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
AAED1	195827	bcgsc.ca	37	9	99413955	99413955	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_153698	exon3	c.T301C	p.Y101H	.	.	58	4	149	0	.	.
AASDH	132949	bcgsc.ca	37	4	57250380	57250380	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	AASDH	NM_181806	exon2	c.T86C	p.L29P	.	.	164	7	263	1	.	94
ABCA8	10351	bcgsc.ca	37	17	66881433	66881433	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ABCA8	NM_007168	exon25	c.A3333G	p.G1111G	.	.	32	12	108	6	.	93
ABCB11	8647	bcgsc.ca	37	2	169814512	169814512	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ABCB11	NM_003742	exon19	c.A2305G	p.T769A	.	.	61	4	66	0	.	139
ABCC4	10257	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	95768200	95768200	+	Silent	SNP	C	C	T	rs148807118	byfrequency	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ABCC4	NM_005845	exon20	c.G2511A	p.P837P	.	.	110	30	213	0	C|0.999;T|0.001	515
ABCC9	10060	bcgsc.ca	37	12	22025633	22025633	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ABCC9	NM_005691	exon16	c.A2124G	p.G708G	.	.	89	5	149	0	.	96
ABCD1	215	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	153001604	153001604	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ABCD1	NM_000033	exon3	c.G1120C	p.E374Q	.	.	129	29	193	0	.	130
ABHD14B	84836	broad.mit.edu;bcgsc.ca	37	3	52003453	52003453	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ABHD14B	NM_032750	exon4	c.G622A	p.G208R	.	.	86	5	129	0	.	90
ABHD3	171586	bcgsc.ca	37	18	19282384	19282384	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ABHD3	NM_138340	exon3	c.G402T	p.M134I	.	.	85	4	271	0	.	90
ACACB	32	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	109637260	109637260	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ACACB	NM_001093	exon17	c.C2681T	p.P894L	.	.	83	15	91	0	.	98
ACAP2	23527	bcgsc.ca	37	3	195027974	195027974	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ACAP2	NM_012287	exon12	c.T988C	p.F330L	.	.	80	4	119	0	.	136
ACTR3	10096	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	114691952	114691952	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ACTR3	NM_005721	exon6	c.G529T	p.D177Y	.	.	40	8	86	1	.	91
AKAP6	9472	broad.mit.edu;ucsc.edu;mdanderson.org	37	14	33165314	33165314	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	AKAP6	NM_004274	exon9	c.A2998T	p.K1000X	.	.	143	44	225	1	.	733
AKD1	221264	bcgsc.ca	37	6	109835627	109835627	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	AKD1	NM_001145128	exon32	c.A4079G	p.E1360G	.	.	112	6	230	1	.	91
ALG10B	144245	bcgsc.ca	37	12	38714715	38714715	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ALG10B	NM_001013620	exon3	c.T1122C	p.V374V	.	.	344	40	591	10	.	93
AMOTL1	154810	bcgsc.ca	37	11	94599120	94599120	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	AMOTL1	NM_130847	exon11	c.C2275T	p.H759Y	.	.	71	4	93	0	.	91
ANK2	287	bcgsc.ca	37	4	114276089	114276089	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ANK2	NM_001148	exon38	c.C6315T	p.H2105H	.	.	47	4	142	1	.	583
ANKRD18A	253650	bcgsc.ca	37	9	38601137	38601137	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ANKRD18A	NM_147195	exon8	c.A927C	p.K309N	.	.	140	19	303	3	.	92
ANKRD30A	91074	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	37505198	37505198	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ANKRD30A	NM_052997	exon32	c.G2791C	p.G931R	.	.	576	57	475	0	.	161
ANKRD36BP2	645784	bcgsc.ca	37	2	89104900	89104900	+	RNA	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	.	.	.	.	.	.	85	4	106	0	.	.
ANKRD52	283373	bcgsc.ca	37	12	56641487	56641487	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ANKRD52	NM_173595	exon19	c.A2050G	p.M684V	.	.	73	4	112	0	.	70
AP1G1	164	bcgsc.ca	37	16	71790064	71790064	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	AP1G1	NM_001128	exon13	c.1089-2A>G	.	.	.	82	4	154	0	.	92
AP3D1	8943	bcgsc.ca	37	19	2114152	2114152	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	AP3D1	NM_001261826	exon22	c.A2573G	p.K858R	.	.	216	6	218	0	.	90
API5	8539	bcgsc.ca	37	11	43351600	43351600	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	API5	NM_006595	exon10	c.A1213G	p.T405A	.	.	67	4	80	0	.	136
AQP8	343	ucsc.edu;bcgsc.ca	37	16	25238440	25238440	+	Silent	SNP	G	G	A	rs74644224	byfrequency	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	AQP8	NM_001169	exon5	c.G654A	p.A218A	.	.	216	38	250	0	G|0.972;A|0.028	155
ARFGAP2	84364	broad.mit.edu;bcgsc.ca	37	11	47195386	47195387	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	-	-	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ARFGAP2	NM_032389	exon6	c.486_487insC	p.P162fs	.	.	28	14	39	0	.	69
ARHGAP25	9938	bcgsc.ca	37	2	69049838	69049838	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ARHGAP25	NM_001007231	exon10	c.C1567A	p.Q523K	.	.	67	12	122	8	.	274
ARHGAP5	394	ucsc.edu	37	14	32624034	32624034	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ARHGAP5	NM_001030055	exon7	c.T4389C	p.P1463P	.	.	121	13	182	17	.	94
ARID4A	5926	bcgsc.ca	37	14	58832292	58832292	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ARID4A	NM_002892	exon21	c.A3268G	p.T1090A	.	.	81	4	143	1	.	231
ARNTL	406	ucsc.edu;bcgsc.ca	37	11	13398211	13398211	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ARNTL	NM_001030272	exon15	c.C1347T	p.D449D	.	.	35	4	29	0	.	90
ASTL	431705	bcgsc.ca	37	2	96799212	96799212	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ASTL	NM_001002036	exon5	c.T407C	p.V136A	.	.	76	5	113	0	.	90
ATG10	83734	bcgsc.ca	37	5	81354315	81354315	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ATG10	NM_001131028	exon4	c.A110G	p.D37G	.	.	152	5	275	0	.	90
ATG3	64422	bcgsc.ca	37	3	112253121	112253121	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ATG3	NM_022488	exon11	c.T858C	p.V286V	.	.	57	4	98	0	.	93
ATG4C	84938	bcgsc.ca	37	1	63282250	63282250	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ATG4C	NM_178221	exon4	c.A165G	p.E55E	.	.	75	4	133	0	.	91
ATP10D	57205	bcgsc.ca	37	4	47559693	47559693	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ATP10D	NM_020453	exon12	c.T1837C	p.S613P	.	.	51	4	69	0	.	93
ATP11B	23200	bcgsc.ca	37	3	182598716	182598716	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ATP11B	NM_014616	exon21	c.T2456G	p.V819G	.	.	398	29	589	12	.	93
ATP6V0A4	50617	bcgsc.ca	37	7	138413506	138413506	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ATP6V0A4	NM_130841	exon17	c.G2010A	p.Q670Q	.	.	70	5	71	0	.	91
ATP7B	540	bcgsc.ca	37	13	52548470	52548470	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ATP7B	NM_000053	exon2	c.A886G	p.T296A	.	.	56	4	137	0	.	92
ATP8A1	10396	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	42580401	42580401	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ATP8A1	NM_001105529	exon12	c.G1004A	p.G335D	.	.	91	14	117	0	.	92
ATP9B	374868	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	18	77108133	77108134	+	Frame_Shift_Ins	INS	-	-	TG	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ATP9B	NM_198531	exon25	c.2840_2841insTG	p.A947fs	.	.	240	62	392	0	.	93
BAIAP2	10458	ucsc.edu;bcgsc.ca	37	17	79060379	79060379	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	BAIAP2	NM_001144888	exon6	c.A488G	p.Q163R	.	.	49	6	92	1	.	90
BAP1	8314	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	52436687	52436688	+	Nonsense_Mutation	INS	-	-	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	BAP1	NM_004656	exon16	c.1987_1988insT	p.D663_D664delinsX	.	.	89	65	226	0	.	1032
BAZ2B	29994	bcgsc.ca	37	2	160284451	160284451	+	Splice_Site	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	BAZ2B	NM_013450	exon14	c.2466+1G>T	.	.	.	174	22	339	9	.	94
BBS9	27241	bcgsc.ca	37	7	33644810	33644810	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	BBS9	NM_198428	exon23	c.T2636C	p.V879A	.	.	80	4	91	0	.	230
BBX	56987	ucsc.edu	37	3	107447668	107447668	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	BBX	NM_001142568	exon6	c.C462A	p.N154K	.	.	88	14	142	12	.	94
BCL2A1	597	bcgsc.ca	37	15	80259980	80259980	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	BCL2A1	NM_001114735	exon2	c.A475G	p.R159G	.	.	98	5	163	0	.	228
BLOC1S4	55330	broad.mit.edu;mdanderson.org	37	4	6718242	6718242	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_018366	exon1	c.G306T	p.M102I	.	.	15	4	11	0	.	.
