4	c.T606C	p.A202A	.	.	122	9	126	0	T|0.801;C|0.199	91
WDR65	149465	bcgsc.ca	37	1	43699970	43699970	+	Silent	SNP	G	G	A	rs2484714	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDR65	NM_001195831	exon21	c.G3246A	p.L1082L	.	.	68	6	73	0	G|0.873;A|0.127	91
WDR72	256764	bcgsc.ca	37	15	53957892	53957892	+	Silent	SNP	C	C	T	rs78493456	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDR72	NM_182758	exon14	c.G1839A	p.V613V	.	.	155	7	162	0	C|0.987;T|0.013	92
WDR81	124997	ucsc.edu;bcgsc.ca	37	17	1630208	1630208	+	Missense_Mutation	SNP	C	C	T	rs57207396	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDR81	NM_001163809	exon1	c.C1955T	p.P652L	.	.	77	7	58	0	C|0.728;G|0.000;T|0.271	91
WDR92	116143	bcgsc.ca	37	2	68364478	68364478	+	Missense_Mutation	SNP	T	T	C	rs13009282	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WDR92	NM_001256476	exon6	c.A721G	p.M241V	.	.	84	7	101	0	T|0.804;C|0.196	68
WFS1	7466	bcgsc.ca	37	4	6293696	6293696	+	Silent	SNP	C	C	G	rs1801213	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WFS1	NM_001145853	exon6	c.C684G	p.R228R	.	.	163	12	165	1	C|0.294;G|0.706	91
WFS1	7466	bcgsc.ca	37	4	6302707	6302707	+	Silent	SNP	C	C	T	rs1801206	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WFS1	NM_001145853	exon8	c.C1185T	p.V395V	.	.	90	7	71	0	C|0.405;T|0.595	91
WFS1	7466	bcgsc.ca	37	4	6303354	6303354	+	Missense_Mutation	SNP	G	G	A	rs734312	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WFS1	NM_001145853	exon8	c.G1832A	p.R611H	.	.	66	6	64	0	G|0.550;A|0.450	91
WHAMMP2	440253	bcgsc.ca	37	15	28986430	28986430	+	RNA	SNP	G	G	T	rs12438322		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NR_026589	exon2	c.777+1G>T	.	.	.	170	16	164	2	G|0.733;T|0.267	.
WRN	7486	bcgsc.ca	37	8	31024654	31024654	+	Missense_Mutation	SNP	T	T	C	rs1346044	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WRN	NM_000553	exon34	c.T4099C	p.C1367R	.	.	209	15	287	0	T|0.798;C|0.202	1036
WSB1	26118	bcgsc.ca	37	17	25628820	25628820	+	Missense_Mutation	SNP	T	T	C	rs6561	bycluster;byfrequency;by1000genomes	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WSB1	NM_015626	exon2	c.T47C	p.L16S	.	.	118	8	132	0	T|0.509;C|0.491	226
WWC1	23286	bcgsc.ca	37	5	167868779	167868779	+	Silent	SNP	A	A	G	rs3733981	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WWC1	NM_015238	exon16	c.A2373G	p.K791K	.	.	211	8	214	1	A|0.525;G|0.475	157
WWC1	23286	bcgsc.ca	37	5	167868809	167868809	+	Silent	SNP	C	C	T	rs3733980	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WWC1	NM_015238	exon16	c.C2403T	p.V801V	.	.	178	7	153	0	C|0.507;T|0.493	157
WWC1	23286	ucsc.edu;bcgsc.ca	37	5	167850748	167850748	+	Silent	SNP	A	A	G	rs12054944	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	WWC1	NM_015238	exon11	c.A1485G	p.S495S	.	.	46	6	47	0	A|0.448;G|0.552	157
XIRP2	129446	bcgsc.ca	37	2	168104370	168104370	+	Silent	SNP	A	A	C	rs61748715	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	XIRP2	NM_152381	exon9	c.A6468C	p.T2156T	.	.	279	9	291	0	A|0.860;C|0.140	104
XIRP2	129446	bcgsc.ca	37	2	168106085	168106085	+	Missense_Mutation	SNP	G	G	A	rs16853328	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	XIRP2	NM_152381	exon9	c.G8183A	p.S2728N	.	.	290	13	279	1	G|0.837;A|0.163	104
