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
A2M	2	hgsc.bcm.edu	37	12	9244021	9244021	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	A2M	NM_000014	exon19	c.G2245T	p.A749S	.	.	161	9	44	0	.	515
ABCB1	5243	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	87179344	87179344	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ABCB1	NM_000927	exon14	c.G1377A	p.R459R	.	.	193	44	46	0	.	582
ABCC4	10257	bcgsc.ca	37	13	95822809	95822809	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ABCC4	NM_005845	exon14	c.A1801G	p.S601G	.	.	86	5	67	0	.	515
ABCC8	6833	bcgsc.ca	37	11	17474805	17474805	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ABCC8	NM_000352	exon7	c.T1037C	p.V346A	.	.	128	5	70	0	.	91
ACAA1	30	bcgsc.ca	37	3	38178132	38178132	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ACAA1	NM_001130410	exon2	c.T216C	p.V72V	.	.	154	7	56	0	.	91
ACACB	32	bcgsc.ca	37	12	109696853	109696853	+	Silent	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ACACB	NM_001093	exon46	c.C6436A	p.R2146R	.	.	149	6	45	0	.	98
ACE	1636	bcgsc.ca	37	17	61571827	61571827	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ACE	NM_000789	exon22	c.A3376G	p.I1126V	.	.	95	5	32	0	.	94
ADAM2	2515	bcgsc.ca	37	8	39624714	39624714	+	Silent	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ADAM2	NM_001464	exon13	c.C1269A	p.A423A	.	.	77	4	39	0	.	227
ADAMTS19	171019	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	128977592	128977592	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ADAMTS19	NM_133638	exon11	c.A1793T	p.E598V	.	.	324	94	110	0	.	295
ADAMTSL4	54507	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	150532349	150532349	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ADAMTSL4	NM_019032	exon18	c.C3056T	p.P1019L	.	.	50	22	22	0	.	92
ADAR	103	bcgsc.ca	37	1	154574151	154574151	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ADAR	NM_015840	exon2	c.G967A	p.G323S	.	.	73	4	54	0	.	157
ADCY4	196883	hgsc.bcm.edu	37	14	24787938	24787939	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ADCY4	NM_139247	exon25	c.3003_3004insA	p.K1001fs	.	.	272	16	81	0	.	93
ADD2	119	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	70923474	70923474	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ADD2	NM_001185055	exon4	c.T425A	p.L142Q	.	.	412	111	56	0	.	93
ADGB	79747	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	146977910	146977910	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_024694	exon5	c.A406C	p.M136L	.	.	231	78	130	0	.	.
ADNP	23394	bcgsc.ca	37	20	49520537	49520537	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ADNP	.	.	.	.	.	.	249	6	123	0	.	92
AFF4	27125	bcgsc.ca	37	5	132222096	132222096	+	Splice_Site	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	AFF4	NM_014423	exon19	c.3006-1G>A	.	.	.	247	44	74	0	.	229
ANKRD24	170961	ucsc.edu	37	19	4216700	4216700	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ANKRD24	NM_133475	exon18	c.A1543G	p.T515A	.	.	52	6	35	0	.	68
ANKRD27	84079	bcgsc.ca	37	19	33119003	33119003	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ANKRD27	NM_032139	exon15	c.T1406C	p.V469A	.	.	93	6	56	0	.	95
ANKRD34B	340120	bcgsc.ca	37	5	79854387	79854387	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ANKRD34B	NM_001004441	exon5	c.T1452C	p.V484V	.	.	153	6	87	0	.	69
APLNR	187	bcgsc.ca	37	11	57003560	57003560	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	APLNR	NM_005161	exon1	c.T919C	p.F307L	.	.	216	6	147	0	.	573
APPBP2	10513	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	58539193	58539193	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	APPBP2	NM_006380	exon8	c.G914T	p.C305F	.	.	312	124	162	0	.	226
ARHGAP27	201176	bcgsc.ca	37	17	43481028	43481028	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ARHGAP27	NM_199282	exon8	c.T572C	p.L191P	.	.	171	7	86	0	.	90
ARMCX6	54470	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	100871412	100871412	+	Silent	SNP	G	G	T	rs138992392	alternate_allele	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ARMCX6	NM_001184768	exon4	c.C199A	p.R67R	.	.	124	102	61	0	G|1.000;A|0.000	130
ATP11B	23200	ucsc.edu	37	3	182577071	182577071	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ATP11B	NM_014616	exon12	c.A1124G	p.D375G	.	.	1160	187	406	2	.	93
AWAT1	158833	hgsc.bcm.edu	37	X	69459750	69459751	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	AWAT1	NM_001013579	exon6	c.798_799insC	p.G266fs	.	.	149	10	64	0	.	133
BAI2	576	broad.mit.edu	37	1	32196498	32196498	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	BAI2	NM_001703	exon29	c.C4283T	p.P1428L	.	.	135	4	104	0	.	526
BARHL2	343472	hgsc.bcm.edu	37	1	91178035	91178036	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	BARHL2	NM_020063	exon3	c.998_999insG	p.A333fs	.	.	105	9	62	0	.	91
BAZ2B	29994	broad.mit.edu	37	2	160206229	160206229	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	BAZ2B	NM_013450	exon28	c.C4853A	p.S1618X	.	.	167	6	63	0	.	94
BMP3	651	bcgsc.ca	37	4	81967728	81967728	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	BMP3	NM_001201	exon2	c.A1153G	p.S385G	.	.	231	40	134	4	.	518
BPTF	2186	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	65889635	65889635	+	Silent	SNP	T	T	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	BPTF	NM_004459	exon8	c.T2583G	p.A861A	.	.	852	331	454	0	.	94
BRAT1	221927	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	2579479	2579479	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	BRAT1	NM_152743	exon11	c.G1439A	p.S480N	.	.	90	33	17	0	.	229
BRD3	8019	broad.mit.edu;bcgsc.ca	37	9	136916802	136916802	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	BRD3	NM_007371	exon4	c.A381C	p.Q127H	.	.	183	6	57	0	.	377
BRD8	10902	bcgsc.ca	37	5	137501544	137501544	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	BRD8	NM_006696	exon12	c.A1470G	p.G490G	.	.	256	7	77	1	.	91
C12orf50	160419	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	88420359	88420359	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	C12orf50	NM_152589	exon3	c.G39T	p.W13C	.	.	178	10	51	0	.	93
C16orf59	80178	bcgsc.ca	37	16	2510998	2510998	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	C16orf59	NM_025108	exon4	c.A378G	p.P126P	.	.	93	8	40	0	.	90
C1orf170	84808	bcgsc.ca	37	1	915314	915314	+	RNA	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	C1orf170	.	.	.	.	.	.	144	23	139	1	.	68
C5orf56	441108	broad.mit.edu;bcgsc.ca	37	5	131811558	131811558	+	RNA	SNP	A	A	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	C5orf56	.	.	.	.	.	.	458	11	93	0	.	90
C5orf56	441108	broad.mit.edu;bcgsc.ca	37	5	131811560	131811560	+	RNA	SNP	A	A	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	C5orf56	.	.	.	.	.	.	480	13	92	0	.	90
C7orf63	79846	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	89938655	89938655	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	C7orf63	NM_001039706	exon22	c.A2629G	p.T877A	.	.	440	167	290	0	.	91
C8orf58	541565	bcgsc.ca	37	8	22460754	22460754	+	Silent	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	C8orf58	NM_001013842	exon7	c.C1033A	p.R345R	.	.	138	5	104	0	.	91
CABP4	57010	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	67223230	67223230	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CABP4	NM_145200	exon1	c.C336T	p.Y112Y	.	.	75	33	38	0	.	90
CACNA1B	774	bcgsc.ca	37	9	140946584	140946584	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CACNA1B	NM_001243812	exon25	c.A3751G	p.R1251G	.	.	77	5	29	0	.	138
CAMSAP2	23271	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	200817808	200817808	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_203459	exon11	c.1911delC	p.D637fs	.	.	256	91	76	0	.	.
CAMSAP3	57662	bcgsc.ca	37	19	7660953	7660953	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_020902	exon1	c.A65G	p.K22R	.	.	86	4	41	0	.	.
CCDC129	223075	bcgsc.ca	37	7	31692204	31692204	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_001257968	exon14	c.A2974G	p.S992G	.	.	285	7	122	0	.	.
CCDC176	80127	bcgsc.ca	37	14	74507273	74507273	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_025057	exon5	c.A501G	p.K167K	.	.	223	8	142	0	.	.