BPNT1	10380	ucsc.edu	37	1	220231347	220231347	+	RNA	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	BPNT1	.	.	.	.	.	.	44	2	52	0	.	91
BRCA2	675	bcgsc.ca	37	13	32929087	32929087	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	BRCA2	NM_000059	exon14	c.T7097C	p.L2366P	.	.	90	5	225	0	.	3153
BTBD7	55727	bcgsc.ca	37	14	93717980	93717980	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	BTBD7	NM_001002860	exon8	c.A1771G	p.M591V	.	.	89	4	175	0	.	91
C10orf68	79741	bcgsc.ca	37	10	33136801	33136801	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C10orf68	NM_024688	exon18	c.T1458C	p.S486S	.	.	91	4	88	0	.	47
C11orf48	79081	bcgsc.ca	37	11	62432351	62432351	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C11orf48	NM_024099	exon5	c.T633C	p.A211A	.	.	71	4	87	2	.	90
C15orf26	161502	bcgsc.ca	37	15	81436058	81436058	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C15orf26	NM_173528	exon5	c.T533C	p.L178P	.	.	115	5	176	1	.	90
C15orf27	123591	bcgsc.ca	37	15	76494560	76494560	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C15orf27	NM_152335	exon10	c.G976A	p.D326N	.	.	60	5	115	0	.	90
C17orf85	55421	bcgsc.ca	37	17	3732612	3732612	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C17orf85	NM_001114118	exon4	c.A406G	p.M136V	.	.	131	5	182	0	.	91
C19orf21	126353	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	756999	756999	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C19orf21	NM_173481	exon2	c.G53C	p.G18A	.	.	116	15	113	0	.	91
C19orf80	55908	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	11350899	11350899	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_018687	exon2	c.G386T	p.S129I	.	.	65	26	89	0	.	.
C1orf168	199920	bcgsc.ca	37	1	57258157	57258157	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C1orf168	NM_001004303	exon2	c.A329G	p.K110R	.	.	157	5	260	1	.	95
C20orf27	54976	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	3735113	3735113	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C20orf27	NM_001039140	exon5	c.G430A	p.E144K	.	.	83	30	61	0	.	90
C2	717	bcgsc.ca	37	6	31895530	31895530	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C2	NM_001145903	exon1	c.A1G	p.M1V	.	.	75	4	163	0	.	92
C2	717	bcgsc.ca	37	6	31901476	31901476	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C2	NM_000063	exon4	c.T532C	p.S178P	.	.	43	5	71	0	.	92
C5	727	bcgsc.ca	37	9	123782410	123782410	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C5	NM_001735	exon12	c.A1350G	p.E450E	.	.	114	6	255	0	.	92
C5orf22	55322	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	31534433	31534433	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C5orf22	NM_018356	exon2	c.G136C	p.V46L	.	.	328	64	505	0	.	92
C6orf136	221545	broad.mit.edu	37	6	30617383	30617383	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C6orf136	NM_001161376	exon2	c.T664C	p.S222P	.	.	251	15	322	4	.	90
C6orf48	50854	bcgsc.ca	37	6	31805130	31805130	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C6orf48	NM_001040437	exon4	c.T25G	p.S9A	.	.	382	42	827	24	.	68
C6orf70	55780	bcgsc.ca	37	6	170169769	170169769	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C6orf70	NM_018341	exon12	c.T1193C	p.L398P	.	.	88	4	218	0	.	91
C7	730	bcgsc.ca	37	5	40955529	40955529	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	C7	NM_000587	exon10	c.A1134G	p.R378R	.	.	92	5	133	2	.	22
CACNA1D	776	bcgsc.ca	37	3	53835310	53835310	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CACNA1D	NM_000720	exon43	c.G5326T	p.A1776S	.	.	71	4	84	0	.	100
CAMTA2	23125	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	4883278	4883278	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CAMTA2	NM_001171167	exon9	c.G1408A	p.D470N	.	.	29	9	49	0	.	91
CASP9	842	broad.mit.edu;bcgsc.ca	37	1	15821775	15821775	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CASP9	NM_001229	exon7	c.T1041C	p.T347T	.	.	110	6	151	0	.	1083
CCDC18	343099	bcgsc.ca	37	1	93711670	93711670	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CCDC18	NM_206886	exon22	c.A2990G	p.K997R	.	.	159	5	264	0	.	138
CCDC39	339829	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	180332768	180332768	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CCDC39	NM_181426	exon20	c.A2767G	p.R923G	.	.	102	38	140	1	.	72
CCNI2	645121	ucsc.edu	37	5	132084082	132084082	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CCNI2	NM_001039780	exon2	c.T473C	p.L158P	.	.	49	9	71	12	.	68
CDC5L	988	broad.mit.edu;bcgsc.ca	37	6	44397460	44397460	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CDC5L	NM_001253	exon14	c.T1904C	p.V635A	.	.	113	6	182	0	.	229
CDH13	1012	bcgsc.ca	37	16	83065625	83065625	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CDH13	NM_001220488	exon4	c.T309C	p.S103S	.	.	99	4	161	0	.	67
CDH4	1002	bcgsc.ca	37	20	60498576	60498576	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CDH4	NM_001794	exon10	c.C1442A	p.A481D	.	.	108	6	89	0	.	282
CDHR1	92211	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	85955343	85955343	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CDHR1	NM_001171971	exon2	c.T149C	p.V50A	.	.	66	17	96	0	.	91
CDHR2	54825	bcgsc.ca	37	5	176016176	176016176	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CDHR2	NM_017675	exon22	c.A3001G	p.S1001G	.	.	69	5	77	0	.	70
CDHR5	53841	bcgsc.ca	37	11	618833	618833	+	Missense_Mutation	SNP	G	G	C	rs139058512	byfrequency	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CDHR5	NM_021924	exon13	c.C1726G	p.P576A	.	.	323	46	402	11	G|0.998;C|0.002	90
CDK5RAP3	80279	mdanderson.org	37	17	46053334	46053334	+	Silent	SNP	A	A	G	rs202125432	byfrequency	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CDK5RAP3	NM_176096	exon8	c.A753G	p.E251E	.	.	36	13	71	4	A|0.949;G|0.051	226
CDR1	1038	bcgsc.ca	37	X	139866307	139866307	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CDR1	NM_004065	exon1	c.G225A	p.L75L	.	.	310	26	587	2	.	130
CDR1	1038	bcgsc.ca	37	X	139866313	139866313	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CDR1	NM_004065	exon1	c.G219A	p.M73I	.	.	303	22	579	3	.	130
CENPF	1063	bcgsc.ca	37	1	214813671	214813671	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CENPF	NM_016343	exon12	c.A1990G	p.R664G	.	.	156	5	215	0	.	567
CENPJ	55835	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	25459431	25459431	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CENPJ	NM_018451	exon13	c.A3460T	p.S1154C	.	.	115	31	258	0	.	92