XIRP2	129446	bcgsc.ca	37	2	168115710	168115710	+	Missense_Mutation	SNP	T	T	G	rs3749006	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	XIRP2	NM_001199143	exon11	c.T2753G	p.V918G	.	.	218	9	240	0	T|0.808;G|0.192	104
XIRP2	129446	bcgsc.ca	37	2	168115797	168115797	+	Missense_Mutation	SNP	G	G	C	rs75758327	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	XIRP2	NM_001199143	exon11	c.G2840C	p.R947T	.	.	201	7	208	0	G|0.922;C|0.078	104
XPO6	23214	bcgsc.ca	37	16	28123226	28123226	+	Silent	SNP	G	G	A	rs205384	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	XPO6	NM_015171	exon17	c.C2253T	p.H751H	.	.	93	5	81	0	A|0.220;C|0.000;G|0.780	227
XRCC4	7518	bcgsc.ca	37	5	82648943	82648943	+	Splice_Site	SNP	G	G	A	rs1805377	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	XRCC4	NM_022406	exon8	c.894-1G>A	.	.	.	378	22	404	2	G|0.679;A|0.321	229
XRCC4	7518	bcgsc.ca	37	5	82648977	82648977	+	Silent	SNP	T	T	G	rs1056503	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	XRCC4	NM_022406	exon8	c.T927G	p.S309S	.	.	458	29	452	1	T|0.685;G|0.315	229
XRRA1	143570	bcgsc.ca	37	11	74563077	74563077	+	Silent	SNP	G	G	A	rs2304683	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	XRRA1	NM_182969	exon13	c.C1197T	p.C399C	.	.	125	8	85	0	G|0.689;A|0.311	68
XYLT1	64131	ucsc.edu;bcgsc.ca	37	16	17292074	17292074	+	Silent	SNP	G	G	C	rs28709752	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	XYLT1	NM_022166	exon5	c.C1284G	p.P428P	.	.	58	7	43	0	G|0.846;C|0.154	94
YARS2	51067	bcgsc.ca	37	12	32908237	32908237	+	Missense_Mutation	SNP	C	C	A	rs11539445	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	YARS2	NM_001040436	exon1	c.G572T	p.G191V	.	.	65	5	66	0	C|0.856;A|0.144	90
YARS2	51067	bcgsc.ca	37	12	32908518	32908518	+	Silent	SNP	G	G	A	rs11539444	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	YARS2	NM_001040436	exon1	c.C291T	p.G97G	.	.	129	9	105	0	G|0.854;A|0.146	90
YEATS2	55689	bcgsc.ca	37	3	183432983	183432983	+	Silent	SNP	C	C	T	rs3736535	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	YEATS2	NM_018023	exon2	c.C33T	p.T11T	.	.	423	17	433	0	C|0.804;T|0.196	138
YEATS2	55689	bcgsc.ca	37	3	183476685	183476685	+	Missense_Mutation	SNP	G	G	A	rs262993	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	YEATS2	NM_018023	exon13	c.G1588A	p.V530I	.	.	534	14	547	0	G|0.576;A|0.424	138
YLPM1	56252	bcgsc.ca	37	14	75248652	75248652	+	Missense_Mutation	SNP	C	C	G	rs45617140	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	YLPM1	NM_019589	exon4	c.C1906G	p.P636A	.	.	105	6	105	1	C|0.936;G|0.064	71
ZBBX	79740	bcgsc.ca	37	3	167023493	167023493	+	Missense_Mutation	SNP	C	C	T	rs35864545	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZBBX	NM_024687	exon17	c.G1663A	p.E555K	.	.	292	16	334	2	C|0.915;T|0.085	92
ZBBX	79740	bcgsc.ca	37	3	167023624	167023624	+	Missense_Mutation	SNP	A	A	G	rs35190925	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZBBX	NM_024687	exon17	c.T1532C	p.I511T	.	.	300	24	318	2	A|0.918;G|0.082	92
ZC2HC1C	79696	bcgsc.ca	37	14	75537381	75537381	+	Silent	SNP	C	C	T	rs11546525	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	FAM164C,NS,carcinoma,+2	.	NM_024643	exon2	c.C105T	p.Y35Y	.	.	96	5	78	0	C|0.608;T|0.392	.
