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
ABCA1	19	bcgsc.ca	37	9	107599813	107599813	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ABCA1	NM_005502	exon10	c.T1090C	p.S364P	.	.	50	4	63	0	.	1016
ACAT2	39	bcgsc.ca	37	6	160189617	160189617	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ACAT2	NM_005891	exon4	c.T447C	p.D149D	.	.	186	7	234	0	.	91
ACTN3	89	bcgsc.ca	37	11	66329602	66329602	+	RNA	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ACTN3	.	.	.	.	.	.	95	5	125	0	.	90
ACVR1	90	bcgsc.ca	37	2	158637014	158637014	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ACVR1	NM_001105	exon4	c.T166C	p.S56P	.	.	119	5	114	1	.	980
ADAT1	23536	bcgsc.ca	37	16	75646699	75646699	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ADAT1	NM_012091	exon7	c.T485C	p.F162S	.	.	156	7	186	2	.	92
AGBL1	123624	bcgsc.ca	37	15	86807766	86807766	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	NM_152336	exon10	c.A1226G	p.E409G	.	.	107	5	105	0	.	.
AIDA	64853	bcgsc.ca	37	1	222860946	222860946	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	AIDA	NM_022831	exon5	c.T344C	p.V115A	.	.	210	6	240	0	.	90
AIFM2	84883	bcgsc.ca	37	10	71883239	71883239	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	AIFM2	NM_032797	exon3	c.T216C	p.T72T	.	.	53	4	55	0	.	90
ALDOB	229	bcgsc.ca	37	9	104189826	104189826	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ALDOB	NM_000035	exon5	c.T478C	p.S160P	.	.	81	7	121	12	.	226
ANK3	288	bcgsc.ca	37	10	61824038	61824038	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ANK3	NM_020987	exon39	c.A12328G	p.R4110G	.	.	59	4	58	0	.	107
ANKRD36BP2	645784	broad.mit.edu	37	2	89102230	89102230	+	RNA	SNP	G	G	T	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	.	.	.	.	.	.	144	5	125	0	.	.
ANO6	196527	bcgsc.ca	37	12	45741873	45741873	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ANO6	NM_001204803	exon6	c.T471C	p.Y157Y	.	.	80	4	103	0	.	516
AP1G1	164	bcgsc.ca	37	16	71767027	71767027	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	AP1G1	NM_001030007	exon24	c.T2412C	p.N804N	.	.	193	6	185	0	.	92
ARHGAP22	58504	ucsc.edu;bcgsc.ca	37	10	49667742	49667742	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ARHGAP22	NM_001256024	exon5	c.A692G	p.K231R	.	.	48	4	54	0	.	228
ARHGAP42	143872	bcgsc.ca	37	11	100847131	100847131	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	NM_152432	exon20	c.T2199C	p.A733A	.	.	82	4	82	0	.	.
ARL14EP	120534	bcgsc.ca	37	11	30354418	30354418	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	NM_152316	exon3	c.A432G	p.R144R	.	.	130	5	124	0	.	.
ARPC4	10093	bcgsc.ca	37	3	9843406	9843406	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ARPC4	NM_001198780	exon4	c.A353G	p.E118G	.	.	98	5	132	0	.	90
ASCC2	84164	bcgsc.ca	37	22	30218392	30218392	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ASCC2	NM_032204	exon5	c.T473C	p.I158T	.	.	62	4	96	0	.	90
B3GNTL1	146712	bcgsc.ca	37	17	80915281	80915281	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	B3GNTL1	NM_001009905	exon9	c.A815G	p.Q272R	.	.	49	8	72	2	.	92
BBS9	27241	broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	33192380	33192380	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	BBS9	NM_014451	exon3	c.A180G	p.G60G	.	.	51	5	62	0	.	230
BPTF	2186	bcgsc.ca	37	17	65941697	65941697	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	BPTF	NM_004459	exon23	c.T7251C	p.P2417P	.	.	114	5	141	0	.	94
BSCL2	26580	bcgsc.ca	37	11	62462116	62462116	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	BSCL2	NM_001122955	exon4	c.A554G	p.Q185R	.	.	96	6	94	0	.	514
C6orf170	221322	bcgsc.ca	37	6	121427212	121427212	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	C6orf170	NM_152730	exon30	c.T3422C	p.L1141P	.	.	167	5	211	0	.	92
CABP5	56344	ucsc.edu	37	19	48537470	48537470	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	CABP5	NM_019855	exon6	c.496+2T>C	.	.	.	57	4	78	0	.	91
CACNA1D	776	bcgsc.ca	37	3	53694260	53694260	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	CACNA1D	NM_001128840	exon5	c.T724C	p.F242L	.	.	68	4	69	0	.	100
CCDC103	388389	bcgsc.ca	37	17	42979882	42979882	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	CCDC103	NM_001258395	exon4	c.A426G	p.G142G	.	.	129	11	185	4	.	69
CCDC39	339829	bcgsc.ca	37	3	180361940	180361940	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	CCDC39	NM_181426	exon12	c.A1633G	p.K545E	.	.	279	7	326	2	.	72
CCDC66	285331	broad.mit.edu	37	3	56597968	56597968	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	CCDC66	NM_001141947	exon4	c.A359G	p.K120R	.	.	190	5	184	1	.	135
CCT2	10576	bcgsc.ca	37	12	69991488	69991488	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	CCT2	NM_006431	exon12	c.T1173C	p.H391H	.	.	86	5	129	0	.	651
CELSR2	1952	bcgsc.ca	37	1	109801392	109801392	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	CELSR2	NM_001408	exon2	c.A3649G	p.T1217A	.	.	112	5	149	1	.	526
CENPF	1063	bcgsc.ca	37	1	214830383	214830383	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	CENPF	NM_016343	exon18	c.T8593C	p.C2865R	.	.	129	5	175	0	.	567
CEP72	55722	bcgsc.ca	37	5	624677	624677	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	CEP72	NM_018140	exon4	c.T495C	p.A165A	.	.	97	5	132	0	.	69
CNEP1R1	255919	bcgsc.ca	37	16	50067314	50067314	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	NM_153261	exon5	c.T229C	p.F77L	.	.	136	5	181	1	.	.