CCDC41	51134	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	94706794	94706794	+	Splice_Site	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CCDC41	NM_016122	exon16	c.1708-1G>A	.	.	.	289	150	104	0	.	90
CCNB2	9133	bcgsc.ca	37	15	59417015	59417015	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CCNB2	NM_004701	exon9	c.T1136C	p.I379T	.	.	116	6	39	0	.	226
CCNJL	79616	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	159682609	159682609	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CCNJL	NM_024565	exon6	c.G834A	p.R278R	.	.	334	90	90	1	.	90
CD320	51293	bcgsc.ca	37	19	8367784	8367784	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CD320	NM_016579	exon4	c.A583G	p.N195D	.	.	101	10	48	0	.	90
CD59	966	bcgsc.ca	37	11	33743939	33743939	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CD59	NM_203331	exon3	c.T53C	p.V18A	.	.	141	6	65	1	.	90
CDC7	8317	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	91977431	91977431	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CDC7	NM_001134419	exon6	c.C523A	p.H175N	.	.	465	156	228	0	.	1125
CDH23	64072	bcgsc.ca	37	10	73455221	73455221	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CDH23	NM_001171931	exon21	c.A2336G	p.K779R	.	.	123	5	49	0	.	563
CDH7	1005	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	63511096	63511096	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CDH7	NM_004361	exon7	c.G1030T	p.A344S	.	.	249	97	99	0	.	94
CDHR5	53841	bcgsc.ca	37	11	618860	618860	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CDHR5	NM_021924	exon13	c.A1699G	p.S567G	.	.	442	54	217	8	.	90
CDKL4	344387	bcgsc.ca	37	2	39411730	39411730	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CDKL4	NM_001009565	exon8	c.792+2T>C	.	.	.	80	4	47	0	.	334
CELSR1	9620	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	46931320	46931320	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CELSR1	NM_014246	exon1	c.C1748A	p.P583H	.	.	21	14	35	0	.	525
CEP128	145508	bcgsc.ca	37	14	81372420	81372420	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CEP128	NM_152446	exon4	c.A240G	p.K80K	.	.	76	4	42	0	.	91
CEP44	80817	bcgsc.ca	37	4	175231021	175231021	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CEP44	NM_001040157	exon8	c.G699T	p.E233D	.	.	124	5	96	0	.	68
CHRNB3	1142	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	42587132	42587132	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CHRNB3	NM_000749	exon5	c.G682A	p.V228I	.	.	211	73	131	0	.	91
CHUK	1147	bcgsc.ca	37	10	101978763	101978763	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CHUK	NM_001278	exon8	c.689+2T>C	.	.	.	168	6	109	0	.	961
CLCA1	1179	bcgsc.ca	37	1	86934698	86934698	+	Missense_Mutation	SNP	T	T	C	rs145304242	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CLCA1	NM_001285	exon1	c.T44C	p.L15P	.	.	240	7	101	0	T|1.000;C|0.000	91
CLHC1	130162	bcgsc.ca	37	2	55407771	55407771	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_152385	exon11	c.T1259C	p.L420P	.	.	246	7	86	0	.	.
CLN8	2055	broad.mit.edu;bcgsc.ca	37	8	1719382	1719382	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CLN8	NM_018941	exon2	c.T162C	p.R54R	.	.	209	8	119	1	.	92
CLPP	8192	bcgsc.ca	37	19	6366300	6366300	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CLPP	NM_006012	exon5	c.A587G	p.E196G	.	.	157	5	67	0	.	91
CNOT6	57472	bcgsc.ca	37	5	179994174	179994174	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CNOT6	NM_015455	exon8	c.A804G	p.R268R	.	.	211	6	82	0	.	90
CNOT6	57472	broad.mit.edu	37	5	179980470	179980470	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CNOT6	NM_015455	exon4	c.A384G	p.K128K	.	.	445	7	106	0	.	90
COG1	9382	bcgsc.ca	37	17	71193060	71193060	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	COG1	NM_018714	exon3	c.C582A	p.S194R	.	.	138	5	71	0	.	91
COL17A1	1308	hgsc.bcm.edu	37	10	105816857	105816858	+	Frame_Shift_Ins	INS	-	-	C	rs137921796	by1000genomes	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	COL17A1	NM_000494	exon17	c.1341_1342insG	p.G447fs	.	.	98	10	72	0	.	95
COL22A1	169044	hgsc.bcm.edu	37	8	139895383	139895384	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	COL22A1	NM_152888	exon2	c.33_34insG	p.G11fs	.	.	88	10	38	0	.	103
COL6A3	1293	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	238263564	238263564	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	COL6A3	NM_004369	exon24	c.G6605A	p.R2202Q	.	.	66	23	15	0	.	526
CRIPAK	285464	bcgsc.ca	37	4	1388697	1388697	+	Missense_Mutation	SNP	C	C	T	rs113316888	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CRIPAK	NM_175918	exon1	c.C398T	p.A133V	.	.	89	45	131	7	C|0.982;T|0.018	90
CRIPAK	285464	bcgsc.ca	37	4	1389399	1389399	+	Missense_Mutation	SNP	G	G	A	rs142215664	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CRIPAK	NM_175918	exon1	c.G1100A	p.R367H	.	.	172	19	125	1	G|0.997;A|0.003	90
CROCC	9696	bcgsc.ca	37	1	17279942	17279942	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CROCC	NM_014675	exon21	c.A3152G	p.E1051G	.	.	52	4	53	1	.	137
CSMD2	114784	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	34174693	34174693	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CSMD2	NM_052896	exon22	c.T3452A	p.L1151H	.	.	190	60	61	0	.	103
CTCFL	140690	bcgsc.ca	37	20	56090779	56090779	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CTCFL	NM_001269044	exon5	c.A1171G	p.T391A	.	.	132	5	46	0	.	292
CYB5D2	124936	bcgsc.ca	37	17	4058144	4058144	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CYB5D2	NM_144611	exon3	c.T568C	p.S190P	.	.	60	4	45	0	.	155
CYP4A22	284541	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	47603268	47603268	+	Silent	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	CYP4A22	NM_001010969	exon1	c.C111A	p.L37L	.	.	200	54	66	0	.	139
DCT	1638	bcgsc.ca	37	13	95098006	95098006	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DCT	NM_001129889	exon8	c.A1245G	p.K415K	.	.	88	4	64	0	.	94
DDX1	1653	broad.mit.edu	37	2	15743977	15743977	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DDX1	NM_004939	exon9	c.A515G	p.K172R	.	.	977	10	378	0	.	253
DEPDC5	9681	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	22	32188763	32188763	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DEPDC5	NM_001242897	exon12	c.C727T	p.R243X	.	.	125	64	81	0	.	519
DFNB31	25861	hgsc.bcm.edu	37	9	117168768	117168769	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DFNB31	NM_001173425	exon9	c.2103_2104insG	p.G701fs	.	.	107	9	55	0	.	95
DGKA	1606	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	56332338	56332338	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DGKA	NM_201554	exon6	c.C393T	p.D131D	.	.	413	105	133	0	.	255
DLK2	65989	bcgsc.ca	37	6	43420762	43420762	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DLK2	NM_023932	exon4	c.A252G	p.A84A	.	.	131	33	68	0	.	68
DNAH7	56171	bcgsc.ca	37	2	196661429	196661429	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DNAH7	NM_018897	exon56	c.T10386C	p.S3462S	.	.	167	6	52	0	.	102
DNAH9	1770	bcgsc.ca	37	17	11607700	11607700	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DNAH9	NM_001372	exon25	c.A5332G	p.T1778A	.	.	82	4	68	1	.	168
DNAJB12	54788	bcgsc.ca	37	10	74098017	74098017	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DNAJB12	NM_017626	exon6	c.T878C	p.V293A	.	.	104	6	39	0	.	226
DNAJC17	55192	hgsc.bcm.edu	37	15	41068801	41068802	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DNAJC17	NM_018163	exon5	c.320_321insG	p.A107fs	.	.	149	12	52	0	.	226
DOCK11	139818	bcgsc.ca	37	X	117814649	117814649	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DOCK11	NM_144658	exon49	c.T5665C	p.L1889L	.	.	257	7	123	0	.	93
DOCK4	9732	bcgsc.ca	37	7	111407165	111407165	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DOCK4	NM_014705	exon37	c.A3811G	p.N1271D	.	.	84	4	37	0	.	26
DOCK7	85440	broad.mit.edu;bcgsc.ca	37	1	63090955	63090955	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DOCK7	NM_001271999	exon12	c.T1400C	p.L467P	.	.	193	6	81	0	.	92
DOCK8	81704	bcgsc.ca	37	9	441917	441917	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DOCK8	NM_203447	exon42	c.T5398C	p.F1800L	.	.	160	5	59	0	.	517
DOLK	22845	bcgsc.ca	37	9	131708104	131708104	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DOLK	NM_014908	exon1	c.T1479C	p.F493F	.	.	219	6	102	0	.	90
DRD5	1816	broad.mit.edu	37	4	9784882	9784882	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DRD5	NM_000798	exon1	c.A1229G	p.Y410C	.	.	290	11	114	1	.	91
DRD5	1816	ucsc.edu	37	4	9784617	9784617	+	Missense_Mutation	SNP	T	T	C	rs112029473	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DRD5	NM_000798	exon1	c.T964C	p.C322R	.	.	70	7	33	2	T|0.500;C|0.500	91
DSC3	1825	bcgsc.ca	37	18	28611100	28611100	+	Missense_Mutation	SNP	G	G	A	rs188023754		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DSC3	NM_024423	exon3	c.C193T	p.R65W	.	.	137	5	69	0	G|0.999;A|0.001	94
DSCAM	1826	bcgsc.ca	37	21	41385258	41385258	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DSCAM	NM_001389	exon33	c.T5742C	p.G1914G	.	.	75	5	47	1	.	101
DSPP	1834	broad.mit.edu	37	4	88535940	88535940	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DSPP	NM_014208	exon5	c.A2126G	p.D709G	.	.	295	10	230	1	.	90
DTX3L	151636	bcgsc.ca	37	3	122288145	122288145	+	Silent	SNP	T	T	C	rs142647416	byfrequency;alternate_allele	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	DTX3L	NM_138287	exon3	c.T1209C	p.Y403Y	.	.	171	6	104	0	T|0.999;G|0.001	587
EIF2AK3	9451	broad.mit.edu;bcgsc.ca	37	2	88874835	88874857	+	Frame_Shift_Del	DEL	AAAAGACCTGCTTCTTTGTGGTG	AAAAGACCTGCTTCTTTGTGGTG	-	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	AAAAGACCTGCTTCTTTGTGGTG	AAAAGACCTGCTTCTTTGTGGTG	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	EIF2AK3	NM_004836	exon13	c.2144_2166del	p.715_722del	.	.	190	7	82	0	.	361
ELMO2	63916	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	44997586	44997586	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ELMO2	NM_182764	exon20	c.T1906A	p.S636T	.	.	149	49	63	0	.	91
ELTD1	64123	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	79385992	79385992	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ELTD1	NM_022159	exon10	c.T1337C	p.I446T	.	.	125	50	40	0	.	24
EPHA6	285220	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	96706230	96706230	+	Silent	SNP	A	A	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	EPHA6	NM_001080448	exon3	c.A507T	p.V169V	.	.	170	59	60	0	.	1561
EPN1	29924	broad.mit.edu	37	19	56190220	56190220	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_001130071	exon3	c.A560G	p.K187R	.	.	144	6	56	0	.	.