ZC2HC1C	79696	bcgsc.ca	37	14	75538217	75538217	+	Missense_Mutation	SNP	G	G	T	rs3742778	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_024643	exon2	c.G941T	p.G314V	.	.	96	5	74	0	G|0.478;T|0.522	.
ZC3H7A	29066	bcgsc.ca	37	16	11873158	11873158	+	Missense_Mutation	SNP	T	T	C	rs16958654	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZC3H7A	NM_014153	exon4	c.A170G	p.H57R	.	.	285	9	286	1	T|0.928;C|0.072	94
ZC3HAV1	56829	bcgsc.ca	37	7	138740037	138740037	+	Missense_Mutation	SNP	G	G	C	rs2297236	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZC3HAV1	NM_020119	exon10	c.C2101G	p.Q701E	.	.	130	5	128	1	G|0.451;C|0.549	91
ZCWPW2	152098	bcgsc.ca	37	3	28533658	28533658	+	Silent	SNP	G	G	A	rs13100556	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZCWPW2	NM_001040432	exon5	c.G651A	p.K217K	.	.	942	30	904	1	G|0.823;A|0.176	24
ZDHHC17	23390	bcgsc.ca	37	12	77216281	77216281	+	Silent	SNP	G	G	A	rs17813975	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_015336	exon8	c.G867A	p.P289P	.	.	310	10	382	0	G|0.897;A|0.103	.
ZFP112	7771	bcgsc.ca	37	19	44831862	44831862	+	Silent	SNP	G	G	T	rs139425410		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZFP112	NM_001083335	exon5	c.C2466A	p.A822A	.	.	81	6	89	0	G|1.000;T|0.000	95
ZFP30	22835	bcgsc.ca	37	19	38126813	38126813	+	Missense_Mutation	SNP	G	G	A	rs145717742	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZFP30	NM_014898	exon6	c.C629T	p.S210F	.	.	158	7	135	1	G|0.998;A|0.002	90
ZKSCAN3	80317	bcgsc.ca	37	6	28333396	28333396	+	Silent	SNP	T	T	C	rs17313059	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZKSCAN3	NM_024493	exon6	c.T951C	p.H317H	.	.	170	7	129	0	T|0.932;C|0.068	92
ZNF117	51351	bcgsc.ca	37	7	64439701	64439701	+	Missense_Mutation	SNP	C	C	T	rs3807069	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF117	NM_015852	exon4	c.G248A	p.C83Y	.	.	202	15	182	1	C|0.613;T|0.387	91
ZNF117	51351	ucsc.edu;bcgsc.ca	37	7	64439613	64439613	+	Missense_Mutation	SNP	T	T	G	rs3807068	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF117	NM_015852	exon4	c.A336C	p.K112N	.	.	201	21	171	2	T|0.611;G|0.389	91
ZNF133	7692	bcgsc.ca	37	20	18295861	18295861	+	Silent	SNP	G	G	A	rs2228274	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF133	NM_001083330	exon4	c.G363A	p.P121P	.	.	51	4	47	0	G|0.928;A|0.072	92
ZNF142	7701	bcgsc.ca	37	2	219508372	219508372	+	Missense_Mutation	SNP	A	A	T	rs3770213	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF142	NM_001105537	exon8	c.T2867A	p.L956H	.	.	85	5	82	0	A|0.741;N|0.000	137
ZNF180	7733	ucsc.edu;bcgsc.ca	37	19	44981525	44981525	+	Silent	SNP	G	G	A	rs2020083	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF180	NM_013256	exon5	c.C1173T	p.S391S	.	.	75	8	75	0	G|0.874;A|0.126	92
ZNF19	7567	bcgsc.ca	37	16	71509588	71509588	+	Silent	SNP	G	G	A	rs2288487	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF19	NM_006961	exon6	c.C862T	p.L288L	.	.	105	6	94	1	G|0.748;A|0.252	90