COL21A1	81578	bcgsc.ca	37	6	55924894	55924894	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	COL21A1	NM_030820	exon28	c.T2530C	p.L844L	.	.	142	6	223	0	.	24
COMTD1	118881	bcgsc.ca	37	10	76994711	76994711	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	COMTD1	NM_144589	exon5	c.G487A	p.A163T	.	.	80	5	123	0	.	90
COX2	5743	broad.mit.edu;bcgsc.ca	37	MT	7785	7785	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	ENST00000361739	exon1	c.T200C	p.I67T	.	.	343	25	381	9	.	.
COX3	5742	broad.mit.edu;bcgsc.ca	37	MT	9939	9939	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	ENST00000362079	exon1	c.G733A	p.V245I	.	.	364	30	391	0	.	.
CST1	1469	broad.mit.edu	37	20	23728528	23728528	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	CST1	NM_001898	exon3	c.G351A	p.L117L	.	.	152	6	174	1	.	91
CUL1	8454	broad.mit.edu	37	7	148495037	148495037	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	CUL1	NM_003592	exon19	c.A1956G	p.E652E	.	.	152	8	151	1	.	226
CWC22	57703	bcgsc.ca	37	2	180851523	180851523	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	CWC22	NM_020943	exon4	c.A105G	p.E35E	.	.	73	4	70	0	.	90
CYP2A6	1548	ucsc.edu;bcgsc.ca	37	19	41354534	41354534	+	Missense_Mutation	SNP	G	G	T	rs60563539		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	CYP2A6	NM_000762	exon3	c.C478A	p.L160I	.	.	74	8	118	5	.	92
DACH1	1602	broad.mit.edu	37	13	72147145	72147145	+	Splice_Site	SNP	C	C	T	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	DACH1	NM_080759	exon5	c.1133-1G>A	.	.	.	139	7	150	0	.	135
DDX58	23586	broad.mit.edu	37	9	32481472	32481472	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	DDX58	NM_014314	exon11	c.A1504G	p.R502G	.	.	177	6	205	0	.	230
DENND3	22898	bcgsc.ca	37	8	142148125	142148125	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	DENND3	NM_014957	exon3	c.T150C	p.G50G	.	.	120	8	118	0	.	91
DHRS11	79154	ucsc.edu	37	17	34955443	34955443	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	DHRS11	NM_024308	exon4	c.A546G	p.Q182Q	.	.	33	5	41	2	.	90
DNAAF1	123872	broad.mit.edu	37	16	84193302	84193302	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	DNAAF1	NM_178452	exon6	c.A764G	p.N255S	.	.	292	7	300	0	.	73
DNAH5	1767	bcgsc.ca	37	5	13771005	13771005	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	DNAH5	NM_001369	exon56	c.A9458G	p.Q3153R	.	.	122	5	155	1	.	182
DOK7	285489	broad.mit.edu;bcgsc.ca	37	4	3487277	3487277	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	DOK7	NM_173660	exon5	c.T544C	p.F182L	.	.	104	8	197	1	.	91
DPH2	1802	bcgsc.ca	37	1	44438172	44438172	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	DPH2	NM_001384	exon6	c.A1431G	p.R477R	.	.	85	5	111	1	.	91
EHMT1	79813	bcgsc.ca	37	9	140637914	140637914	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	EHMT1	NM_001145527	exon5	c.A915G	p.K305K	.	.	92	5	118	1	.	154
EIF4G3	8672	bcgsc.ca	37	1	21137369	21137369	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	EIF4G3	NM_001198801	exon34	c.T4546C	p.S1516P	.	.	101	5	128	0	.	91
ENPEP	2028	broad.mit.edu	37	4	111412198	111412198	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ENPEP	NM_001977	exon3	c.T796C	p.S266P	.	.	234	6	335	0	.	157
ERBB4	2066	bcgsc.ca	37	2	212488746	212488746	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ERBB4	NM_001042599	exon18	c.T2103C	p.S701S	.	.	86	4	97	0	.	1461
ERBB4	2066	broad.mit.edu;bcgsc.ca	37	2	212251837	212251837	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ERBB4	NM_005235	exon27	c.A3222G	p.E1074E	.	.	247	11	330	2	.	1461
EZR	7430	bcgsc.ca	37	6	159197517	159197517	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	EZR	NM_003379	exon7	c.T718C	p.F240L	.	.	132	5	148	0	.	70
FAM179A	165186	bcgsc.ca	37	2	29268207	29268207	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	FAM179A	NM_199280	exon19	c.C2653T	p.P885S	.	.	72	5	63	0	.	26
FAM194B	220081	bcgsc.ca	37	13	46164812	46164812	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	FAM194B	NM_182542	exon4	c.T658C	p.S220P	.	.	76	4	96	0	.	68
FAM200B	285550	broad.mit.edu	37	4	15689652	15689652	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	NM_001145191	exon2	c.A1052G	p.K351R	.	.	275	6	343	0	.	.