EXOC6B	23233	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	72727062	72727062	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	EXOC6B	NM_015189	exon12	c.A1207T	p.N403Y	.	.	435	128	223	0	.	68
EXTL3	2137	bcgsc.ca	37	8	28574491	28574491	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	EXTL3	NM_001440	exon3	c.T915C	p.T305T	.	.	79	4	55	0	.	92
EZH1	2145	bcgsc.ca	37	17	40864351	40864351	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	EZH1	NM_001991	exon12	c.T1357C	p.F453L	.	.	217	7	108	0	.	229
FAM129A	116496	bcgsc.ca	37	1	184859318	184859318	+	Silent	SNP	A	A	G	rs148786454	alternate_allele	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FAM129A	NM_052966	exon4	c.T357C	p.L119L	.	.	115	20	61	0	A|1.000;C|0.000	94
FAM129B	64855	bcgsc.ca	37	9	130287426	130287426	+	Missense_Mutation	SNP	A	A	C	rs201445763	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FAM129B	NM_022833	exon4	c.T332G	p.V111G	.	.	100	31	51	2	A|0.996;C|0.005	68
FAM13A	10144	bcgsc.ca	37	4	89660254	89660254	+	Missense_Mutation	SNP	A	A	C	rs201522307		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FAM13A	NM_014883	exon20	c.T2489G	p.V830G	.	.	156	45	133	5	A|0.999;C|0.001	70
FAM174A	345757	bcgsc.ca	37	5	99871568	99871568	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FAM174A	NM_198507	exon1	c.A334G	p.S112G	.	.	162	10	69	1	.	90
FAM193A	8603	bcgsc.ca	37	4	2659530	2659530	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FAM193A	NM_001256667	exon7	c.A511G	p.M171V	.	.	57	4	41	0	.	93
FANCB	2187	bcgsc.ca	37	X	14883454	14883454	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FANCB	NM_152633	exon2	c.A179G	p.K60R	.	.	148	6	66	0	.	562
FANCD2	2177	bcgsc.ca	37	3	10108913	10108913	+	Missense_Mutation	SNP	G	G	T	rs80258959	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FANCD2	NM_001018115	exon26	c.G2406T	p.Q802H	.	.	101	7	42	0	G|0.990;T|0.010	229
FANCD2	2177	ucsc.edu;bcgsc.ca	37	3	10108898	10108898	+	Silent	SNP	A	A	G	rs77246387	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FANCD2	NM_001018115	exon26	c.A2391G	p.V797V	.	.	99	11	38	0	A|0.909;G|0.091	229
FAT2	2196	hgsc.bcm.edu	37	5	150886943	150886944	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FAT2	NM_001447	exon22	c.12289_12290insA	p.A4097fs	.	.	361	25	110	0	.	96
FAT4	79633	bcgsc.ca	37	4	126411758	126411758	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FAT4	NM_024582	exon17	c.A13781G	p.D4594G	.	.	111	5	120	1	.	108
FBXO34	55030	bcgsc.ca	37	14	55817837	55817837	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FBXO34	NM_017943	exon2	c.A729G	p.R243R	.	.	120	7	54	0	.	228
FEZF1	389549	bcgsc.ca	37	7	121943282	121943282	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FEZF1	NM_001024613	exon2	c.A885G	p.K295K	.	.	212	6	102	0	.	91
FGGY	55277	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	60223658	60223658	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FGGY	NM_001113411	exon16	c.A1640G	p.D547G	.	.	97	39	45	0	.	69
FOLH1	2346	broad.mit.edu	37	11	49194925	49194925	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FOLH1	NM_004476	exon10	c.A1209G	p.G403G	.	.	693	11	378	0	.	579
FPGT-TNNI3K	100526835	broad.mit.edu	37	1	74808814	74808814	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_001112808	exon11	c.A1186G	p.T396A	.	.	399	8	224	0	.	.
FRG1B	284802	bcgsc.ca	37	20	29623217	29623217	+	RNA	SNP	C	C	T	rs1061649		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FRG1B	.	.	.	.	.	.	1267	96	419	13	C|1.000;|0.000	22
FRG1B	284802	bcgsc.ca	37	20	29628236	29628236	+	RNA	SNP	G	G	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FRG1B	.	.	.	.	.	.	4334	129	1671	32	.	22
FSD1L	83856	bcgsc.ca	37	9	108270962	108270962	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_001145313	exon9	c.A861G	p.G287G	.	.	260	34	82	0	.	.
FZD7	8324	broad.mit.edu;mdanderson.org	37	2	202900125	202900125	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	FZD7	NM_003507	exon1	c.T755C	p.F252S	.	.	105	40	54	3	.	659
GALNT15	117248	bcgsc.ca	37	3	16250158	16250158	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_054110	exon4	c.T1060C	p.S354P	.	.	106	7	45	0	.	.
GIPC2	54810	bcgsc.ca	37	1	78585114	78585114	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	GIPC2	NM_017655	exon4	c.A645G	p.G215G	.	.	143	6	66	0	.	91
GIT1	28964	broad.mit.edu	37	17	27903678	27903678	+	Silent	SNP	C	C	A	rs143219325	alternate_allele	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	GIT1	NM_001085454	exon14	c.G1269T	p.S423S	.	.	108	4	25	0	C|1.000;T|0.000	251
GLDC	2731	bcgsc.ca	37	9	6645286	6645286	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	GLDC	NM_000170	exon1	c.G214A	p.D72N	.	.	163	6	123	0	.	92
GLRA2	2742	broad.mit.edu	37	X	14748589	14748589	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	GLRA2	NM_001118885	exon10	c.A1341G	p.E447E	.	.	284	8	113	0	.	131
GPATCH2L	55668	bcgsc.ca	37	14	76668057	76668057	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_017926	exon10	c.A1312G	p.T438A	.	.	171	6	77	0	.	.
GPR141	353345	broad.mit.edu	37	7	37780909	37780909	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	GPR141,NS,carcinoma,0	GPR141	NM_181791	exon1	c.G914T	p.R305L	.	.	287	39	107	0	.	93
GPX1	2876	broad.mit.edu	37	3	49395482	49395482	+	Missense_Mutation	SNP	G	G	C	rs75404373	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	GPX1	.	.	.	.	.	.	41	5	32	0	G|0.333;C|0.667	68
GRIN2B	2904	bcgsc.ca	37	12	13716702	13716702	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	GRIN2B	NM_000834	exon13	c.A3470G	p.E1157G	.	.	152	5	62	0	.	231
HCAR3	8843	broad.mit.edu	37	12	123201193	123201193	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	HCAR3	NM_006018	exon1	c.C92A	p.P31Q	.	.	105	4	73	0	.	2
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32629199	32629199	+	Missense_Mutation	SNP	T	T	C	rs9273651		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	HLA-DQB1	NM_002123	exon4	c.A697G	p.S233G	.	.	127	9	32	0	C|0.202;T|0.798	22
HNRNPCL1	343069	bcgsc.ca	37	1	12907358	12907358	+	Missense_Mutation	SNP	T	T	C	rs74587302		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	HNRNPCL1	NM_001013631	exon2	c.A785G	p.Q262R	.	.	285	18	123	0	.	68
HP1BP3	50809	bcgsc.ca	37	1	21091923	21091923	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	HP1BP3	NM_016287	exon8	c.T837C	p.S279S	.	.	137	5	78	0	.	91
HPS4	89781	bcgsc.ca	37	22	26860423	26860423	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	HPS4	NM_022081	exon11	c.T1173C	p.H391H	.	.	89	4	61	0	.	90
HPS6	79803	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	103825804	103825804	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	HPS6	NM_024747	exon1	c.C573T	p.F191F	.	.	28	9	18	0	.	90
HUNK	30811	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	21	33340695	33340695	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	HUNK	NM_014586	exon6	c.C1008A	p.N336K	.	.	90	28	56	0	.	334
IBSP	3381	bcgsc.ca	37	4	88733017	88733017	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	IBSP	NM_004967	exon7	c.A909G	p.Q303Q	.	.	69	4	52	0	.	90
IFITM3	10410	broad.mit.edu	37	11	320649	320649	+	Silent	SNP	G	G	A	rs11553885	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	IFITM3,brain,glioma,0	IFITM3	NM_021034	exon1	c.C165T	p.P55P	.	.	119	12	46	0	G|0.946;A|0.054	519
IGFBP7	3490	bcgsc.ca	37	4	57899379	57899379	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	IGFBP7	NM_001553	exon3	c.A684G	p.E228E	.	.	237	6	66	0	.	522
IL1RL2	8808	bcgsc.ca	37	2	102836390	102836390	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	IL1RL2	NM_003854	exon8	c.T904C	p.F302L	.	.	182	6	89	0	.	92
IL6ST	3572	bcgsc.ca	37	5	55259220	55259220	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	IL6ST	NM_175767	exon7	c.A773G	p.N258S	.	.	172	6	102	0	.	290
IL6ST	3572	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	55247872	55247872	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	IL6ST	NM_002184	exon13	c.A1584G	p.K528K	.	.	389	122	123	0	.	290
IQCG	84223	broad.mit.edu	37	3	197619551	197619551	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	IQCG	NM_032263	exon10	c.T1043C	p.L348P	.	.	1179	14	309	0	.	90
IRF4	3662	bcgsc.ca	37	6	407493	407493	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	IRF4	NM_002460	exon9	c.T1251C	p.A417A	.	.	330	8	155	0	.	659
ITGA7	3679	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	56087102	56087102	+	Splice_Site	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ITGA7	NM_001144996	exon21	c.2548-1G>A	.	.	.	101	24	29	0	.	229
ITPR3	3710	bcgsc.ca	37	6	33646548	33646548	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ITPR3	NM_002224	exon30	c.T3904C	p.F1302L	.	.	144	6	66	0	.	1085
JMJD7-PLA2G4B	8681	bcgsc.ca	37	15	42127052	42127052	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	JMJD7-PLA2G4B	NM_005090	exon2	c.A179G	p.H60R	.	.	90	4	57	0	.	135
KCNB1	3745	bcgsc.ca	37	20	47989904	47989904	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	KCNB1	NM_004975	exon2	c.T2193C	p.A731A	.	.	139	6	48	0	.	92
KIAA1549	57670	bcgsc.ca	37	7	138602767	138602767	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	KIAA1549	NM_020910	exon2	c.T1605C	p.D535D	.	.	61	4	36	0	.	369
KIF15	56992	bcgsc.ca	37	3	44835757	44835757	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	KIF15	NM_020242	exon8	c.A688G	p.N230D	.	.	140	5	71	0	.	91
KLHL13	90293	broad.mit.edu	37	X	117053482	117053482	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	KLHL13	NM_001168299	exon6	c.579+2T>C	.	.	.	204	6	131	0	.	556
KRTAP1-3	81850	bcgsc.ca	37	17	39190897	39190897	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_030966	exon1	c.T177C	p.S59S	.	.	114	20	86	1	.	.