ZNF19	7567	bcgsc.ca	37	16	71509796	71509796	+	Missense_Mutation	SNP	C	C	G	rs8050871	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF19	NM_006961	exon6	c.G654C	p.Q218H	.	.	121	7	106	1	C|0.357;G|0.642	90
ZNF271	10778	bcgsc.ca	37	18	32888546	32888546	+	RNA	SNP	C	C	A	rs34841246	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF271	.	.	.	.	.	.	280	9	295	1	C|0.757;A|0.243	90
ZNF280C	55609	bcgsc.ca	37	X	129349295	129349295	+	Silent	SNP	T	T	G	rs209238	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF280C	NM_017666	exon15	c.A1851C	p.G617G	.	.	337	12	163	0	0|0.003;G|0.509	132
ZNF302	55900	bcgsc.ca;mdanderson.org	37	19	35175208	35175208	+	Missense_Mutation	SNP	A	A	G	rs2290652	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_018443	exon5	c.A266G	p.Y89C	.	.	709	53	762	1	A|0.726;G|0.274	.
ZNF302	55900	ucsc.edu;bcgsc.ca	37	19	35175775	35175775	+	Missense_Mutation	SNP	C	C	T	rs11543232	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_018443	exon5	c.C833T	p.T278I	.	.	136	16	151	1	C|0.704;T|0.296	.
ZNF345	25850	bcgsc.ca	37	19	37368146	37368146	+	Silent	SNP	A	A	G	rs141127636	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF345	NM_001242476	exon4	c.A414G	p.R138R	.	.	120	5	125	0	A|0.993;G|0.007	91
ZNF407	55628	bcgsc.ca	37	18	72345890	72345890	+	Missense_Mutation	SNP	A	A	C	rs948615	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF407	NM_001146190	exon1	c.A2915C	p.N972T	.	.	244	8	228	2	A|0.797;C|0.203	92
ZNF479	90827	bcgsc.ca	37	7	57188526	57188526	+	Missense_Mutation	SNP	T	T	C	rs7805171	bycluster	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF479	NM_033273	exon5	c.A596G	p.H199R	.	.	300	15	311	0	T|0.500;C|0.500	72
ZNF480	147657	bcgsc.ca	37	19	52825032	52825032	+	Missense_Mutation	SNP	C	C	T	rs13343641	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF480	NM_144684	exon5	c.C529T	p.P177S	.	.	252	9	272	0	C|0.820;T|0.180	153
ZNF519	162655	bcgsc.ca	37	18	14105853	14105853	+	Missense_Mutation	SNP	C	C	A	rs8094412	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF519	NM_145287	exon3	c.G686T	p.R229I	.	.	248	10	245	0	C|0.863;A|0.137	90
ZNF519	162655	bcgsc.ca	37	18	14106039	14106039	+	Missense_Mutation	SNP	T	T	C	rs62086326	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF519	NM_145287	exon3	c.A500G	p.N167S	.	.	131	5	122	0	T|0.799;C|0.201	90
ZNF543	125919	bcgsc.ca	37	19	57840547	57840547	+	Missense_Mutation	SNP	A	A	G	rs10410649	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF543	NM_213598	exon4	c.A1717G	p.M573V	.	.	127	6	125	0	A|0.737;G|0.263	92
ZNF608	57507	bcgsc.ca	37	5	123984032	123984032	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF608	NM_020747	exon4	c.C2045T	p.A682V	.	.	98	5	105	0	.	229
ZNF618	114991	bcgsc.ca	37	9	116764283	116764283	+	Silent	SNP	C	C	T	rs4978561	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF618	NM_133374	exon4	c.C345T	p.Y115Y	.	.	76	6	54	0	C|0.645;T|0.355	22