CENPN	55839	ucsc.edu;bcgsc.ca	37	16	81058329	81058329	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CENPN	NM_001100624	exon8	c.A643G	p.T215A	.	.	38	4	91	0	.	90
CENPT	80152	ucsc.edu	37	16	67866139	67866139	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CENPT	NM_025082	exon6	c.T281C	p.L94P	.	.	60	4	79	0	.	90
CEP120	153241	bcgsc.ca	37	5	122720705	122720705	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CEP120	NM_153223	exon12	c.A1703G	p.N568S	.	.	95	5	218	1	.	91
CEP135	9662	bcgsc.ca	37	4	56874512	56874512	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CEP135	NM_025009	exon18	c.T2300C	p.M767T	.	.	72	4	108	0	.	94
CEP350	9857	bcgsc.ca	37	1	180044327	180044327	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CEP350	NM_014810	exon28	c.A5738G	p.E1913G	.	.	267	8	345	1	.	26
CHRDL1	91851	bcgsc.ca	37	X	110005934	110005934	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CHRDL1	NM_001143981	exon3	c.A196G	p.I66V	.	.	169	5	238	0	.	130
CILP	8483	bcgsc.ca	37	15	65490612	65490612	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CILP	NM_003613	exon9	c.A2012G	p.E671G	.	.	108	6	182	1	.	97
CKMT2	1160	bcgsc.ca	37	5	80561998	80561998	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CKMT2	NM_001825	exon11	c.T1181G	p.L394R	.	.	81	4	151	0	.	90
CLEC10A	10462	bcgsc.ca	37	17	6982101	6982101	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CLEC10A	NM_182906	exon2	c.T31C	p.L11L	.	.	79	4	128	0	.	91
CLINT1	9685	bcgsc.ca	37	5	157214947	157214947	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CLINT1	NM_001195555	exon12	c.A1639G	p.S547G	.	.	69	4	193	0	.	48
CLPTM1	1209	bcgsc.ca	37	19	45488552	45488552	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CLPTM1	NM_001294	exon6	c.A663G	p.E221E	.	.	86	5	58	0	.	91
CLSPN	63967	bcgsc.ca	37	1	36211096	36211096	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CLSPN	NM_022111	exon16	c.G2922A	p.M974I	.	.	192	7	240	0	.	293
CNKSR2	22866	bcgsc.ca	37	X	21545095	21545095	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CNKSR2	NM_001168647	exon10	c.T1068C	p.P356P	.	.	122	5	158	1	.	625
CNOT11	55571	bcgsc.ca	37	2	101881492	101881492	+	Missense_Mutation	SNP	T	T	C	rs138065986	alternate_allele	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_017546	exon4	c.T1018C	p.S340P	.	.	135	5	199	2	T|1.000;G|0.000	.
CNOT11	55571	bcgsc.ca	37	2	101885811	101885811	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_017546	exon7	c.T1469C	p.L490P	.	.	122	5	169	0	.	.
CNOT4	4850	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	135107050	135107050	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CNOT4	NM_001190850	exon3	c.A227G	p.Q76R	.	.	206	34	272	0	.	90
CNTRL	11064	bcgsc.ca	37	9	123857233	123857233	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CNTRL	NM_007018	exon3	c.A416G	p.K139R	.	.	59	4	150	1	.	661
COG1	9382	bcgsc.ca	37	17	71192676	71192676	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	COG1	NM_018714	exon2	c.A346G	p.S116G	.	.	65	4	119	0	.	91
COL14A1	7373	bcgsc.ca	37	8	121238902	121238902	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	COL14A1	NM_021110	exon16	c.A1901G	p.E634G	.	.	80	4	98	1	.	543
COL15A1	1306	bcgsc.ca	37	9	101784428	101784428	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	COL15A1	NM_001855	exon13	c.C1757A	p.P586H	.	.	52	4	117	0	.	96
COL6A6	131873	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	130368255	130368255	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	COL6A6	NM_001102608	exon32	c.C5582A	p.A1861E	.	.	139	21	115	1	.	76
COL9A1	1297	broad.mit.edu	37	6	70979356	70979356	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	COL9A1	NM_001851	exon16	c.T1210C	p.F404L	.	.	324	7	570	0	.	94
COMMD3	23412	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	10	22606865	22606866	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	COMMD3	NM_012071	exon2	c.192_193insG	p.A64fs	.	.	368	63	305	0	.	115
CPD	1362	bcgsc.ca	37	17	28770865	28770865	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CPD	NM_001304	exon11	c.A2419G	p.R807G	.	.	56	5	98	2	.	92
CPEB4	80315	bcgsc.ca	37	5	173378937	173378937	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CPEB4	NM_030627	exon8	c.A1776G	p.R592R	.	.	79	4	189	0	.	90
CPXM1	56265	hgsc.bcm.edu	37	20	2776314	2776315	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CPXM1	NM_019609	exon11	c.1651_1652insC	p.C551fs	.	.	137	13	123	0	.	94
CREB5	9586	bcgsc.ca	37	7	28844098	28844098	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CREB5	NM_182898	exon8	c.A985C	p.T329P	.	.	320	66	433	35	.	92
CRMP1	1400	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	5837733	5837733	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CRMP1	NM_001014809	exon11	c.G1532A	p.R511K	.	.	91	18	142	0	.	92
CRNN	49860	bcgsc.ca	37	1	152382770	152382770	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CRNN	NM_016190	exon3	c.A788G	p.D263G	.	.	1350	53	1416	20	.	93
CRTC2	200186	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	153924495	153924495	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CRTC2	NM_181715	exon10	c.A996G	p.P332P	.	.	65	21	77	1	.	228
CSGALNACT2	55454	bcgsc.ca	37	10	43651197	43651197	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CSGALNACT2	NM_018590	exon2	c.A600G	p.Q200Q	.	.	90	4	127	0	.	69
CSPG4	1464	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	75968322	75968322	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CSPG4	NM_001897	exon10	c.G6538A	p.E2180K	.	.	33	12	23	0	.	229
CWC27	10283	bcgsc.ca	37	5	64313987	64313987	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CWC27	NM_005869	exon14	c.A1258G	p.M420V	.	.	121	5	262	0	.	90
CYP7A1	1581	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	59409293	59409293	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	CYP7A1	NM_000780	exon3	c.C778T	p.R260C	.	.	172	41	203	0	.	91
CYTB	0	broad.mit.edu;bcgsc.ca	37	MT	15357	15357	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	ENST00000361789	exon1	c.G611A	p.G204E	.	.	94	53	714	1	.	.
DAPP1	27071	bcgsc.ca	37	4	100774427	100774427	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DAPP1	NM_014395	exon4	c.C411T	p.S137S	.	.	47	4	119	0	.	93
DCSTAMP	81501	bcgsc.ca	37	8	105367255	105367255	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_030788	exon3	c.T1180C	p.S394P	.	.	135	5	252	0	.	.