KRTAP5-10	387273	mdanderson.org	37	11	71276681	71276681	+	Silent	SNP	T	T	C	rs113879786	bycluster;byfrequency;by1000genomes	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	KRTAP5-10	NM_001012710	exon1	c.T48C	p.G16G	.	.	141	116	94	8	T|0.717;C|0.283	91
KRTAP5-11	440051	broad.mit.edu;bcgsc.ca	37	11	71293828	71293834	+	Frame_Shift_Del	DEL	GAGCCAC	GAGCCAC	-	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	GAGCCAC	GAGCCAC	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	KRTAP5-11	NM_001005405	exon1	c.50_56del	p.17_19del	.	.	211	7	120	0	.	90
KRTAP5-4	387267	bcgsc.ca	37	11	1642985	1642985	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_001012709	exon1	c.C339T	p.S113S	.	.	194	63	135	9	.	.
KRTAP5-6	440023	bcgsc.ca	37	11	1718676	1718676	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	KRTAP5-6	NM_001012416	exon1	c.A201G	p.K67K	.	.	286	27	145	5	.	90
KRTAP5-7	440050	bcgsc.ca	37	11	71238541	71238541	+	Silent	SNP	A	A	G	rs199810185	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	KRTAP5-7	NM_001012503	exon1	c.A195G	p.G65G	.	.	264	41	157	2	A|0.996;G|0.004	68
LAG3	3902	broad.mit.edu;bcgsc.ca	37	12	6884573	6884573	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	LAG3	NM_002286	exon5	c.G916A	p.D306N	.	.	157	10	92	0	.	90
LAMA3	3909	bcgsc.ca	37	18	21422435	21422435	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	LAMA3	NM_001127717	exon28	c.A3413C	p.H1138P	.	.	255	41	138	5	.	100
LILRB1	10859	bcgsc.ca	37	19	55144147	55144147	+	Silent	SNP	C	C	T	rs74906426	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	LILRB1	NM_001081637	exon6	c.C894T	p.Y298Y	.	.	355	41	147	6	C|0.962;T|0.038	137
LOC344967	0	bcgsc.ca	37	4	40045445	40045445	+	RNA	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	.	.	.	.	.	.	89	4	56	0	.	.
LPHN2	23266	broad.mit.edu	37	1	82437591	82437591	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	LPHN2	NM_012302	exon15	c.T2959C	p.F987L	.	.	513	9	220	1	.	525
LRP1B	53353	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	141260598	141260598	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	LRP1B	NM_018557	exon54	c.G8596A	p.D2866N	.	.	289	96	111	0	.	311
LRRFIP2	9209	broad.mit.edu	37	3	37125293	37125293	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	LRRFIP2	NM_006309	exon20	c.C1112G	p.S371C	.	.	304	6	134	0	.	91
LRRK1	79705	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	15	101592005	101592005	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	LRRK1	NM_024652	exon24	c.G3529A	p.D1177N	.	.	200	12	74	0	.	602
LRSAM1	90678	bcgsc.ca	37	9	130219593	130219593	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	LRSAM1	NM_001190723	exon6	c.175-2A>G	.	.	.	73	5	35	0	.	90
LSM7	51690	ucsc.edu	37	19	2324156	2324156	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_016199	exon3	c.T137C	p.L46P	.	.	31	4	20	0	.	.
MAGEC1	9947	hgsc.bcm.edu	37	X	140993903	140993905	+	In_Frame_Del	DEL	GCC	GCC	-	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	GCC	GCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MAGEC1	NM_005462	exon4	c.713_715del	p.238_239del	.	.	246	24	113	0	.	133
MAML2	84441	hgsc.bcm.edu	37	11	95825206	95825206	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MAML2	NM_032427	exon2	c.G1989A	p.Q663Q	.	.	331	34	104	0	.	850
MAP3K3	4215	bcgsc.ca	37	17	61766963	61766963	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MAP3K3	NM_203351	exon12	c.T1024C	p.S342P	.	.	88	17	33	0	.	979
MAPK6	5597	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	15	52357196	52357196	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MAPK6	NM_002748	exon6	c.A2165G	p.X722X	.	.	279	110	170	0	.	1403
MED27	9442	bcgsc.ca	37	9	134759474	134759474	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MED27	NM_004269	exon6	c.T694C	p.S232P	.	.	119	5	62	0	.	69
MELK	9833	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	36630338	36630338	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MELK	NM_014791	exon9	c.A709G	p.I237V	.	.	118	41	56	0	.	760
METTL4	64863	broad.mit.edu;bcgsc.ca	37	18	2554721	2554721	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	METTL4	NM_022840	exon4	c.C776A	p.P259Q	.	.	220	6	107	0	.	227
MFGE8	4240	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	89450543	89450543	+	Silent	SNP	A	A	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MFGE8	NM_001114614	exon3	c.T270G	p.S90S	.	.	186	56	93	0	.	91
MFSD2B	388931	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	24240356	24240356	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MFSD2B	NM_001080473	exon6	c.G579A	p.L193L	.	.	127	26	59	0	.	24
MID2	11043	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	107169328	107169328	+	Silent	SNP	A	A	G	rs150570766	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MID2	NM_012216	exon9	c.A1602G	p.Q534Q	.	.	134	92	72	0	A|0.995;G|0.005	227
MINK1	50488	hgsc.bcm.edu	37	17	4796728	4796728	+	Splice_Site	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MINK1	NM_153827	exon21	c.2401-1G>A	.	.	.	125	8	70	0	.	943
MIR1283-2	100302205	broad.mit.edu;ucsc.edu;mdanderson.org	37	19	54261513	54261513	+	RNA	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	.	.	.	.	.	.	268	98	88	0	.	.