ZNF618	114991	bcgsc.ca	37	9	116770776	116770776	+	Silent	SNP	C	C	T	rs3748183	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF618	NM_133374	exon8	c.C600T	p.V200V	.	.	165	9	145	0	C|0.648;T|0.352	22
ZNF618	114991	bcgsc.ca	37	9	116770785	116770785	+	Silent	SNP	G	G	A	rs3748182	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF618	NM_133374	exon8	c.G609A	p.T203T	.	.	161	10	147	0	G|0.655;A|0.345	22
ZNF630	57232	ucsc.edu;bcgsc.ca	37	X	47918205	47918205	+	Silent	SNP	G	G	A	rs501128	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF630	NM_001037735	exon5	c.C1626T	p.P542P	.	.	58	6	55	0	0|0.004;A|0.588	131
ZNF645	158506	ucsc.edu	37	X	22291468	22291468	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF645	NM_152577	exon1	c.C360A	p.C120X	.	.	104	67	103	2	.	131
ZNF676	163223	bcgsc.ca	37	19	22375868	22375868	+	Missense_Mutation	SNP	C	C	T	rs8104929	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF676	NM_001001411	exon2	c.G80A	p.G27E	.	.	131	7	102	0	C|0.616;T|0.384	90
ZNF682	91120	bcgsc.ca	37	19	20116963	20116963	+	Missense_Mutation	SNP	C	C	T	rs17679334	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF682	NM_033196	exon4	c.G1348A	p.V450I	.	.	68	5	56	0	C|0.804;T|0.196	92
ZNF70	7621	bcgsc.ca	37	22	24086107	24086107	+	Silent	SNP	A	A	G	rs5759985	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF70	NM_021916	exon2	c.T1221C	p.I407I	.	.	94	6	106	0	A|0.481;G|0.519	92
ZNF713	349075	bcgsc.ca	37	7	56007576	56007576	+	Silent	SNP	C	C	T	rs34016595	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF713	NM_182633	exon4	c.C1170T	p.C390C	.	.	92	5	106	0	C|0.694;T|0.306	92
ZNF714	148206	bcgsc.ca	37	19	21300142	21300142	+	Silent	SNP	A	A	C	rs112722125	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF714	NM_182515	exon5	c.A672C	p.G224G	.	.	90	6	130	0	A|0.933;C|0.067	67
ZNF749	388567	bcgsc.ca	37	19	57955244	57955244	+	Missense_Mutation	SNP	A	A	G	rs12986235	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001023561	exon3	c.A728G	p.Q243R	.	.	168	7	141	0	A|0.771;G|0.229	.
ZNF761	388561	bcgsc.ca	37	19	53959568	53959568	+	Missense_Mutation	SNP	G	G	C	rs76363078		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF761	NM_001008401	exon7	c.G1807C	p.E603Q	.	.	120	6	149	1	.	91
ZNF774	342132	bcgsc.ca	37	15	90897952	90897952	+	Silent	SNP	C	C	T	rs8023776	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF774	NM_001004309	exon2	c.C60T	p.L20L	.	.	159	6	129	0	C|0.716;T|0.284	90
ZNF808	388558	bcgsc.ca	37	19	53057479	53057479	+	Missense_Mutation	SNP	G	G	A	rs61746334	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001039886	exon5	c.G1310A	p.S437N	.	.	98	8	85	0	G|0.923;A|0.077	.
ZNF835	90485	bcgsc.ca	37	19	57176482	57176482	+	Missense_Mutation	SNP	C	C	T	rs12462469	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF835	NM_001005850	exon2	c.G85A	p.E29K	.	.	57	6	60	0	C|0.621;T|0.379	72
ZNF853	54753	bcgsc.ca	37	7	6660790	6660790	+	Silent	SNP	G	G	A	rs940873	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_017560	exon3	c.G168A	p.E56E	.	.	103	6	85	0	G|0.644;A|0.356	.