DDB2	1643	ucsc.edu;bcgsc.ca	37	11	47260382	47260382	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DDB2	NM_000107	exon10	c.A1266G	p.E422E	.	.	38	4	43	0	.	971
DDX60L	91351	bcgsc.ca	37	4	169282309	169282309	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DDX60L	NM_001012967	exon37	c.A4982G	p.Q1661R	.	.	121	6	275	0	.	69
DDX60L	91351	bcgsc.ca	37	4	169379098	169379098	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DDX60L	NM_001012967	exon6	c.T668C	p.V223A	.	.	86	4	108	0	.	69
DEDD2	162989	bcgsc.ca	37	19	42703813	42703813	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DEDD2	NM_133328	exon5	c.T758C	p.F253S	.	.	72	4	86	0	.	90
DHX15	1665	bcgsc.ca	37	4	24544640	24544640	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DHX15	NM_001358	exon7	c.T1258C	p.S420P	.	.	149	5	193	1	.	91
DHX29	54505	bcgsc.ca	37	5	54563050	54563050	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DHX29	NM_019030	exon23	c.A3441G	p.K1147K	.	.	83	4	166	1	.	229
DHX36	170506	hgsc.bcm.edu	37	3	154042059	154042060	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DHX36	NM_020865	exon1	c.147_148insG	p.G49fs	.	.	242	13	223	0	.	226
DHX38	9785	bcgsc.ca	37	16	72141662	72141662	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DHX38	NM_014003	exon21	c.C2928T	p.S976S	.	.	54	4	100	0	.	227
DICER1	23405	bcgsc.ca	37	14	95574770	95574770	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DICER1	NM_030621	exon16	c.T2327C	p.V776A	.	.	58	4	147	0	.	961
DKK3	27122	bcgsc.ca	37	11	12020272	12020272	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DKK3	NM_015881	exon4	c.G406T	p.V136L	.	.	69	4	143	0	.	721
DLC1	10395	bcgsc.ca	37	8	12948832	12948832	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DLC1	NM_182643	exon14	c.T3850C	p.F1284L	.	.	72	4	126	0	.	657
DLG1	1739	bcgsc.ca	37	3	196792584	196792584	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DLG1	NM_004087	exon22	c.T2294C	p.V765A	.	.	218	6	333	1	.	118
DLG2	1740	bcgsc.ca	37	11	83177810	83177810	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DLG2	NM_001142699	exon26	c.A2670G	p.Q890Q	.	.	90	5	133	0	.	96
DLGAP2	9228	bcgsc.ca	37	8	1497650	1497650	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DLGAP2	NM_004745	exon2	c.A791G	p.K264R	.	.	80	4	95	0	.	22
DMD	1756	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	31496394	31496394	+	Silent	SNP	G	G	A	rs149776669		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DMD	NM_004006	exon59	c.C8766T	p.S2922S	.	.	285	47	246	1	G|1.000;A|0.000	265
DNA2	1763	bcgsc.ca	37	10	70176579	70176579	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_001080449	exon20	c.A3001T	p.N1001Y	.	.	69	4	161	0	.	.
DNAH1	25981	bcgsc.ca	37	3	52393398	52393398	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DNAH1	NM_015512	exon26	c.A4403G	p.Q1468R	.	.	88	4	165	1	.	67
DNAH7	56171	bcgsc.ca	37	2	196891507	196891507	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DNAH7	NM_018897	exon7	c.T644C	p.L215P	.	.	78	4	147	0	.	102
DPCR1	135656	bcgsc.ca	37	6	30918160	30918160	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DPCR1	NM_080870	exon2	c.G1919A	p.G640E	.	.	200	22	454	4	.	90
DSPP	1834	bcgsc.ca	37	4	88535806	88535806	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DSPP	NM_014208	exon5	c.C1992G	p.N664K	.	.	336	13	520	3	.	90
DSPP	1834	bcgsc.ca	37	4	88536043	88536043	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DSPP	NM_014208	exon5	c.C2229T	p.S743S	.	.	296	16	415	1	.	90
DSPP	1834	bcgsc.ca	37	4	88536046	88536046	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DSPP	NM_014208	exon5	c.T2232C	p.S744S	.	.	296	22	417	5	.	90
DSPP	1834	bcgsc.ca	37	4	88536052	88536052	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DSPP	NM_014208	exon5	c.C2238T	p.S746S	.	.	302	10	421	2	.	90
DSPP	1834	bcgsc.ca	37	4	88536199	88536199	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DSPP	NM_014208	exon5	c.T2385C	p.S795S	.	.	392	28	519	6	.	90
DSPP	1834	bcgsc.ca	37	4	88536313	88536313	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DSPP	NM_014208	exon5	c.C2499T	p.S833S	.	.	361	33	463	3	.	90
DSPP	1834	bcgsc.ca	37	4	88536847	88536847	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DSPP	NM_014208	exon5	c.C3033T	p.D1011D	.	.	234	14	357	2	.	90
DUSP10	11221	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	221912367	221912367	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DUSP10	NM_007207	exon2	c.C720T	p.T240T	.	.	156	19	234	0	.	659
DUSP16	80824	bcgsc.ca	37	12	12629772	12629772	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DUSP16	NM_030640	exon7	c.T1993C	p.S665P	.	.	16	3	40	0	.	226
DYNC1H1	1778	bcgsc.ca	37	14	102461624	102461624	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DYNC1H1	NM_001376	exon15	c.A3551G	p.E1184G	.	.	116	6	158	0	.	98
DYNC1H1	1778	bcgsc.ca	37	14	102476186	102476186	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	DYNC1H1	NM_001376	exon30	c.C5984T	p.A1995V	.	.	89	4	154	0	.	98
ECT2L	345930	bcgsc.ca	37	6	139186286	139186286	+	Missense_Mutation	SNP	T	T	C	rs182703053		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ECT2L	NM_001195037	exon11	c.T1445C	p.L482P	.	.	48	4	69	0	T|0.998;C|0.002	22
EFTUD1	79631	bcgsc.ca	37	15	82450142	82450142	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	EFTUD1	NM_024580	exon17	c.C1942A	p.Q648K	.	.	92	4	164	0	.	91
EGFR	1956	bcgsc.ca	37	7	55218999	55218999	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	EGFR	NM_201283	exon5	c.A572G	p.D191G	.	.	127	5	130	0	.	44910
EIF3G	8666	broad.mit.edu	37	19	10226254	10226254	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	EIF3G	NM_003755	exon10	c.C848T	p.A283V	.	.	30	3	43	0	.	68
EIF3I	8668	bcgsc.ca	37	1	32696573	32696573	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	EIF3I	NM_003757	exon10	c.T849C	p.G283G	.	.	93	6	123	1	.	69
EIF4G1	1981	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	3	184039489	184039489	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	EIF4G1	NM_001194946	exon11	c.G1138T	p.E380X	.	.	135	21	163	0	.	344
EML6	400954	bcgsc.ca	37	2	55118230	55118230	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_001039753	exon17	c.A2478G	p.P826P	.	.	96	5	137	0	.	.