MLL2	8085	bcgsc.ca	37	12	49427862	49427862	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MLL2	NM_003482	exon38	c.A10728G	p.K3576K	.	.	214	6	45	0	.	612
MLL3	58508	bcgsc.ca	37	7	151962269	151962269	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MLL3	NM_170606	exon8	c.G1038A	p.V346V	.	.	378	15	136	1	.	1398
MLL3	58508	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	7	151833918	151833918	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MLL3	NM_170606	exon59	c.G14735T	p.X4912L	.	.	55	15	13	0	.	1398
MLL	4297	bcgsc.ca	37	11	118375641	118375641	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MLL	NM_001197104	exon27	c.T9034C	p.C3012R	.	.	184	6	83	0	.	1255
MMP19	4327	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	56230959	56230959	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MMP19	NM_002429	exon9	c.G1388T	p.R463I	.	.	554	291	160	1	.	227
MORF4L1	10933	broad.mit.edu	37	15	79186485	79186485	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MORF4L1	NM_206839	exon11	c.A832G	p.R278G	.	.	669	11	276	2	.	90
MPP7	143098	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	28420525	28420525	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MPP7	NM_173496	exon8	c.A411G	p.V137V	.	.	225	82	73	0	.	45
MRPL11	65003	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	11	66206166	66206166	+	Silent	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MRPL11	NM_170739	exon1	c.C60A	p.I20I	.	.	81	24	67	0	.	90
MSRB3	253827	broad.mit.edu	37	12	65672616	65672616	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MSRB3	NM_198080	exon1	c.T68C	p.L23P	.	.	389	16	149	0	.	515
MTERFD1	51001	bcgsc.ca	37	8	97251867	97251867	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MTERFD1	NM_015942	exon8	c.T1106C	p.L369P	.	.	162	5	56	0	.	91
MTF2	22823	broad.mit.edu;bcgsc.ca	37	1	93599537	93599537	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MTF2	NM_007358	exon13	c.G1319T	p.G440V	.	.	216	7	87	0	.	92
MUC17	140453	bcgsc.ca	37	7	100686323	100686323	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MUC17	NM_001040105	exon3	c.T11626C	p.L3876L	.	.	162	6	75	0	.	95
MUC21	394263	bcgsc.ca	37	6	30955043	30955043	+	Missense_Mutation	SNP	G	G	A	rs9262385	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MUC21	NM_001010909	exon2	c.G1091A	p.G364E	.	.	188	21	98	4	G|0.992;A|0.008	92
MUC2	4583	bcgsc.ca	37	11	1092926	1092926	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MUC2	NM_002457	exon30	c.C4745G	p.T1582R	.	.	181	9	201	3	.	90
MUC2	4583	broad.mit.edu	37	11	1092947	1092947	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MUC2	NM_002457	exon30	c.C4766A	p.T1589N	.	.	159	7	193	2	.	90
MUC2	4583	mdanderson.org	37	11	1093229	1093229	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MUC2	NM_002457	exon30	c.C5048T	p.T1683M	.	.	67	5	81	0	.	90
MUC4	4585	bcgsc.ca	37	3	195511911	195511911	+	Silent	SNP	G	G	A	rs200732241		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MUC4	NM_018406	exon2	c.C6540T	p.T2180T	.	.	663	47	306	4	G|0.998;A|0.002	90
MUC4	4585	broad.mit.edu	37	3	195511914	195511914	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MUC4	NM_018406	exon2	c.C6537T	p.V2179V	.	.	643	18	304	0	.	90
MUC4	4585	hgsc.bcm.edu	37	3	195518110	195518110	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MUC4	NM_018406	exon2	c.C341T	p.A114V	.	.	474	36	167	0	.	90
MUC6	4588	bcgsc.ca	37	11	1016871	1016871	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MUC6	NM_005961	exon31	c.C5930A	p.P1977H	.	.	2603	81	1710	37	.	23
MUC7	4589	bcgsc.ca	37	4	71347116	71347116	+	Missense_Mutation	SNP	C	C	T	rs41454651	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MUC7	NM_001145007	exon4	c.C655T	p.P219S	.	.	814	95	490	12	C|0.999;T|0.001	93
MYCT1	80177	hgsc.bcm.edu	37	6	153043057	153043058	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MYCT1	NM_025107	exon2	c.377_378insC	p.Y126fs	.	.	342	21	131	0	.	91
MYH14	79784	bcgsc.ca	37	19	50784990	50784990	+	Missense_Mutation	SNP	A	A	G	rs201541117		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MYH14	NM_001145809	exon33	c.A4430G	p.E1477G	.	.	58	23	70	5	.	23
MYH7B	57644	bcgsc.ca	37	20	33570303	33570303	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MYH7B	NM_020884	exon10	c.T695C	p.V232A	.	.	73	6	51	1	.	136
MYO19	80179	broad.mit.edu	37	17	34883902	34883902	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MYO19	NM_001163735	exon5	c.A144G	p.L48L	.	.	243	6	80	0	.	23
MYO5B	4645	broad.mit.edu;bcgsc.ca;mdanderson.org	37	18	47363917	47363917	+	Missense_Mutation	SNP	A	A	G	rs138128932	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MYO5B	NM_001080467	exon37	c.T5108C	p.V1703A	.	.	251	34	74	1	A|0.981;G|0.019	72
MYO5B	4645	ucsc.edu	37	18	47455891	47455891	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	MYO5B	NM_001080467	exon17	c.A2081G	p.Y694C	.	.	52	4	20	0	.	72
NAA38	51691	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	117828373	117828373	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	NAA38	NM_016200	exon3	c.G114T	p.L38F	.	.	161	53	99	0	.	90
NADK	65220	bcgsc.ca	37	1	1687779	1687779	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	NADK	NM_001198994	exon8	c.A938G	p.Y313C	.	.	49	4	29	0	.	44
NAGLU	4669	ucsc.edu	37	17	40695091	40695091	+	Missense_Mutation	SNP	A	A	C	rs201869866	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	NAGLU	NM_000263	exon6	c.A1067C	p.H356P	.	.	46	8	27	0	A|0.996;C|0.004	90
ND4	0	broad.mit.edu;bcgsc.ca	37	MT	11420	11420	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	ENST00000361381	exon1	c.G661A	p.V221I	.	.	549	504	476	0	.	.
NEDD9	4739	broad.mit.edu;bcgsc.ca	37	6	11191259	11191259	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	NEDD9	NM_001142393	exon6	c.T843C	p.C281C	.	.	236	8	80	1	.	226
NELFCD	51497	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	57561177	57561177	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_198976	exon2	c.T144A	p.D48E	.	.	135	63	78	0	.	.
NF1	4763	bcgsc.ca	37	17	29679431	29679431	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	NF1	NM_001042492	exon51	c.T7614C	p.L2538L	.	.	119	5	60	0	.	3353
NKX1-2	390010	bcgsc.ca	37	10	126136090	126136090	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_001146340	exon2	c.T841C	p.S281P	.	.	79	5	30	0	.	.
NOC2L	26155	ucsc.edu	37	1	881876	881876	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	NOC2L	NM_015658	exon15	c.T1709G	p.V570G	.	.	75	12	49	2	.	92
NPAP1	23742	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	24924085	24924085	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_018958	exon1	c.T3071C	p.M1024T	.	.	129	47	70	1	.	.
NR1D1	9572	broad.mit.edu	37	17	38253624	38253624	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	NR1D1	NM_021724	exon2	c.T64C	p.S22P	.	.	89	13	81	10	.	226
NR1D1	9572	ucsc.edu	37	17	38253621	38253621	+	Missense_Mutation	SNP	A	A	G	rs201066687		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	NR1D1	NM_021724	exon2	c.T67C	p.S23P	.	.	94	32	83	18	.	226
NR1H2	7376	bcgsc.ca	37	19	50883122	50883122	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	NR1H2	NM_007121	exon8	c.A1013G	p.D338G	.	.	109	6	50	0	.	186
NRIP1	8204	broad.mit.edu	37	21	16339281	16339281	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	NRIP1	NM_003489	exon4	c.T1233C	p.P411P	.	.	577	7	267	0	.	186
NT5DC3	51559	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	104208729	104208729	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	NT5DC3	NM_001031701	exon2	c.A379G	p.I127V	.	.	530	288	158	0	.	228
NUAK1	9891	bcgsc.ca	37	12	106500245	106500245	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	NUAK1	NM_014840	exon2	c.T299C	p.I100T	.	.	207	6	67	0	.	359
NUMA1	4926	ucsc.edu	37	11	71724785	71724785	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	NUMA1	NM_006185	exon15	c.T3764G	p.V1255G	.	.	77	18	27	1	.	633
OBSCN	84033	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	228462084	228462084	+	Silent	SNP	C	C	T	rs202200633		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	OBSCN	NM_001271223	exon23	c.C6747T	p.D2249D	.	.	127	56	86	0	C|0.996;T|0.004	403
ODF3L1	161753	ucsc.edu;bcgsc.ca	37	15	76019647	76019647	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ODF3L1	NM_175881	exon4	c.A591G	p.G197G	.	.	70	19	31	1	.	68
OOEP	441161	broad.mit.edu;bcgsc.ca	37	6	74078996	74078996	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_001080507	exon2	c.T303C	p.R101R	.	.	263	9	84	0	.	.