FAM57B	83723	bcgsc.ca	37	16	30038075	30038075	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	FAM57B	NM_031478	exon3	c.A299G	p.H100R	.	.	85	6	143	1	.	90
FBXO42	54455	bcgsc.ca	37	1	16621350	16621350	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	FBXO42	NM_018994	exon4	c.T430C	p.C144R	.	.	67	4	85	0	.	228
FCGBP	8857	ucsc.edu;bcgsc.ca	37	19	40424149	40424149	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	FCGBP	NM_003890	exon4	c.C2054T	p.A685V	.	.	66	6	81	1	.	98
FLG2	388698	broad.mit.edu	37	1	152327955	152327955	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	FLG2	NM_001014342	exon3	c.C2307T	p.S769S	.	.	280	6	334	2	.	151
FST	10468	ucsc.edu	37	5	52779449	52779449	+	Silent	SNP	C	C	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	FST	NM_013409	exon3	c.C393G	p.V131V	.	.	123	2	197	0	.	90
FUBP1	8880	broad.mit.edu	37	1	78435635	78435635	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	FUBP1	NM_003902	exon2	c.G185A	p.G62E	.	.	461	7	647	0	.	227
GABRA3	2556	bcgsc.ca	37	X	151376585	151376585	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	GABRA3	NM_000808	exon7	c.T666C	p.S222S	.	.	196	6	239	2	.	131
GALNT8	26290	bcgsc.ca	37	12	4853707	4853707	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	GALNT8	NM_017417	exon4	c.A701G	p.E234G	.	.	45	4	60	0	.	230
GAS6	2621	ucsc.edu	37	13	114542758	114542758	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	GAS6	NM_000820	exon5	c.A409G	p.M137V	.	.	46	4	62	0	.	650
GC	2638	bcgsc.ca	37	4	72622458	72622458	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	GC	NM_001204307	exon9	c.T1062C	p.C354C	.	.	224	7	293	0	.	93
GDAP2	54834	broad.mit.edu;bcgsc.ca	37	1	118441791	118441791	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	GDAP2	NM_017686	exon7	c.A684G	p.K228K	.	.	147	6	183	0	.	92
GJA5	2702	bcgsc.ca	37	1	147230724	147230724	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	GJA5	NM_005266	exon2	c.T623C	p.I208T	.	.	103	6	133	0	.	91
GMPS	8833	bcgsc.ca	37	3	155654209	155654209	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	GMPS	NM_003875	exon15	c.A1890G	p.S630S	.	.	219	7	231	1	.	229
GNL3L	54552	bcgsc.ca	37	X	54569401	54569401	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	GNL3L	NM_001184819	exon6	c.A320G	p.Q107R	.	.	195	7	247	2	.	131
GNS	2799	bcgsc.ca	37	12	65139484	65139484	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	GNS	NM_002076	exon4	c.T480C	p.G160G	.	.	103	5	100	0	.	514
GOLGA4	2803	bcgsc.ca	37	3	37370476	37370476	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	GOLGA4	NM_001172713	exon17	c.T6150C	p.A2050A	.	.	80	4	67	0	.	93
GPHN	10243	ucsc.edu	37	14	67389601	67389601	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	GPHN	NM_001024218	exon7	c.T675C	p.A225A	.	.	57	4	76	0	.	228
HDHD3	81932	bcgsc.ca	37	9	116136618	116136618	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	HDHD3	NM_031219	exon2	c.A17G	p.Q6R	.	.	97	5	117	0	.	90
HERC3	8916	bcgsc.ca	37	4	89591103	89591103	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	HERC3	NM_014606	exon15	c.A1726G	p.T576A	.	.	110	5	128	0	.	660
HNRNPU	3192	bcgsc.ca	37	1	245022659	245022659	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	HNRNPU	NM_031844	exon5	c.A1035G	p.P345P	.	.	76	4	95	0	.	22