ENPP7	339221	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	77711821	77711821	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ENPP7	NM_178543	exon5	c.G1353A	p.V451V	.	.	38	16	43	0	.	92
EPG5	57724	bcgsc.ca	37	18	43432603	43432603	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	EPG5	NM_020964	exon44	c.T7569C	p.A2523A	.	.	80	4	167	0	.	580
EPHB2	2048	bcgsc.ca	37	1	23191696	23191696	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	EPHB2	NM_017449	exon5	c.A1294G	p.N432D	.	.	71	4	84	0	.	1381
EPS15L1	58513	bcgsc.ca	37	19	16539573	16539573	+	Splice_Site	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	EPS15L1	NM_001258374	exon9	c.499-1G>A	.	.	.	75	4	86	0	.	95
ERCC2	2068	bcgsc.ca	37	19	45856039	45856039	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ERCC2	NM_000400	exon20	c.G1867A	p.V623I	.	.	66	4	68	0	.	848
ERGIC2	51290	bcgsc.ca	37	12	29523059	29523059	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ERGIC2	NM_016570	exon3	c.A203G	p.K68R	.	.	88	4	141	0	.	91
ESD	2098	bcgsc.ca	37	13	47361203	47361203	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ESD	NM_001984	exon4	c.C110T	p.P37L	.	.	72	4	137	0	.	91
ESPNP	284729	broad.mit.edu;bcgsc.ca	37	1	17029218	17029218	+	RNA	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	.	.	.	.	.	.	223	7	252	1	.	.
ESRRA	2101	bcgsc.ca	37	11	64074662	64074662	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ESRRA	NM_004451	exon2	c.A11G	p.Q4R	.	.	130	11	133	1	.	90
EXO1	9156	bcgsc.ca	37	1	242020736	242020736	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	EXO1	NM_130398	exon7	c.A495G	p.Q165Q	.	.	124	5	118	0	.	661
F5	2153	bcgsc.ca	37	1	169510463	169510463	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	F5	NM_000130	exon13	c.T3865C	p.F1289L	.	.	594	36	784	8	.	157
FA2H	79152	bcgsc.ca	37	16	74748115	74748115	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FA2H	NM_024306	exon7	c.A1092G	p.P364P	.	.	70	4	110	1	.	90
FAHD2A	51011	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	96072737	96072737	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FAHD2A	NM_016044	exon3	c.C294A	p.F98L	.	.	391	51	547	1	.	91
FAM133A	286499	broad.mit.edu;bcgsc.ca	37	X	92965114	92965114	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FAM133A	NM_173698	exon4	c.A696G	p.K232K	.	.	91	4	238	0	.	130
FAM134A	79137	bcgsc.ca	37	2	220046886	220046886	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FAM134A	NM_024293	exon9	c.A1167G	p.E389E	.	.	73	4	89	0	.	91
FAM134B	54463	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	16474884	16474884	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FAM134B	NM_001034850	exon9	c.C1460T	p.S487L	.	.	115	54	135	0	.	137
FAM149A	25854	bcgsc.ca	37	4	187084719	187084719	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FAM149A	NM_001006655	exon9	c.T975C	p.L325L	.	.	116	5	195	0	.	90
FAM160B2	64760	ucsc.edu;bcgsc.ca	37	8	21958157	21958157	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_022749	exon11	c.A1394G	p.E465G	.	.	52	4	71	2	.	.
FAM169A	26049	bcgsc.ca	37	5	74100381	74100381	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FAM169A	NM_015566	exon8	c.T849C	p.P283P	.	.	93	5	175	0	.	22
FAM22F	54754	broad.mit.edu	37	9	97084525	97084525	+	Missense_Mutation	SNP	G	G	A	rs200378871	alternate_allele	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FAM22F	NM_017561	exon3	c.C800T	p.T267M	.	.	168	4	373	0	G|0.999;T|0.001	68
FAM65B	9750	bcgsc.ca	37	6	24843638	24843638	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FAM65B	NM_014722	exon14	c.G1372A	p.E458K	.	.	94	4	157	0	.	91
FANCB	2187	bcgsc.ca	37	X	14861867	14861867	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FANCB	NM_152633	exon9	c.C2402G	p.A801G	.	.	138	29	226	8	.	562
FANCM	57697	bcgsc.ca	37	14	45633595	45633595	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FANCM	NM_020937	exon10	c.A1615G	p.T539A	.	.	56	4	89	0	.	569
FARP1	10160	bcgsc.ca	37	13	99042298	99042298	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FARP1	NM_005766	exon10	c.T943C	p.F315L	.	.	90	4	149	0	.	290
FAT2	2196	bcgsc.ca	37	5	150892106	150892106	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FAT2	NM_001447	exon20	c.C11525T	p.S3842F	.	.	55	4	125	3	.	96
FAT4	79633	bcgsc.ca	37	4	126411127	126411127	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FAT4	NM_024582	exon17	c.T13150C	p.L4384L	.	.	54	4	136	1	.	108
FBXO11	80204	bcgsc.ca	37	2	48066905	48066905	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FBXO11	NM_001190274	exon2	c.A236G	p.D79G	.	.	103	6	152	0	.	659
FBXO24	26261	bcgsc.ca	37	7	100198371	100198371	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FBXO24	NM_012172	exon10	c.C1706T	p.T569M	.	.	86	4	108	0	.	229
FBXO38	81545	bcgsc.ca	37	5	147821625	147821625	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FBXO38	NM_030793	exon22	c.A3257G	p.K1086R	.	.	82	4	202	0	.	231
FBXO39	162517	bcgsc.ca	37	17	6690664	6690664	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FBXO39	NM_153230	exon4	c.A1246G	p.T416A	.	.	65	6	142	0	.	228
FBXO40	51725	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	121341432	121341432	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FBXO40	NM_016298	exon3	c.A1156T	p.T386S	.	.	99	8	130	0	.	273
FBXO9	26268	broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	52957296	52957296	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FBXO9	NM_012347	exon7	c.C753T	p.Y251Y	.	.	257	49	398	2	.	227
FCHO1	23149	bcgsc.ca	37	19	17898527	17898527	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FCHO1	NM_001161358	exon27	c.C2519T	p.S840L	.	.	47	4	54	0	.	90
FCRL2	79368	bcgsc.ca	37	1	157745574	157745574	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FCRL2	NM_030764	exon2	c.G43C	p.E15Q	.	.	49	4	59	0	.	92
FGFR4	2264	bcgsc.ca	37	5	176523626	176523626	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FGFR4	NM_002011	exon16	c.A2037G	p.L679L	.	.	48	4	66	0	.	1460
FHOD1	29109	ucsc.edu	37	16	67281245	67281245	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FHOD1	NM_013241	exon1	c.G69A	p.L23L	.	.	46	4	60	0	.	221
FLG2	388698	bcgsc.ca	37	1	152324013	152324013	+	Silent	SNP	A	A	G	rs139472245		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FLG2	NM_001014342	exon3	c.T6249C	p.A2083A	.	.	633	41	806	10	A|1.000;G|0.000	151
FLNA	2316	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	153595782	153595782	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FLNA	NM_001456	exon5	c.C851T	p.A284V	.	.	35	9	60	0	.	599
FLNB	2317	bcgsc.ca	37	3	58124209	58124209	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FLNB	NM_001164317	exon30	c.G5155A	p.V1719M	.	.	84	4	158	0	.	593
FLNC	2318	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	128489494	128489494	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FLNC	NM_001127487	exon30	c.G5061A	p.G1687G	.	.	73	10	94	0	.	141
FNIP1	96459	bcgsc.ca	37	5	131080280	131080280	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FNIP1	NM_001008738	exon2	c.A196G	p.R66G	.	.	136	5	244	0	.	92
FOXH1	8928	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	8	145700607	145700607	+	Missense_Mutation	SNP	C	C	A	rs150426097	alternate_allele	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FOXH1	NM_003923	exon2	c.G212T	p.R71M	.	.	58	13	59	0	C|1.000;T|0.000	226
FOXM1	2305	bcgsc.ca	37	12	2973914	2973914	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FOXM1	NM_021953	exon7	c.A1025G	p.Q342R	.	.	71	4	121	0	.	227
FREM2	341640	bcgsc.ca	37	13	39265928	39265928	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FREM2	NM_207361	exon1	c.A4447G	p.T1483A	.	.	51	4	150	0	.	100
FRG1B	284802	bcgsc.ca	37	20	29623219	29623219	+	RNA	SNP	A	A	G	rs34726194		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FRG1B	.	.	.	.	.	.	654	29	767	23	.	22
FRMD6	122786	bcgsc.ca	37	14	52156572	52156572	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FRMD6	NM_001267046	exon2	c.T18C	p.F6F	.	.	145	13	240	7	.	524
FRMD6	122786	bcgsc.ca	37	14	52156575	52156575	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FRMD6	NM_001267046	exon2	c.T21C	p.H7H	.	.	151	13	247	5	.	524
FRMD6	122786	bcgsc.ca	37	14	52156605	52156605	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FRMD6	NM_001267046	exon2	c.T51C	p.S17S	.	.	187	12	298	6	.	524
FRMD6	122786	bcgsc.ca	37	14	52156626	52156626	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FRMD6	NM_001267046	exon2	c.C72T	p.N24N	.	.	185	12	300	6	.	524
FRMPD1	22844	bcgsc.ca	37	9	37740185	37740185	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FRMPD1	NM_014907	exon15	c.A1660G	p.I554V	.	.	48	4	76	0	.	159
FTH1P18	441490	bcgsc.ca	37	X	37061164	37061164	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_001271682	exon1	c.C598T	p.P200S	.	.	27	4	26	0	.	.