ZNF85	7639	bcgsc.ca	37	19	21131728	21131728	+	Silent	SNP	A	A	G	rs12972502	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF85	NM_001256171	exon5	c.A498G	p.Q166Q	.	.	246	10	240	0	A|0.919;G|0.081	514
ZNF85	7639	bcgsc.ca	37	19	21131850	21131850	+	Missense_Mutation	SNP	C	C	G	rs56393308	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF85	NM_001256171	exon5	c.C620G	p.T207R	.	.	147	7	164	1	C|0.897;G|0.103	514
ZNF862	643641	ucsc.edu;bcgsc.ca	37	7	149559273	149559273	+	Silent	SNP	C	C	T	rs2074700	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF862	NM_001099220	exon7	c.C3024T	p.L1008L	.	.	56	6	58	0	C|0.546;T|0.454	69
ZNF862	643641	ucsc.edu;bcgsc.ca	37	7	149559465	149559465	+	Silent	SNP	C	C	T	rs2074701	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZNF862	NM_001099220	exon7	c.C3216T	p.G1072G	.	.	53	7	43	0	C|0.500;T|0.500	69
ZNF883	169834	bcgsc.ca	37	9	115759519	115759519	+	Nonsense_Mutation	SNP	G	G	A	rs10981589	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	NM_001101338	exon5	c.C1021T	p.R341X	.	.	123	6	121	0	G|0.969;A|0.031	.
ZP2	7783	bcgsc.ca	37	16	21215672	21215672	+	Silent	SNP	A	A	G	rs2075526	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZP2	NM_003460	exon8	c.T747C	p.P249P	.	.	200	8	188	0	A|0.721;G|0.279	91
ZSCAN20	7579	ucsc.edu;bcgsc.ca	37	1	33957130	33957130	+	Silent	SNP	C	C	A	rs3795419	byfrequency	TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZSCAN20	NM_145238	exon6	c.C1272A	p.A424A	.	.	81	9	78	0	C|0.824;A|0.176	93
ZXDC	79364	hgsc.bcm.edu	37	3	126194357	126194357	+	Missense_Mutation	SNP	G	G	C	rs7624748		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	ZXDC	NM_025112	exon1	c.C352G	p.P118A	.	.	5	5	0	0	G|0.098;C|0.902	91
OR10G4	390264	bcgsc.ca	37	11	123886307	123886308	+	Missense_Mutation	DNP	CA	CA	TG	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	CA	CA	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	p.A9V	.	.	.	.	.	.	.	
TMEM99	147184	bcgsc.ca	37	17	38991052	38991053	+	Missense_Mutation	DNP	TT	TT	GA	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	TT	TT	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	p.L95R	.	.	.	.	.	.	.	
GSTM5	2949	bcgsc.ca	37	1	110257835	110257836	+	Silent	DNP	CT	CT	TC	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	CT	CT	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	p.L198L	.	.	.	.	.	.	.	
ANKRD30BP1	642460	bcgsc.ca	37	21	14771325	14771326	+	RNA	DNP	CT	CT	TG	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	CT	CT	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	.	.	.	.	.	
ZKSCAN3	80317	ucsc.edu;bcgsc.ca	37	6	28331127	28331128	+	Missense_Mutation	DNP	AA	AA	GC	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	p.K200A	.	.	.	.	.	.	.	
YBX1P4	100131012	bcgsc.ca	37	7	151826620	151826621	+	RNA	DNP	GG	GG	TA	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	GG	GG	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	.	.	.	.	.	.	.	.	
PREX2	80243	bcgsc.ca	37	8	68993013	68993014	+	Silent	DNP	AT	AT	GC	novel		TCGA-BC-A69I-01A-11D-A30V-10	TCGA-BC-A69I-10A-01D-A30V-10	AT	AT	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5ce1b736-149a-4b4a-92ca-d02d98cb8671	ca229805-3ddd-41b7-bd5c-3e13e5a1cb8c	.	.	.	.	.	p.F605F	.	.	.	.	.	.	.	