HSP90B1	7184	bcgsc.ca	37	12	104327795	104327795	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	HSP90B1	NM_003299	exon5	c.A473G	p.E158G	.	.	203	6	266	0	.	93
IGSF22	283284	bcgsc.ca	37	11	18736143	18736143	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	IGSF22	NM_173588	exon12	c.G1560A	p.M520I	.	.	74	5	122	0	.	140
IPO11	51194	bcgsc.ca	37	5	61811258	61811258	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	IPO11	NM_001134779	exon20	c.T1946C	p.L649P	.	.	218	8	311	1	.	227
IRAK4	51135	bcgsc.ca	37	12	44176201	44176201	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	IRAK4	NM_016123	exon9	c.A1033G	p.T345A	.	.	151	5	182	0	.	1366
ITGAL	3683	bcgsc.ca	37	16	30500654	30500654	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ITGAL	NM_002209	exon11	c.A1160G	p.D387G	.	.	93	5	100	1	.	994
ITGAM	3684	bcgsc.ca	37	16	31336663	31336663	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ITGAM	NM_001145808	exon20	c.A2446G	p.R816G	.	.	73	4	86	0	.	226
IZUMO2	126123	bcgsc.ca	37	19	50655879	50655879	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	IZUMO2	NM_152358	exon7	c.T653C	p.L218P	.	.	117	5	90	0	.	90
KBTBD3	143879	bcgsc.ca	37	11	105923707	105923707	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	KBTBD3	NM_152433	exon3	c.A1709G	p.Q570R	.	.	179	7	179	0	.	91
KIAA0195	9772	broad.mit.edu;bcgsc.ca	37	17	73488633	73488633	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	KIAA0195	NM_014738	exon15	c.T1675C	p.S559P	.	.	84	8	91	0	.	91
KIAA1468	57614	bcgsc.ca	37	18	59925243	59925243	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	KIAA1468	NM_020854	exon14	c.A1959G	p.A653A	.	.	211	7	241	0	.	158
LMNB1	4001	bcgsc.ca	37	5	126158562	126158562	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	LMNB1	NM_005573	exon8	c.A1476G	p.A492A	.	.	111	5	122	0	.	226
LOC642236	0	bcgsc.ca	37	9	68437759	68437759	+	RNA	SNP	G	G	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	.	.	.	.	.	.	595	17	602	7	.	.
LRRC16B	90668	ucsc.edu	37	14	24532643	24532643	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	LRRC16B	NM_138360	exon31	c.T2880C	p.G960G	.	.	43	4	56	0	.	139
LRRK2	120892	bcgsc.ca	37	12	40651110	40651110	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	LRRK2	NM_198578	exon12	c.A1349G	p.Q450R	.	.	156	5	176	0	.	533
MAP2K1	5604	broad.mit.edu	37	15	66779583	66779583	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	MAP2K1	NM_002755	exon8	c.C913T	p.R305X	.	.	169	5	217	0	.	978
MBOAT4	619373	broad.mit.edu	37	8	29989622	29989622	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	MBOAT4	NM_001100916	exon3	c.C1145T	p.T382I	.	.	77	4	140	0	.	68
MCMBP	79892	bcgsc.ca	37	10	121608992	121608992	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	MCMBP	NM_024834	exon7	c.C671T	p.P224L	.	.	58	4	86	0	.	93
MDC1	9656	broad.mit.edu	37	6	30673315	30673315	+	Silent	SNP	G	G	T	rs149345627	byfrequency;alternate_allele	TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	MDC1	NM_014641	exon10	c.C3645A	p.T1215T	.	.	343	10	424	2	G|1.000;A|0.000	273
MED16	10025	bcgsc.ca	37	19	873546	873546	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	MED16	NM_005481	exon11	c.A1808G	p.E603G	.	.	67	4	91	1	.	186
MLLT10P1	140678	bcgsc.ca	37	20	29638058	29638058	+	RNA	SNP	T	T	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	.	.	.	.	.	.	47	4	59	0	.	.