FUT11	170384	bcgsc.ca	37	10	75535364	75535364	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FUT11	NM_173540	exon3	c.T1400C	p.M467T	.	.	56	4	134	0	.	90
FZD10	11211	broad.mit.edu;bcgsc.ca	37	12	130648989	130648989	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	FZD10	NM_007197	exon1	c.T1502C	p.V501A	.	.	55	7	73	0	.	658
GAB2	9846	hgsc.bcm.edu	37	11	77937959	77937960	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GAB2	NM_080491	exon4	c.759_760insA	p.K253fs	.	.	77	13	123	0	.	663
GABRA5	2558	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	27114447	27114447	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GABRA5	NM_001165037	exon3	c.T52G	p.F18V	.	.	234	48	409	1	.	91
GALNT5	11227	ucsc.edu;bcgsc.ca	37	2	158167786	158167786	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GALNT5	NM_014568	exon10	c.A2749T	p.I917F	.	.	58	9	88	2	.	290
GAREM	64762	bcgsc.ca	37	18	29867461	29867461	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_022751	exon4	c.C1099A	p.H367N	.	.	67	4	137	0	.	.
GDF9	2661	bcgsc.ca	37	5	132197617	132197617	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GDF9	NM_005260	exon2	c.C1029A	p.F343L	.	.	58	4	118	0	.	227
GFAP	2670	bcgsc.ca	37	17	42991142	42991142	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GFAP	NM_001131019	exon3	c.A572G	p.E191G	.	.	58	4	145	1	.	516
GIGYF2	26058	bcgsc.ca	37	2	233708935	233708935	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GIGYF2	NM_001103147	exon26	c.C3132G	p.H1044Q	.	.	59	12	101	0	.	28
GIGYF2	26058	bcgsc.ca	37	2	233708939	233708939	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GIGYF2	NM_001103147	exon26	c.C3136A	p.Q1046K	.	.	57	11	98	0	.	28
GJA8	2703	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	1	147380863	147380863	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GJA8	NM_005267	exon2	c.C781T	p.Q261X	.	.	66	31	74	0	.	138
GLO1	2739	broad.mit.edu;bcgsc.ca;mdanderson.org	37	6	38670784	38670784	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GLO1	NM_006708	exon1	c.C47T	p.A16V	.	.	51	9	76	0	.	227
GLUD1	2746	bcgsc.ca	37	10	88817537	88817537	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GLUD1	NM_005271	exon11	c.T1405C	p.S469P	.	.	53	4	112	0	.	90
GON4L	54856	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	155723018	155723018	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GON4L	NM_001037533	exon29	c.G5819A	p.R1940K	.	.	223	28	264	0	.	93
GPR107	57720	bcgsc.ca	37	9	132890995	132890995	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GPR107	NM_001136557	exon19	c.A1661G	p.Y554C	.	.	74	4	117	0	.	91
GPR64	10149	bcgsc.ca	37	X	19039253	19039253	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GPR64	NM_001184834	exon14	c.T612C	p.A204A	.	.	96	4	149	0	.	130
GPR98	84059	bcgsc.ca	37	5	89924446	89924446	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GPR98	NM_032119	exon8	c.A1306G	p.T436A	.	.	70	4	185	0	.	103
GRIA2	2891	bcgsc.ca	37	4	158224800	158224800	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GRIA2	NM_000826	exon3	c.T326C	p.V109A	.	.	163	5	338	3	.	515
GRK1	6011	broad.mit.edu	37	13	114322366	114322366	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GRK1	NM_002929	exon1	c.A665G	p.N222S	.	.	24	3	42	0	.	614
GRK5	2869	ucsc.edu	37	10	121182685	121182685	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GRK5	NM_005308	exon5	c.T347C	p.V116A	.	.	47	4	93	0	.	547
GRM5	2915	bcgsc.ca	37	11	88338070	88338070	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GRM5	NM_000842	exon5	c.A1210G	p.I404V	.	.	60	4	109	0	.	949
GRN	2896	ucsc.edu;bcgsc.ca	37	17	42428482	42428482	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GRN	NM_002087	exon8	c.C786T	p.S262S	.	.	42	4	73	0	.	517
GSTK1	373156	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	142964755	142964755	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	GSTK1	NM_001143679	exon5	c.C634A	p.L212M	.	.	108	42	103	0	.	90
HELZ	9931	bcgsc.ca	37	17	65104742	65104742	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	HELZ	NM_014877	exon30	c.T4590C	p.A1530A	.	.	46	5	121	2	.	92
HEMK1	51409	bcgsc.ca	37	3	50608743	50608743	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	HEMK1	NM_016173	exon2	c.C208T	p.H70Y	.	.	77	4	92	0	.	278
HK2	3099	bcgsc.ca	37	2	75099518	75099518	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	HK2	NM_000189	exon4	c.T467C	p.F156S	.	.	163	22	199	8	.	252
HOMER2	9455	bcgsc.ca	37	15	83518534	83518534	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	HOMER2	NM_199330	exon9	c.T998C	p.L333P	.	.	172	6	229	0	.	67
HP1BP3	50809	bcgsc.ca	37	1	21100077	21100077	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	HP1BP3	NM_016287	exon5	c.A377G	p.E126G	.	.	74	4	123	0	.	91
HPD	3242	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	122284995	122284995	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	HPD	NM_002150	exon10	c.A722G	p.N241S	.	.	105	14	125	0	.	90
HSF5	124535	bcgsc.ca	37	17	56540563	56540563	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	HSF5	NM_001080439	exon4	c.T1122C	p.A374A	.	.	142	5	284	1	.	71
HSP90B1	7184	bcgsc.ca	37	12	104336985	104336985	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	HSP90B1	NM_003299	exon13	c.A1778G	p.K593R	.	.	89	4	180	0	.	93
HSPA4	3308	bcgsc.ca	37	5	132424824	132424824	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	HSPA4	NM_002154	exon10	c.A1215G	p.R405R	.	.	151	5	285	0	.	226
HTR1A	3350	ucsc.edu	37	5	63257052	63257052	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	HTR1A	NM_000524	exon1	c.C495T	p.F165F	.	.	125	32	218	25	.	94
HTR7	3363	bcgsc.ca	37	10	92503449	92503449	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	HTR7	NM_019859	exon4	c.1296-2A>G	.	.	.	92	5	144	0	.	91
IDH1	3417	bcgsc.ca	37	2	209113321	209113321	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	IDH1	NM_005896	exon4	c.A186G	p.E62E	.	.	209	6	318	0	.	23522
IER5	51278	bcgsc.ca	37	1	181058799	181058799	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	IER5	NM_016545	exon1	c.A761G	p.E254G	.	.	58	5	40	0	.	227
IFNA4	3441	bcgsc.ca	37	9	21187003	21187003	+	Silent	SNP	C	C	A	rs143390039		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	IFNA4	NM_021068	exon1	c.G528T	p.S176S	.	.	586	58	1160	49	C|1.000;A|0.000	92
IFNLR1	163702	bcgsc.ca	37	1	24483864	24483864	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_170743	exon7	c.T1319C	p.L440P	.	.	64	5	117	0	.	.