OPALIN	93377	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	98108095	98108095	+	Missense_Mutation	SNP	T	T	C	rs113141694		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	OPALIN	NM_033207	exon5	c.A200G	p.D67G	.	.	93	23	37	0	T|0.500;C|0.500	68
OPRM1	4988	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	154331688	154331688	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	OPRM1	NM_001145281	exon1	c.C41T	p.P14L	.	.	115	31	47	0	.	69
OR2B11	127623	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	247615077	247615077	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	OR2B11	NM_001004492	exon1	c.208delC	p.L70fs	.	.	223	46	75	0	.	69
OR2T4	127074	bcgsc.ca	37	1	248524967	248524967	+	Missense_Mutation	SNP	A	A	G	rs200915140		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	OR2T4	NM_001004696	exon1	c.A85G	p.M29V	.	.	845	43	256	3	.	68
OR51I2	390064	broad.mit.edu	37	11	5475361	5475361	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	OR51I2	NM_001004754	exon1	c.T643C	p.F215L	.	.	880	11	273	0	.	72
OR5P2	120065	bcgsc.ca	37	11	7818499	7818499	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	OR5P2	.	.	.	.	.	.	40	17	26	0	.	496
OR8I2	120586	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	55861148	55861148	+	Missense_Mutation	SNP	G	G	T	rs148027692	alternate_allele	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	OR8I2	NM_001003750	exon1	c.G365T	p.R122L	.	.	175	58	80	1	G|1.000;A|0.000	113
OSR1	130497	bcgsc.ca	37	2	19553255	19553255	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	OSR1	NM_145260	exon2	c.T312C	p.A104A	.	.	87	4	46	0	.	257
OTOF	9381	bcgsc.ca	37	2	26693564	26693564	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	OTOF	NM_194248	exon32	c.A3920G	p.K1307R	.	.	122	5	32	0	.	135
PAPOLA	10914	bcgsc.ca	37	14	97010517	97010517	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PAPOLA	NM_032632	exon15	c.T1321C	p.L441L	.	.	175	6	93	0	.	68
PAPPA	5069	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	119115996	119115996	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PAPPA	NM_002581	exon17	c.G4271C	p.G1424A	.	.	276	102	118	0	.	77
PAX3	5077	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	2	223163313	223163313	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PAX3	NM_181457	exon1	c.G22T	p.V8L	.	.	96	30	44	0	.	1821
PCCA	5095	bcgsc.ca	37	13	100925582	100925582	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PCCA	NM_001178004	exon12	c.A1047G	p.E349E	.	.	83	4	81	0	.	227
PDE12	201626	broad.mit.edu	37	3	57545500	57545500	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PDE12	NM_177966	exon3	c.T1599C	p.S533S	.	.	583	9	238	1	.	22
PDE3A	5139	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	20833113	20833113	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PDE3A	NM_000921	exon16	c.T3334A	p.S1112T	.	.	402	87	203	0	.	94
PDE4A	5141	bcgsc.ca	37	19	10568564	10568564	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PDE4A	NM_001111307	exon8	c.A887G	p.N296S	.	.	67	4	45	0	.	523
PDGFD	80310	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	103797732	103797732	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PDGFD	NM_025208	exon6	c.G895A	p.V299M	.	.	137	51	61	0	.	723
PHF23	79142	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	7139869	7139869	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PHF23	NM_024297	exon4	c.C377G	p.T126S	.	.	137	37	66	0	.	90
PHLPP2	23035	bcgsc.ca	37	16	71736593	71736593	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PHLPP2	NM_015020	exon2	c.A326G	p.D109G	.	.	136	6	46	0	.	91
PIAS2	9063	bcgsc.ca	37	18	44470560	44470560	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PIAS2	NM_173206	exon2	c.T482C	p.I161T	.	.	184	6	76	0	.	662
PIK3CB	5291	bcgsc.ca	37	3	138375015	138375015	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PIK3CB	NM_006219	exon21	c.T3044C	p.L1015P	.	.	155	6	84	1	.	1311
PIWIL3	440822	bcgsc.ca	37	22	25150798	25150798	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PIWIL3	NM_001008496	exon7	c.T726C	p.G242G	.	.	130	6	100	0	.	93
PKNOX2	63876	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	125237753	125237753	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PKNOX2	NM_022062	exon5	c.C99T	p.T33T	.	.	156	53	73	0	.	93
PLA1A	51365	bcgsc.ca	37	3	119325711	119325711	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PLA1A	NM_001206960	exon2	c.T164C	p.L55P	.	.	141	6	45	0	.	92
PLD3	23646	bcgsc.ca	37	19	40880470	40880470	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PLD3	NM_012268	exon10	c.T962C	p.F321S	.	.	149	6	73	0	.	228
PLEKHA5	54477	bcgsc.ca	37	12	19519034	19519034	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PLEKHA5	NM_001256470	exon30	c.A3745G	p.T1249A	.	.	76	4	46	0	.	227
PLRG1	5356	bcgsc.ca	37	4	155458570	155458570	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PLRG1	NM_002669	exon14	c.C1353T	p.H451H	.	.	97	4	50	0	.	90
PNMA2	10687	bcgsc.ca	37	8	26366014	26366014	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PNMA2	NM_007257	exon3	c.G258A	p.G86G	.	.	71	4	38	0	.	90
POFUT2	23275	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	21	46707671	46707671	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	POFUT2	NM_015227	exon1	c.C116T	p.A39V	.	.	54	21	30	0	.	90
PPCDC	60490	bcgsc.ca	37	15	75335811	75335811	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PPCDC	NM_021823	exon3	c.A165G	p.R55R	.	.	103	5	38	1	.	90
PPP4R4	57718	bcgsc.ca	37	14	94722940	94722940	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PPP4R4	NM_058237	exon17	c.G2009T	p.R670I	.	.	84	4	50	0	.	94
PRICKLE4	29964	bcgsc.ca	37	6	41754516	41754516	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PRICKLE4	NM_013397	exon8	c.C804T	p.D268D	.	.	61	4	41	0	.	22
PRPS2	5634	bcgsc.ca	37	X	12817501	12817501	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PRPS2	NM_001039091	exon2	c.A298G	p.K100E	.	.	66	4	52	0	.	130
PRSS12	8492	broad.mit.edu	37	4	119229706	119229706	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PRSS12	NM_003619	exon8	c.G1516A	p.E506K	.	.	225	5	127	0	.	91
PSD3	23362	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	18730127	18730127	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PSD3	NM_015310	exon3	c.G247C	p.A83P	.	.	77	46	61	1	.	93
PSMB8	5696	bcgsc.ca	37	6	32810787	32810787	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PSMB8	NM_148919	exon2	c.T227C	p.L76P	.	.	162	6	43	0	.	91
PTK2B	2185	ucsc.edu;bcgsc.ca	37	8	27288457	27288457	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PTK2B	NM_173174	exon13	c.A734G	p.E245G	.	.	39	4	43	0	.	1378
PTPN22	26191	bcgsc.ca	37	1	114397615	114397615	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PTPN22	NM_015967	exon8	c.T597C	p.P199P	.	.	249	8	96	0	.	227
PTPRB	5787	broad.mit.edu	37	12	70988255	70988255	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PTPRB	NM_001109754	exon6	c.T1508C	p.V503A	.	.	259	6	90	1	.	226
PTPRH	5794	broad.mit.edu	37	19	55716805	55716805	+	Missense_Mutation	SNP	G	G	A	rs200319382		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PTPRH	NM_002842	exon4	c.C508T	p.H170Y	.	.	437	9	143	0	.	138
PUM1	9698	bcgsc.ca	37	1	31501662	31501662	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	PUM1	NM_014676	exon3	c.A413G	p.E138G	.	.	82	4	53	0	.	92
QRFPR	84109	bcgsc.ca	37	4	122301514	122301514	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	QRFPR	NM_198179	exon1	c.T289C	p.F97L	.	.	49	4	33	0	.	90
QRSL1	55278	broad.mit.edu;bcgsc.ca	37	6	107111007	107111007	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	QRSL1	NM_018292	exon10	c.A1313G	p.N438S	.	.	221	8	106	0	.	90
QSOX1	5768	bcgsc.ca	37	1	180147934	180147934	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	QSOX1	NM_002826	exon5	c.A521G	p.E174G	.	.	283	52	90	0	.	91
RAB11FIP3	9727	bcgsc.ca	37	16	560761	560761	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	RAB11FIP3	NM_014700	exon9	c.A1601G	p.E534G	.	.	98	4	49	0	.	90
RAPSN	5913	bcgsc.ca	37	11	47462714	47462714	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	RAPSN	NM_005055	exon6	c.A962G	p.N321S	.	.	60	4	31	0	.	91
RASSF3	283349	bcgsc.ca	37	12	65088582	65088582	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	RASSF3	NM_178169	exon5	c.C607T	p.R203C	.	.	149	5	37	0	.	839
RBM6	10180	bcgsc.ca	37	3	50098637	50098637	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	RBM6	NM_005777	exon13	c.A2336G	p.N779S	.	.	120	5	69	0	.	280
RBMXL3	139804	mdanderson.org	37	X	114425196	114425196	+	Missense_Mutation	SNP	G	G	A	rs12399211		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_001145346	exon1	c.G1192A	p.D398N	.	.	59	24	30	0	G|0.483;A|0.517	.
RHD	6007	bcgsc.ca	37	1	25629943	25629943	+	Missense_Mutation	SNP	A	A	C	rs590787	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	RHD	NM_001127691	exon6	c.A932C	p.Y311S	.	.	83	50	86	8	G|0.188;A|0.812	153
RNF213	57674	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	78328292	78328292	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	RNF213	NM_001256071	exon36	c.A10778G	p.Q3593R	.	.	90	22	27	0	.	577
RPF2	84154	broad.mit.edu	37	6	111346721	111346721	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	RPF2	NM_032194	exon10	c.A857G	p.K286R	.	.	500	7	199	0	.	92
S1PR1	1901	bcgsc.ca	37	1	101704923	101704923	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	S1PR1	NM_001400	exon2	c.T383C	p.L128P	.	.	187	6	73	0	.	524
SCAF8	22828	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	155109132	155109132	+	Missense_Mutation	SNP	A	A	T	rs149559791	byfrequency;alternate_allele	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SCAF8	NM_014892	exon4	c.A297T	p.L99F	.	.	203	66	91	2	A|0.999;G|0.001	91
SCAPER	49855	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	77087747	77087747	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SCAPER	NM_020843	exon7	c.G646A	p.A216T	.	.	113	34	87	0	.	137
SCEL	8796	bcgsc.ca	37	13	78143574	78143574	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SCEL	NM_003843	exon8	c.T467C	p.V156A	.	.	73	4	31	0	.	95
SCN1A	6323	broad.mit.edu	37	2	166854550	166854550	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SCN1A	NM_001165963	exon23	c.A4474G	p.K1492E	.	.	572	8	331	0	.	147
SDAD1	55153	bcgsc.ca	37	4	76894472	76894472	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SDAD1	NM_018115	exon8	c.G709A	p.E237K	.	.	125	5	91	0	.	91
SDCBP	6386	bcgsc.ca	37	8	59492211	59492211	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SDCBP	NM_001007067	exon7	c.A608G	p.K203R	.	.	180	6	57	0	.	90
SDHAP1	255812	broad.mit.edu	37	3	195711423	195711423	+	RNA	SNP	A	A	G	rs2688559		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	.	.	.	.	.	.	80	7	35	1	.	.
SDHAP1	255812	ucsc.edu	37	3	195690251	195690251	+	RNA	SNP	A	A	G	rs2638931	bycluster;by2hit2allele	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	.	.	.	.	.	.	218	90	50	9	.	.