MLN	4295	ucsc.edu	37	6	33768914	33768914	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	MLN	NM_002418	exon2	c.T27C	p.A9A	.	.	89	14	131	2	.	90
MTMR2	8898	bcgsc.ca	37	11	95569318	95569318	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	MTMR2	NM_016156	exon14	c.A1764G	p.K588K	.	.	137	9	129	1	.	91
MUC4	4585	bcgsc.ca	37	3	195510030	195510030	+	Silent	SNP	C	C	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	MUC4	NM_018406	exon2	c.G8421C	p.S2807S	.	.	244	29	310	9	.	90
MUC4	4585	broad.mit.edu	37	3	195508903	195508903	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	MUC4	NM_018406	exon2	c.C9548T	p.T3183M	.	.	144	6	137	1	.	90
MUC4	4585	broad.mit.edu	37	3	195508982	195508982	+	Missense_Mutation	SNP	C	C	T	rs79543693	byfrequency	TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	MUC4	NM_018406	exon2	c.G9469A	p.D3157N	.	.	143	10	169	3	C|0.625;T|0.375	90
MYLIP	29116	bcgsc.ca	37	6	16145475	16145475	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	MYLIP	NM_013262	exon6	c.A1175G	p.E392G	.	.	136	8	175	2	.	91
MYO18B	84700	bcgsc.ca	37	22	26239788	26239788	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	MYO18B	NM_032608	exon18	c.A3295G	p.T1099A	.	.	29	5	46	0	.	142
NAB1	4664	bcgsc.ca	37	2	191548481	191548481	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	NAB1	NM_005966	exon7	c.C1023T	p.F341F	.	.	65	4	88	0	.	226
NKIRAS2	28511	ucsc.edu	37	17	40174557	40174557	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	NKIRAS2	NM_001144927	exon3	c.A235G	p.T79A	.	.	49	6	72	0	.	660
NOTUM	147111	bcgsc.ca	37	17	79916230	79916230	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	NOTUM	NM_178493	exon5	c.T573C	p.A191A	.	.	20	3	33	0	.	22
NPTX1	4884	bcgsc.ca	37	17	78447133	78447133	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	NPTX1	NM_002522	exon3	c.T764C	p.V255A	.	.	95	5	133	0	.	90
NRF1	4899	bcgsc.ca	37	7	129348949	129348949	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	NRF1	NM_005011	exon6	c.A641G	p.K214R	.	.	115	5	111	0	.	91
NRXN2	9379	bcgsc.ca	37	11	64428479	64428479	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	NRXN2	NM_015080	exon10	c.A1931G	p.E644G	.	.	68	5	94	1	.	232
OR10K1	391109	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	158435869	158435869	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	OR10K1	NM_001004473	exon1	c.A518G	p.Q173R	.	.	447	18	538	0	.	69
OR2C3	81472	hgsc.bcm.edu;broad.mit.edu	37	1	247694952	247694952	+	Missense_Mutation	SNP	G	G	T	rs201468915	alternate_allele	TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	OR2C3	NM_198074	exon2	c.C862A	p.P288T	.	.	147	7	145	0	G|0.999;A|0.000	70
OR2M3	127062	broad.mit.edu;bcgsc.ca	37	1	248366692	248366692	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	OR2M3	NM_001004689	exon1	c.T323C	p.L108P	.	.	372	23	453	2	.	70
P2RY4	5030	bcgsc.ca	37	X	69479473	69479473	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	P2RY4	NM_002565	exon1	c.T2C	p.M1T	.	.	133	5	160	0	.	540
PALLD	23022	bcgsc.ca	37	4	169835128	169835128	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PALLD	NM_001166108	exon16	c.A2673G	p.R891R	.	.	101	6	83	0	.	94
PBXIP1	57326	bcgsc.ca	37	1	154920691	154920691	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PBXIP1	NM_020524	exon6	c.A561G	p.A187A	.	.	74	4	111	1	.	153
PDLIM1	9124	bcgsc.ca	37	10	96997790	96997790	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PDLIM1	NM_020992	exon7	c.A882G	p.K294K	.	.	139	6	191	0	.	90
PFDN5	5204	bcgsc.ca	37	12	53689383	53689383	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PFDN5	NM_002624	exon1	c.A32G	p.N11S	.	.	64	4	101	1	.	227
PHIP	55023	bcgsc.ca	37	6	79713500	79713500	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PHIP	NM_017934	exon16	c.T1600C	p.S534P	.	.	172	7	200	0	.	579
PIGX	54965	bcgsc.ca	37	3	196443772	196443772	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PIGX	NM_017861	exon2	c.T156C	p.V52V	.	.	65	4	86	0	.	90
PIK3CB	5291	ucsc.edu	37	3	138413736	138413736	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PIK3CB	NM_006219	exon12	c.T1784C	p.L595P	.	.	33	4	38	0	.	1311
PKN1	5585	ucsc.edu	37	19	14574894	14574894	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PKN1	NM_213560	exon12	c.A1678G	p.N560D	.	.	48	5	59	1	.	1481
PKP2	5318	bcgsc.ca	37	12	32994060	32994060	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PKP2	NM_004572	exon7	c.T1590C	p.N530N	.	.	88	4	153	0	.	92
PLXNA2	5362	bcgsc.ca	37	1	208216510	208216510	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PLXNA2	NM_025179	exon21	c.A3913G	p.S1305G	.	.	90	5	85	0	.	92
POC1A	25886	bcgsc.ca	37	3	52185053	52185053	+	Missense_Mutation	SNP	T	T	C	rs141061033	byfrequency	TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	POC1A	NM_015426	exon2	c.A82G	p.S28G	.	.	226	7	274	1	T|0.999;C|0.001	90
POLR1B	84172	bcgsc.ca	37	2	113306906	113306906	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	POLR1B	NM_019014	exon4	c.T555C	p.P185P	.	.	239	8	285	0	.	91
POTEA	340441	broad.mit.edu	37	8	43197450	43197450	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	POTEA	NM_001005365	exon11	c.C1339T	p.Q447X	.	.	150	4	191	0	.	91
PPM1N	147699	ucsc.edu	37	19	46002496	46002496	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	NM_001080401	exon1	c.G766A	p.E256K	.	.	49	5	50	0	.	.