IFNW1	3467	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	21141286	21141286	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	IFNW1	NM_002177	exon1	c.G284T	p.R95L	.	.	30	9	113	0	.	90
IGSF3	3321	bcgsc.ca	37	1	117150600	117150600	+	Missense_Mutation	SNP	G	G	A	rs141947907		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	IGSF3	NM_001542	exon5	c.C1186T	p.R396C	.	.	174	18	211	6	G|1.000;A|0.000	92
IMPG2	50939	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	100972618	100972618	+	Silent	SNP	T	T	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	IMPG2	NM_016247	exon11	c.A1161T	p.G387G	.	.	57	18	74	1	.	93
INADL	10207	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	62330235	62330235	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	INADL	NM_176877	exon20	c.A2765C	p.Q922P	.	.	35	19	83	0	.	94
INF2	64423	broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	105175658	105175658	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	INF2	NM_022489	exon11	c.A1990G	p.T664A	.	.	37	4	63	0	.	492
INO80	54617	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	41377743	41377743	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	INO80	NM_017553	exon7	c.G697A	p.E233K	.	.	315	62	548	0	.	72
IQGAP1	8826	bcgsc.ca	37	15	90992835	90992835	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	IQGAP1	NM_003870	exon11	c.A1122G	p.G374G	.	.	85	4	114	0	.	950
ISX	91464	bcgsc.ca	37	22	35463104	35463104	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ISX	NM_001008494	exon1	c.T24C	p.A8A	.	.	88	4	68	0	.	95
ITGA7	3679	bcgsc.ca	37	12	56092228	56092228	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ITGA7	NM_001144996	exon7	c.T1143C	p.P381P	.	.	64	8	69	4	.	229
ITGA9	3680	bcgsc.ca	37	3	37544670	37544670	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ITGA9	NM_002207	exon6	c.A614G	p.E205G	.	.	289	7	425	4	.	715
ITGAX	3687	bcgsc.ca	37	16	31371107	31371107	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ITGAX	NM_000887	exon6	c.T517C	p.F173L	.	.	75	4	77	0	.	229
ITPR3	3710	bcgsc.ca	37	6	33662786	33662786	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ITPR3	NM_002224	exon57	c.T7871C	p.I2624T	.	.	49	4	72	0	.	1085
IWS1	55677	bcgsc.ca	37	2	128260407	128260407	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	IWS1	NM_017969	exon5	c.A1451G	p.E484G	.	.	69	4	89	0	.	91
JMJD1C	221037	bcgsc.ca	37	10	64957188	64957188	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	JMJD1C	NM_032776	exon13	c.A5627G	p.E1876G	.	.	76	4	204	0	.	275
KAT6A	7994	bcgsc.ca	37	8	41798889	41798889	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_001099412	exon16	c.T2510C	p.V837A	.	.	44	4	95	1	.	.
KATNA1	11104	bcgsc.ca	37	6	149918675	149918675	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KATNA1	NM_007044	exon9	c.T1118C	p.L373P	.	.	86	5	132	1	.	91
KAZALD1	81621	bcgsc.ca	37	10	102824597	102824597	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KAZALD1	NM_030929	exon5	c.A835G	p.T279A	.	.	158	5	280	2	.	90
KCNA5	3741	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	5154891	5154891	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KCNA5	NM_002234	exon1	c.A1578T	p.E526D	.	.	64	14	114	0	.	715
KCNB2	9312	bcgsc.ca	37	8	73850107	73850107	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KCNB2	NM_004770	exon3	c.T2517C	p.S839S	.	.	81	4	123	0	.	158
KCNRG	283518	bcgsc.ca	37	13	50589714	50589714	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KCNRG	NM_173605	exon1	c.T85C	p.S29P	.	.	121	6	273	0	.	90
KIAA0368	23392	ucsc.edu	37	9	114174347	114174347	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KIAA0368	NM_001080398	exon22	c.A2695G	p.N899D	.	.	53	12	161	12	.	68
KIAA0922	23240	bcgsc.ca	37	4	154502647	154502647	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KIAA0922	NM_001131007	exon9	c.A827G	p.N276S	.	.	64	4	96	0	.	92
KIAA0922	23240	bcgsc.ca	37	4	154547297	154547297	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KIAA0922	NM_001131007	exon30	c.4046-2A>G	.	.	.	234	6	407	0	.	92
KIAA1033	23325	bcgsc.ca	37	12	105558464	105558464	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KIAA1033	NM_015275	exon32	c.T3400C	p.F1134L	.	.	89	4	124	0	.	91
KIAA1109	84162	bcgsc.ca	37	4	123192389	123192389	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KIAA1109	NM_015312	exon45	c.T7710C	p.A2570A	.	.	122	5	272	0	.	80
KIAA1109	84162	bcgsc.ca	37	4	123202709	123202709	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KIAA1109	NM_015312	exon50	c.A8817G	p.E2939E	.	.	89	5	186	0	.	80
KIAA1324L	222223	bcgsc.ca	37	7	86556111	86556111	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KIAA1324L	NM_001142749	exon9	c.A1211G	p.N404S	.	.	69	4	95	0	.	97
KIAA1751	85452	bcgsc.ca	37	1	1904439	1904439	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KIAA1751	NM_001080484	exon8	c.T722C	p.L241P	.	.	67	4	68	0	.	69
KIF14	9928	bcgsc.ca	37	1	200539082	200539082	+	Silent	SNP	T	T	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KIF14	NM_014875	exon23	c.A3618T	p.I1206I	.	.	91	5	99	0	.	140
KIF5B	3799	broad.mit.edu	37	10	32308886	32308886	+	Nonsense_Mutation	SNP	G	G	A	rs146000651	alternate_allele	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KIF5B	NM_004521	exon20	c.C2206T	p.Q736X	.	.	236	5	214	0	G|0.999;T|0.000	399
KIFAP3	22920	broad.mit.edu	37	1	169993705	169993705	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KIFAP3	NM_014970	exon9	c.G874A	p.D292N	.	.	357	8	357	0	.	91
KLF8	11279	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	56291629	56291629	+	Missense_Mutation	SNP	G	G	A	rs144407506		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KLF8	NM_001159296	exon4	c.G98A	p.R33Q	.	.	108	17	175	0	G|1.000;A|0.000	131
KLHDC1	122773	bcgsc.ca	37	14	50206898	50206898	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KLHDC1	NM_172193	exon11	c.A979G	p.T327A	.	.	90	4	198	0	.	91
KLHDC3	116138	bcgsc.ca	37	6	42985941	42985941	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KLHDC3	NM_057161	exon5	c.T506C	p.L169P	.	.	201	6	290	0	.	91
KLHL24	54800	broad.mit.edu;bcgsc.ca	37	3	183388833	183388833	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KLHL24	NM_017644	exon6	c.C1236T	p.V412V	.	.	189	7	252	2	.	91
KLHL3	26249	bcgsc.ca	37	5	136974665	136974665	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KLHL3	NM_017415	exon10	c.T1196C	p.V399A	.	.	100	6	182	0	.	90
KNDC1	85442	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	135025036	135025036	+	Missense_Mutation	SNP	G	G	T	rs151235501	alternate_allele	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KNDC1	NM_152643	exon22	c.G4019T	p.G1340V	.	.	65	23	74	0	G|1.000;A|0.000	229
KRTAP10-11	386678	bcgsc.ca	37	21	46067057	46067057	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KRTAP10-11	NM_198692	exon1	c.A682T	p.T228S	.	.	186	21	292	5	.	91
KRTAP10-11	386678	bcgsc.ca	37	21	46067064	46067064	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KRTAP10-11	NM_198692	exon1	c.G689C	p.C230S	.	.	174	14	286	0	.	91
KRTAP10-2	386679	bcgsc.ca	37	21	45970691	45970691	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KRTAP10-2	NM_198693	exon1	c.A651G	p.P217P	.	.	118	19	213	5	.	135
KRTAP10-4	386672	bcgsc.ca	37	21	45994689	45994689	+	Missense_Mutation	SNP	A	A	T	rs202221435		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	KRTAP10-4	NM_198687	exon1	c.A1054T	p.T352S	.	.	123	14	207	1	.	90
KRTAP4-12	83755	bcgsc.ca	37	17	39280087	39280087	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_031854	exon1	c.C288T	p.C96C	.	.	21	7	60	1	.	.