SDK1	221935	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	4009044	4009044	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SDK1	NM_152744	exon11	c.C1702T	p.L568F	.	.	74	31	30	0	.	138
SEC24B	10427	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	110447421	110447421	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SEC24B	NM_006323	exon17	c.G2831A	p.R944H	.	.	276	19	162	0	.	137
SEC31A	22872	bcgsc.ca	37	4	83742234	83742234	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SEC31A	NM_001077207	exon26	c.A3439G	p.S1147G	.	.	129	5	56	0	.	268
SEMA3E	9723	ucsc.edu;bcgsc.ca;mdanderson.org	37	7	82997179	82997179	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SEMA3E	NM_012431	exon17	c.A2051G	p.K684R	.	.	226	88	145	3	.	93
SEMA4D	10507	broad.mit.edu	37	9	91993853	91993853	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SEMA4D	NM_006378	exon18	c.T2355C	p.R785R	.	.	354	9	163	0	.	92
SEMA6D	80031	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	48057214	48057214	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SEMA6D	NM_153617	exon13	c.G1388T	p.S463I	.	.	109	30	46	0	.	138
SERINC4	619189	bcgsc.ca	37	15	44090679	44090679	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SERINC4	NM_001258031	exon4	c.T482C	p.F161S	.	.	174	5	89	0	.	90
SLC15A1	6564	bcgsc.ca	37	13	99378463	99378463	+	Silent	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SLC15A1	NM_005073	exon4	c.C159A	p.T53T	.	.	146	6	76	0	.	91
SLC26A11	284129	bcgsc.ca	37	17	78226477	78226477	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SLC26A11	NM_173626	exon18	c.T1783C	p.S595P	.	.	109	5	35	0	.	90
SLC30A7	148867	broad.mit.edu	37	1	101362138	101362138	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SLC30A7	NM_133496	exon2	c.C93T	p.S31S	.	.	544	7	236	0	.	90
SLC35E2B	728661	bcgsc.ca	37	1	1597432	1597432	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_001110781	exon9	c.T1007C	p.L336S	.	.	72	4	65	0	.	.
SLC36A2	153201	bcgsc.ca	37	5	150701678	150701678	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SLC36A2	NM_181776	exon9	c.T1109C	p.I370T	.	.	243	9	73	0	.	91
SLC39A4	55630	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	145639418	145639418	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SLC39A4	NM_130849	exon7	c.T1211A	p.L404Q	.	.	159	50	55	1	.	90
SLC39A6	25800	broad.mit.edu	37	18	33694307	33694307	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SLC39A6	NM_012319	exon7	c.A1596G	p.V532V	.	.	580	6	224	1	.	92
SLC41A2	84102	broad.mit.edu	37	12	105322106	105322106	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SLC41A2	NM_032148	exon1	c.A200G	p.D67G	.	.	1733	11	418	1	.	92
SLC7A6	9057	bcgsc.ca	37	16	68324430	68324430	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SLC7A6	NM_003983	exon5	c.A781G	p.K261E	.	.	78	5	41	0	.	90
SLC8A1	6546	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	40656836	40656836	+	Silent	SNP	T	T	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SLC8A1	NM_001252624	exon1	c.A585C	p.T195T	.	.	189	94	71	0	.	93
SLCO1A2	6579	bcgsc.ca	37	12	21450466	21450466	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SLCO1A2	NM_134431	exon10	c.C947T	p.P316L	.	.	88	4	63	0	.	157
SMPDL3B	27293	bcgsc.ca	37	1	28285116	28285116	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SMPDL3B	NM_014474	exon8	c.C1135T	p.L379L	.	.	80	4	49	0	.	93
SNTB1	6641	bcgsc.ca	37	8	121705975	121705975	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SNTB1	NM_021021	exon2	c.T745C	p.C249R	.	.	221	7	53	0	.	228
SNX12	29934	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	70281775	70281775	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SNX12	NM_001256185	exon4	c.C304G	p.L102V	.	.	96	36	58	1	.	226
SOGA2	23255	bcgsc.ca	37	18	8825135	8825135	+	Silent	SNP	T	T	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_015210	exon15	c.T3627G	p.G1209G	.	.	69	20	57	3	.	.
SPATA31A6	389730	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	9	43630592	43630592	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_001145196	exon1	c.G110A	p.G37E	.	.	30	11	17	0	.	.
SPDYE1	285955	bcgsc.ca	37	7	44046934	44046934	+	Missense_Mutation	SNP	G	G	A	rs200388629	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	SPDYE1,NS,carcinoma,-2	SPDYE1	NM_175064	exon5	c.G700A	p.G234R	.	.	522	28	246	1	G|0.981;A|0.019	91
SPRR3	6707	mdanderson.org	37	1	152975715	152975715	+	Silent	SNP	C	C	T	rs63405761	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SPRR3	NM_001097589	exon2	c.C219T	p.G73G	.	.	92	21	52	1	A|0.000;C|0.697;T|0.303	45
SRGAP1	57522	bcgsc.ca	37	12	64410776	64410776	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SRGAP1	NM_020762	exon4	c.T473C	p.L158P	.	.	235	6	92	0	.	653
SRMS	6725	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	20	62178615	62178615	+	Missense_Mutation	SNP	C	C	T	rs149894938		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SRMS	NM_080823	exon1	c.G202A	p.G68R	.	.	49	18	34	0	C|1.000;T|0.000	521
SRP54	6729	bcgsc.ca	37	14	35497375	35497375	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SRP54	NM_003136	exon15	c.T1409C	p.V470A	.	.	233	7	126	0	.	227
SRRM5	100170229	bcgsc.ca	37	19	44117582	44117582	+	Missense_Mutation	SNP	T	T	C	rs10410000		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_001145641	exon1	c.T1309C	p.C437R	.	.	100	30	115	4	C|1.000;|0.000	.
SSH3	54961	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	67075197	67075197	+	Silent	SNP	C	C	T	rs79688961	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SSH3	NM_017857	exon7	c.C780T	p.A260A	.	.	118	42	47	0	C|0.999;T|0.001	91
STAG1	10274	bcgsc.ca	37	3	136162188	136162188	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	STAG1	NM_005862	exon15	c.T1487C	p.L496S	.	.	191	6	57	0	.	228
STAT4	6775	broad.mit.edu	37	2	191923439	191923439	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	STAT4	NM_001243835	exon11	c.A1091G	p.D364G	.	.	316	6	174	0	.	914
SUGT1	10910	bcgsc.ca	37	13	53241005	53241005	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SUGT1	NM_001130912	exon11	c.T674C	p.L225P	.	.	168	6	123	0	.	226
SUPT20H	55578	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	37599542	37599542	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_017569	exon17	c.A1247G	p.N416S	.	.	265	83	121	0	.	.
SYNE1	23345	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	152676100	152676100	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SYNE1	NM_033071	exon67	c.A10641G	p.V3547V	.	.	73	31	26	0	.	607
SYTL2	54843	broad.mit.edu	37	11	85418509	85418509	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	SYTL2	NM_206927	exon8	c.A3080G	p.K1027R	.	.	573	7	213	0	.	137
TARM1	441864	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	54573335	54573335	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_001135686	exon5	c.C738G	p.I246M	.	.	97	24	40	0	.	.