PPP2R5D	5528	bcgsc.ca	37	6	42976138	42976138	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PPP2R5D	NM_006245	exon9	c.A951G	p.E317E	.	.	112	5	138	0	.	1082
PRKG2	5593	bcgsc.ca	37	4	82092854	82092854	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PRKG2	NM_006259	exon3	c.T733C	p.S245P	.	.	103	7	126	1	.	524
PSG11	5680	broad.mit.edu;bcgsc.ca	37	19	43519380	43519380	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	NM_002785	exon4	c.A852G	p.Q284Q	.	.	279	8	312	0	.	.
PSG3	5671	bcgsc.ca	37	19	43233461	43233461	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PSG3	NM_021016	exon5	c.T1057C	p.S353P	.	.	188	7	195	0	.	92
PSMB8	5696	bcgsc.ca	37	6	32812081	32812081	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	PSMB8	NM_004159	exon1	c.T110C	p.V37A	.	.	69	4	97	0	.	91
QTRT1	81890	ucsc.edu	37	19	10812195	10812195	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	QTRT1	NM_031209	exon1	c.T59G	p.V20G	.	.	20	6	51	13	.	91
RAB11FIP1	80223	bcgsc.ca	37	8	37734788	37734788	+	Missense_Mutation	SNP	T	T	C	rs200911226		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	RAB11FIP1	NM_025151	exon2	c.A653G	p.K218R	.	.	253	8	301	0	T|1.000;C|0.000	92
RAD23B	5887	bcgsc.ca	37	9	110081121	110081121	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	RAD23B	NM_002874	exon6	c.T642C	p.S214S	.	.	184	7	217	0	.	228
RALGPS2	55103	bcgsc.ca	37	1	178753589	178753589	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	RALGPS2	NM_152663	exon3	c.T94C	p.S32P	.	.	89	4	113	0	.	226
RANBP2	5903	bcgsc.ca	37	2	109367754	109367754	+	Silent	SNP	C	C	T	rs2912843		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	RANBP2	NM_006267	exon10	c.C1308T	p.H436H	.	.	978	59	1874	85	.	675
RARG	5916	bcgsc.ca	37	12	53608372	53608372	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	RARG	NM_000966	exon6	c.A494G	p.N165S	.	.	210	7	242	2	.	722
RBM25	58517	bcgsc.ca	37	14	73577721	73577721	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	RBM25	NM_021239	exon15	c.T1875C	p.S625S	.	.	74	5	101	0	.	91
RECQL	5965	bcgsc.ca	37	12	21636504	21636504	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	RECQL	NM_032941	exon7	c.A506G	p.H169R	.	.	142	5	158	0	.	228
REV1	51455	bcgsc.ca	37	2	100020214	100020214	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	REV1	NM_016316	exon19	c.A3110G	p.D1037G	.	.	125	6	102	0	.	92
RGAG1	57529	bcgsc.ca	37	X	109694273	109694273	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	RGAG1	NM_020769	exon3	c.T428C	p.M143T	.	.	179	6	199	0	.	132
RPAP1	26015	bcgsc.ca	37	15	41821690	41821690	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	RPAP1	NM_015540	exon9	c.A1136G	p.H379R	.	.	73	4	80	0	.	153
RPRD1A	55197	bcgsc.ca	37	18	33613728	33613728	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	RPRD1A	NM_018170	exon2	c.C224T	p.P75L	.	.	110	5	130	0	.	154
RPTOR	57521	broad.mit.edu	37	17	78765286	78765286	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	RPTOR	NM_001163034	exon7	c.C867T	p.G289G	.	.	348	5	439	0	.	847
RWDD2B	10069	bcgsc.ca	37	21	30380297	30380297	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	RWDD2B	NM_016940	exon4	c.T510C	p.T170T	.	.	154	6	173	0	.	68
SARM1	23098	bcgsc.ca	37	17	26723014	26723014	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	NM_015077	exon9	c.A2011G	p.M671V	.	.	63	4	76	0	.	.
SCN8A	6334	bcgsc.ca	37	12	52163003	52163003	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SCN8A	NM_014191	exon17	c.T3256C	p.F1086L	.	.	164	7	171	0	.	29
SDHB	6390	bcgsc.ca	37	1	17355147	17355147	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SDHB	NM_003000	exon4	c.T371C	p.V124A	.	.	114	6	141	1	.	658
SEPT6	23157	bcgsc.ca	37	X	118786891	118786891	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SEPT6	NM_145802	exon4	c.T454C	p.L152L	.	.	168	7	224	0	.	969
SHROOM3	57619	bcgsc.ca	37	4	77661733	77661733	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SHROOM3	NM_020859	exon5	c.T2407C	p.S803P	.	.	61	4	108	0	.	93
SLC4A2	6522	ucsc.edu	37	7	150771366	150771366	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SLC4A2	NM_003040	exon17	c.T2776C	p.F926L	.	.	43	4	50	0	.	90
SLC9A7P1	121456	bcgsc.ca	37	12	98849285	98849285	+	RNA	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	.	.	.	.	.	.	85	6	90	0	.	.
SMAD6	4091	ucsc.edu	37	15	67001046	67001046	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SMAD6	NM_001142861	exon1	c.T4C	p.S2P	.	.	43	4	41	0	.	415
SMG7	9887	bcgsc.ca	37	1	183507524	183507524	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SMG7	NM_201569	exon12	c.T1244C	p.L415P	.	.	157	6	195	2	.	92
SMPDL3B	27293	bcgsc.ca	37	1	28282196	28282196	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SMPDL3B	NM_001009568	exon6	c.T692C	p.V231A	.	.	81	5	86	0	.	93
SPDYE1	285955	bcgsc.ca	37	7	44046934	44046934	+	Missense_Mutation	SNP	G	G	A	rs200388629	byfrequency	TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	SPDYE1,NS,carcinoma,-2	SPDYE1	NM_175064	exon5	c.G700A	p.G234R	.	.	282	21	383	3	G|0.981;A|0.019	91
SPTA1	6708	broad.mit.edu	37	1	158644127	158644127	+	Missense_Mutation	SNP	G	G	A	rs199930162		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SPTA1	NM_003126	exon10	c.C1342T	p.R448W	.	.	142	5	164	1	.	142
SRCAP	10847	broad.mit.edu	37	16	30749618	30749618	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SRCAP	NM_006662	exon34	c.C8257T	p.R2753W	.	.	35	3	46	0	.	94
SRPK2	6733	broad.mit.edu	37	7	104783708	104783708	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SRPK2	NM_182692	exon10	c.G883C	p.E295Q	.	.	357	6	500	0	.	805
SSFA2	6744	bcgsc.ca	37	2	182765497	182765497	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SSFA2	NM_001130445	exon7	c.A578G	p.E193G	.	.	286	8	328	2	.	153
STAT6	6778	bcgsc.ca	37	12	57490913	57490913	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	STAT6	NM_001178079	exon20	c.T2163C	p.P721P	.	.	68	5	101	1	.	849
STEAP4	79689	bcgsc.ca	37	7	87913394	87913394	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	STEAP4	NM_001205315	exon3	c.T191C	p.V64A	.	.	184	8	227	0	.	90
STK31	56164	bcgsc.ca	37	7	23854770	23854770	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	STK31	NM_031414	exon23	c.T2768C	p.V923A	.	.	212	6	265	0	.	338
STRN4	29888	bcgsc.ca	37	19	47228733	47228733	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	STRN4	NM_001039877	exon10	c.A1442G	p.K481R	.	.	90	5	136	0	.	90
SUN3	256979	broad.mit.edu	37	7	48068470	48068470	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SUN3	NM_152782	exon2	c.C66T	p.S22S	.	.	105	5	145	0	.	514
SUV420H1	51111	bcgsc.ca	37	11	67942585	67942585	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SUV420H1	NM_017635	exon5	c.A443G	p.E148G	.	.	137	6	162	1	.	228
SYNE2	23224	bcgsc.ca	37	14	64692201	64692201	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SYNE2	NM_182914	exon116	c.T20681C	p.F6894S	.	.	74	5	128	0	.	164
SYNRG	11276	bcgsc.ca	37	17	35880303	35880303	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	SYNRG	NM_007247	exon21	c.T3792C	p.P1264P	.	.	108	5	129	0	.	92
TACC3	10460	bcgsc.ca	37	4	1742595	1742595	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	TACC3	NM_006342	exon13	c.A2105G	p.Q702R	.	.	117	6	138	0	.	91
TCHHL1	126637	broad.mit.edu;bcgsc.ca	37	1	152057814	152057814	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	TCHHL1	NM_001008536	exon3	c.A2344T	p.M782L	.	.	624	16	778	0	.	92
TERT	7015	ucsc.edu;bcgsc.ca	37	5	1293542	1293542	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	TERT	NM_001193376	exon2	c.T1459C	p.F487L	.	.	69	7	109	4	.	1272
TKTL2	84076	bcgsc.ca	37	4	164394386	164394386	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	TKTL2	NM_032136	exon1	c.T501C	p.A167A	.	.	92	6	92	0	.	95
TLE2	7089	ucsc.edu	37	19	3009608	3009608	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	NM_001144761	exon14	c.A1147G	p.S383G	.	.	42	4	94	0	.	.