TCHH	7062	bcgsc.ca	37	1	152083665	152083665	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	TCHH	NM_007113	exon3	c.T2028G	p.H676Q	.	.	345	29	149	1	.	72
TDRD9	122402	hgsc.bcm.edu	37	14	104472995	104472996	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	TDRD9	NM_153046	exon17	c.1892_1893insT	p.S631fs	.	.	240	15	177	0	.	70
THADA	63892	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	2	43819171	43819171	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	THADA	NM_001083953	exon3	c.G91T	p.E31X	.	.	297	179	101	0	.	228
TM4SF18	116441	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	149051080	149051080	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	TM4SF18	NM_001184723	exon1	c.C90T	p.F30F	.	.	375	107	87	0	.	69
TMEM127	55654	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	2	96919804	96919804	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	TMEM127	NM_001193304	exon4	c.C459T	p.L153L	.	.	129	11	55	0	.	90
TMPRSS9	360200	bcgsc.ca	37	19	2424096	2424096	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	TMPRSS9	NM_182973	exon14	c.2456delT	p.L819fs	.	.	6	3	34	0	.	91
TNFRSF10A	8797	bcgsc.ca	37	8	23057397	23057397	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	TNFRSF10A	NM_003844	exon8	c.831+2T>C	.	.	.	94	5	36	0	.	1086
TNXB	7148	bcgsc.ca	37	6	32052344	32052344	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	TNXB	NM_019105	exon8	c.A3291G	p.K1097K	.	.	109	5	56	0	.	90
TOR3A	64222	bcgsc.ca	37	1	179063344	179063344	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	TOR3A	NM_022371	exon5	c.A935G	p.E312G	.	.	79	5	33	0	.	90
TRAK2	66008	bcgsc.ca	37	2	202262895	202262895	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	TRAK2	NM_015049	exon6	c.A663G	p.E221E	.	.	206	6	67	0	.	90
TRIM41	90933	bcgsc.ca	37	5	180651336	180651336	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	TRIM41	NM_201627	exon1	c.A337G	p.S113G	.	.	257	8	98	0	.	226
TSC2	7249	bcgsc.ca	37	16	2113019	2113019	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	TSC2	NM_001114382	exon14	c.T1408C	p.S470P	.	.	228	10	54	0	.	1908
TSPAN6	7105	bcgsc.ca	37	X	99888522	99888522	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	TSPAN6	NM_003270	exon5	c.T465C	p.G155G	.	.	171	5	112	0	.	131
TTC37	9652	bcgsc.ca	37	5	94842698	94842698	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	TTC37	NM_014639	exon30	c.A3032G	p.Q1011R	.	.	159	5	98	0	.	94
UBA6	55236	bcgsc.ca	37	4	68501185	68501185	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	UBA6	NM_018227	exon20	c.T1828C	p.S610P	.	.	128	5	38	0	.	90
UBE2O	63893	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	74387574	74387574	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	UBE2O	NM_022066	exon18	c.A3329T	p.Q1110L	.	.	178	40	82	0	.	272
UBXN11	91544	bcgsc.ca	37	1	26609221	26609221	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	UBXN11	NM_183008	exon15	c.A1211G	p.E404G	.	.	97	4	55	0	.	91
UBXN11	91544	bcgsc.ca	37	1	26623462	26623462	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	UBXN11	NM_183008	exon8	c.A380G	p.E127G	.	.	162	30	137	4	.	91
UBXN8	7993	bcgsc.ca	37	8	30623795	30623795	+	RNA	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	UBXN8	.	.	.	.	.	.	92	4	74	0	.	90
UNC13C	440279	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	54435882	54435882	+	Splice_Site	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	UNC13C	NM_001080534	exon3	c.3071+1G>A	.	.	.	224	67	72	0	.	51
UNG	7374	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	109540669	109540669	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	UNG	NM_080911	exon5	c.T559C	p.S187P	.	.	187	49	59	0	.	1083
USP34	9736	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	61415443	61415443	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	USP34	NM_014709	exon80	c.G10435C	p.D3479H	.	.	149	83	55	0	.	579
USP48	84196	bcgsc.ca	37	1	22055205	22055205	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	USP48	NM_001032730	exon11	c.T1308C	p.L436L	.	.	120	5	116	0	.	659
UVRAG	7405	bcgsc.ca	37	11	75694487	75694487	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	UVRAG	NM_003369	exon8	c.A756G	p.E252E	.	.	161	5	86	0	.	229
VAT1	10493	bcgsc.ca	37	17	41174053	41174053	+	Missense_Mutation	SNP	C	C	T	rs199661857		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	VAT1	NM_006373	exon1	c.G287A	p.R96K	.	.	38	20	67	1	.	90
VAT1	10493	broad.mit.edu	37	17	41168144	41168144	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	VAT1	NM_006373	exon6	c.A1116G	p.K372K	.	.	255	6	75	0	.	90
VCAN	1462	bcgsc.ca	37	5	82833674	82833674	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	VCAN	NM_004385	exon8	c.A4852G	p.S1618G	.	.	117	5	83	0	.	238
VPS13B	157680	broad.mit.edu	37	8	100454681	100454681	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	VPS13B	NM_152564	exon23	c.C3263T	p.P1088L	.	.	715	11	300	0	.	301
VPS13D	55187	bcgsc.ca	37	1	12405564	12405564	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	VPS13D	NM_015378	exon43	c.A9019G	p.T3007A	.	.	140	7	93	0	.	95
VTI1A	143187	bcgsc.ca	37	10	114298039	114298039	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	VTI1A	NM_145206	exon5	c.A377G	p.E126G	.	.	253	43	179	5	.	91
VWA2	340706	bcgsc.ca	37	10	116042302	116042302	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	VWA2	NM_001272046	exon9	c.T861C	p.P287P	.	.	152	5	49	0	.	156
VWA8	23078	bcgsc.ca	37	13	42460151	42460151	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	NM_015058	exon8	c.T880C	p.L294L	.	.	146	6	105	0	.	.
WDFY4	57705	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	50040632	50040632	+	Missense_Mutation	SNP	T	T	C	rs3747871	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	WDFY4	NM_020945	exon39	c.T6541C	p.S2181P	.	.	143	21	43	0	T|0.998;C|0.002	22
WDFY4	57705	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	50028385	50028385	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	WDFY4	NM_020945	exon33	c.G5612A	p.R1871Q	.	.	180	65	78	0	.	22
WDR16	146845	bcgsc.ca	37	17	9489151	9489151	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	WDR16	NM_145054	exon2	c.T132C	p.G44G	.	.	116	5	62	0	.	71
WHSC1L1	54904	bcgsc.ca	37	8	38187326	38187326	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	WHSC1L1	NM_017778	exon6	c.A1151G	p.E384G	.	.	82	4	95	0	.	658
WNK1	65125	broad.mit.edu	37	12	977486	977486	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	WNK1	NM_213655	exon10	c.A2849G	p.Y950C	.	.	155	4	69	0	.	916
WNK2	65268	bcgsc.ca	37	9	95997213	95997213	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	WNK2	NM_006648	exon4	c.A1199T	p.Q400L	.	.	131	5	49	0	.	765
XPO5	57510	bcgsc.ca	37	6	43494464	43494464	+	Missense_Mutation	SNP	T	T	C	rs115410573	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	XPO5	NM_020750	exon27	c.A2942G	p.K981R	.	.	267	7	87	0	T|0.997;C|0.003	271
XRCC6P5	0	bcgsc.ca	37	X	98975715	98975715	+	RNA	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	.	.	.	.	.	.	43	5	34	0	.	.
YLPM1	56252	bcgsc.ca	37	14	75276955	75276955	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	YLPM1	NM_019589	exon9	c.A5060G	p.D1687G	.	.	163	5	91	0	.	71
YY2	404281	bcgsc.ca	37	X	21875713	21875713	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	YY2	NM_206923	exon1	c.A1111G	p.N371D	.	.	93	5	61	0	.	193
ZBTB8A	653121	bcgsc.ca	37	1	33065956	33065956	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZBTB8A	NM_001040441	exon5	c.T1262C	p.V421A	.	.	74	4	78	0	.	153
ZC3H11A	9877	broad.mit.edu	37	1	203821508	203821508	+	Nonsense_Mutation	SNP	C	C	G	rs3911884		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZC3H11A	NM_014827	exon20	c.C2414G	p.S805X	.	.	354	8	158	1	.	515
ZDHHC11	79844	ucsc.edu	37	5	840661	840661	+	Missense_Mutation	SNP	A	A	G	rs201008730		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	ZDHHC11_ENST00000424784,NS,carcinoid-endocrine_tumour,0	ZDHHC11	NM_024786	exon5	c.T733C	p.F245L	.	.	53	9	36	2	.	92
ZDHHC18	84243	bcgsc.ca	37	1	27180290	27180290	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZDHHC18	NM_032283	exon8	c.T1123C	p.C375R	.	.	69	4	66	0	.	90
ZFHX4	79776	bcgsc.ca	37	8	77761277	77761277	+	Silent	SNP	T	T	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZFHX4	NM_024721	exon7	c.T3558G	p.G1186G	.	.	368	96	226	16	.	98
ZNF132	7691	bcgsc.ca	37	19	58945689	58945689	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZNF132	NM_003433	exon3	c.T1122C	p.P374P	.	.	170	6	68	0	.	92
ZNF181	339318	broad.mit.edu	37	19	35232368	35232368	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZNF181	NM_001029997	exon4	c.G1082C	p.R361T	.	.	229	9	108	1	.	91
ZNF280B	140883	bcgsc.ca	37	22	22842518	22842518	+	Silent	SNP	G	G	A	rs73156173	byfrequency	TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZNF280B	NM_080764	exon4	c.C1206T	p.P402P	.	.	247	26	167	4	G|0.985;A|0.015	70
ZNF454	285676	bcgsc.ca	37	5	178392529	178392529	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZNF454	NM_001178089	exon5	c.A1124G	p.Q375R	.	.	113	6	38	0	.	93
ZNF512B	57473	bcgsc.ca	37	20	62591380	62591380	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZNF512B	NM_020713	exon17	c.A2540G	p.K847R	.	.	215	9	73	0	.	90
ZNF518A	9849	broad.mit.edu;ucsc.edu;mdanderson.org	37	10	97916784	97916784	+	RNA	SNP	G	G	T	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZNF518A	.	.	.	.	.	.	203	66	98	0	.	23
ZNF532	55205	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	56651549	56651549	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZNF532	NM_018181	exon11	c.G3757A	p.E1253K	.	.	232	84	125	0	.	154
ZNF563	147837	bcgsc.ca	37	19	12429527	12429527	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZNF563	NM_145276	exon4	c.A1312G	p.R438G	.	.	225	6	82	0	.	90
ZNF570	148268	bcgsc.ca	37	19	37967306	37967306	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZNF570	NM_144694	exon4	c.A226G	p.K76E	.	.	161	5	60	0	.	91
ZNF572	137209	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	125987939	125987939	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZNF572	NM_152412	exon2	c.G57A	p.E19E	.	.	278	64	108	0	.	154
ZNF732	654254	bcgsc.ca	37	4	265320	265320	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZNF732	NM_001137608	exon3	c.A1323G	p.G441G	.	.	179	6	58	0	.	22
ZNF799	90576	hgsc.bcm.edu	37	19	12502155	12502155	+	Missense_Mutation	SNP	T	T	G	rs201335235		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZNF799	NM_001080821	exon4	c.A1057C	p.K353Q	.	.	226	11	90	0	.	74
ZNHIT6	54680	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	86173940	86173940	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	ZNHIT6	NM_017953	exon1	c.A28C	p.K10Q	.	.	56	16	39	0	.	153
MUC4	4585	hgsc.bcm.edu	37	3	195518119	195518120	+	Missense_Mutation	DNP	AT	AT	TG	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	.	.	.	p.M111Q	.	.	.	.	.	.	.	
C7orf49	78996	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	134852549	134852550	+	Missense_Mutation	DNP	TC	TC	AA	novel		TCGA-BC-A10T-01A-11D-A12Z-10	TCGA-BC-A10T-11A-11D-A16Z-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f755c284-603b-4eac-93b5-5d67fbd723da	ce57ada9-1bc1-4997-8890-8c7eca99c411	.	.	.	.	.	p.T50S	.	.	.	.	.	.	.	