TMEM205	374882	bcgsc.ca	37	19	11455980	11455980	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	TMEM205	NM_033408	exon3	c.T212C	p.I71T	.	.	67	4	100	0	.	22
TMEM66	51669	bcgsc.ca	37	8	29923529	29923529	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	TMEM66	NM_016127	exon5	c.A969G	p.S323S	.	.	145	6	203	0	.	90
TMPO	7112	bcgsc.ca	37	12	98927319	98927319	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	TMPO	NM_003276	exon4	c.A1284G	p.K428K	.	.	134	5	195	0	.	93
TMPO	7112	bcgsc.ca	37	12	98931284	98931284	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	TMPO	NM_001032283	exon4	c.A597G	p.R199R	.	.	92	5	107	0	.	93
TRAPPC11	60684	bcgsc.ca	37	4	184626192	184626192	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	NM_021942	exon27	c.T3024C	p.I1008I	.	.	226	6	277	1	.	.
TRPA1	8989	bcgsc.ca	37	8	72967784	72967784	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	TRPA1	NM_007332	exon12	c.G1416A	p.T472T	.	.	635	32	949	2	.	230
TRPM6	140803	bcgsc.ca	37	9	77442804	77442804	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	TRPM6	NM_017662	exon7	c.T731C	p.M244T	.	.	167	6	233	0	.	335
TRPV1	7442	bcgsc.ca	37	17	3475473	3475473	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	TRPV1	NM_018727	exon14	c.A2174G	p.K725R	.	.	83	6	113	0	.	23
TTBK1	84630	broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	43223474	43223474	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	TTBK1	NM_032538	exon9	c.G741A	p.Q247Q	.	.	53	6	78	0	.	353
TTC19	54902	bcgsc.ca	37	17	15909835	15909835	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	TTC19	NM_017775	exon7	c.A629G	p.E210G	.	.	137	5	153	0	.	91
UNC13A	23025	bcgsc.ca	37	19	17758227	17758227	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	UNC13A	NM_001080421	exon16	c.A1891G	p.M631V	.	.	58	4	126	0	.	25
UST	10090	bcgsc.ca	37	6	149340352	149340352	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	UST	NM_005715	exon6	c.T759C	p.C253C	.	.	134	5	176	0	.	92
UTRN	7402	bcgsc.ca	37	6	144768805	144768805	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	UTRN	NM_007124	exon15	c.T1790C	p.V597A	.	.	130	7	140	0	.	95
VWDE	221806	bcgsc.ca	37	7	12414735	12414735	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	VWDE	NM_001135924	exon8	c.A1143G	p.T381T	.	.	172	6	239	0	.	68
WDFY3	23001	broad.mit.edu;bcgsc.ca	37	4	85687056	85687056	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	WDFY3	NM_014991	exon32	c.T5095C	p.S1699P	.	.	124	6	149	1	.	93
WDFY4	57705	bcgsc.ca	37	10	50167779	50167779	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	WDFY4	NM_020945	exon53	c.A8144G	p.D2715G	.	.	50	5	88	0	.	22
WDR62	284403	bcgsc.ca	37	19	36580096	36580096	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	WDR62	NM_173636	exon15	c.G1846A	p.G616R	.	.	69	4	107	1	.	90
XKR3	150165	bcgsc.ca	37	22	17288778	17288778	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	XKR3	NM_175878	exon2	c.T186C	p.N62N	.	.	246	7	303	0	.	92
XRRA1	143570	bcgsc.ca	37	11	74574062	74574062	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	XRRA1	NM_182969	exon11	c.T984C	p.V328V	.	.	212	6	279	1	.	68
ZFP57	346171	bcgsc.ca	37	6	29640286	29640286	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ZFP57	NM_001109809	exon4	c.A1602G	p.K534K	.	.	110	6	122	0	.	5
ZNF273	10793	bcgsc.ca	37	7	64389241	64389241	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ZNF273	NM_021148	exon4	c.A1535G	p.K512R	.	.	78	4	84	0	.	90
ZNF674	641339	broad.mit.edu	37	X	46359332	46359332	+	Silent	SNP	C	C	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	ZNF674	NM_001039891	exon6	c.G1692T	p.G564G	.	.	236	6	299	0	.	67
ZNF880	400713	hgsc.bcm.edu	37	19	52887246	52887246	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	NM_001145434	exon4	c.T413A	p.I138N	.	.	224	4	233	0	.	.
RP11-764K9.4	0	bcgsc.ca	37	9	68437756	68437757	+	RNA	DNP	GA	GA	TT	novel		TCGA-BC-A10X-01A-11D-A12Z-10	TCGA-BC-A10X-11A-11D-A12Z-10	GA	GA	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	36938443-c826-4abe-aaf6-dd7217b07f51	4285989b-f8d8-4ced-99a1-894ff2b37cf3	.	.	.	.	.	.	.	.	.	.	.	.	.	