LAMA2	3908	bcgsc.ca	37	6	129824266	129824266	+	Silent	SNP	A	A	G	rs184127828	alternate_allele	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LAMA2	NM_000426	exon60	c.A8388G	p.E2796E	.	.	136	5	164	0	A|0.998;C|0.002	162
LAMB1	3912	bcgsc.ca	37	7	107635362	107635362	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LAMB1	NM_002291	exon5	c.C393T	p.F131F	.	.	61	4	96	0	.	97
LARP4B	23185	hgsc.bcm.edu	37	10	858938	858939	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LARP4B	NM_015155	exon18	c.2145_2146insG	p.G715fs	.	.	127	10	66	0	.	92
LCE1E	353135	bcgsc.ca	37	1	152759958	152759959	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LCE1E	NM_178353	exon2	c.183_184del	p.61_62del	.	.	163	18	163	0	.	90
LCE1E	353135	broad.mit.edu;bcgsc.ca	37	1	152759953	152759955	+	In_Frame_Del	DEL	TGT	TGT	-	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	TGT	TGT	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LCE1E	NM_178353	exon2	c.178_180del	p.60_60del	.	.	159	19	166	0	.	90
LCE1E	353135	broad.mit.edu;bcgsc.ca	37	1	152759963	152759964	+	Frame_Shift_Ins	INS	-	-	CA	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	-	-	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LCE1E	NM_178353	exon2	c.188_189insCA	p.S63fs	.	.	158	0	171	0	.	90
LCE3E	353145	broad.mit.edu;bcgsc.ca	37	1	152538612	152538612	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LCE3E	NM_178435	exon2	c.A73G	p.N25D	.	.	265	8	217	0	.	69
LCLAT1	253558	bcgsc.ca	37	2	30863482	30863482	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LCLAT1	NM_182551	exon7	c.G1242T	p.E414D	.	.	73	5	105	0	.	92
LILRB4	11006	ucsc.edu;bcgsc.ca;mdanderson.org	37	19	55175343	55175343	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LILRB4	NM_006847	exon3	c.C202G	p.P68A	.	.	351	69	397	1	.	93
LIPN	643418	bcgsc.ca	37	10	90521175	90521175	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_001102469	exon1	c.C13G	p.L5V	.	.	90	13	264	6	.	.
LMTK3	114783	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	49013717	49013717	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LMTK3	NM_001080434	exon3	c.A296C	p.K99T	.	.	125	19	143	0	.	1357
LNPEP	4012	bcgsc.ca	37	5	96358028	96358028	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LNPEP	NM_005575	exon14	c.A2401G	p.N801D	.	.	47	4	117	0	.	229
LOC642236	0	bcgsc.ca	37	9	68433511	68433511	+	RNA	SNP	C	C	T	rs202018667		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	.	.	.	.	.	.	490	51	892	44	.	.
LOC642236	0	bcgsc.ca	37	9	68433548	68433548	+	RNA	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	.	.	.	.	.	.	735	59	1309	56	.	.
LOC642236	0	bcgsc.ca	37	9	68433550	68433550	+	RNA	SNP	A	A	G	rs144797473		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	.	.	.	.	.	.	745	59	1338	56	.	.
LONP2	83752	broad.mit.edu;bcgsc.ca	37	16	48290585	48290585	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LONP2	NM_031490	exon3	c.T533C	p.L178P	.	.	198	6	272	0	.	90
LPL	4023	bcgsc.ca	37	8	19819638	19819638	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LPL	NM_000237	exon9	c.T1335C	p.C445C	.	.	67	4	131	0	.	92
LPP	4026	bcgsc.ca	37	3	188426103	188426103	+	Missense_Mutation	SNP	C	C	A	rs143828647	byfrequency;alternate_allele	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LPP	NM_005578	exon7	c.C1162A	p.R388S	.	.	84	4	140	0	C|0.998;T|0.002	659
LRIF1	55791	bcgsc.ca	37	1	111495209	111495209	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LRIF1	NM_018372	exon2	c.G297C	p.Q99H	.	.	74	5	160	1	.	93
LRIT1	26103	bcgsc.ca	37	10	85992266	85992266	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LRIT1	NM_015613	exon4	c.T1289C	p.M430T	.	.	59	4	105	0	.	90
LRRC34	151827	bcgsc.ca	37	3	169511432	169511432	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LRRC34	NM_001172779	exon11	c.A1386C	p.Q462H	.	.	112	31	172	11	.	90
LRRCC1	85444	bcgsc.ca	37	8	86027770	86027770	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LRRCC1	NM_033402	exon6	c.A881G	p.E294G	.	.	89	4	154	0	.	90
LYST	1130	broad.mit.edu	37	1	235973459	235973459	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	LYST	NM_000081	exon5	c.C659T	p.A220V	.	.	356	7	398	1	.	143
MAD2L1BP	9587	ucsc.edu	37	6	43607760	43607760	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MAD2L1BP	NM_001003690	exon4	c.A411G	p.A137A	.	.	48	4	56	0	.	90
MAGED2	10916	bcgsc.ca	37	X	54841995	54842000	+	In_Frame_Del	DEL	TGGCTT	TGGCTT	-	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	TGGCTT	TGGCTT	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MAGED2	NM_201222	exon12	c.1701_1706del	p.567_569del	.	.	63	4	86	0	.	195
MAK16	84549	ucsc.edu;bcgsc.ca	37	8	33354202	33354202	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MAK16	NM_032509	exon8	c.G582T	p.E194D	.	.	41	4	83	0	.	69
MALT1	10892	bcgsc.ca	37	18	56376700	56376700	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MALT1	NM_173844	exon5	c.A740G	p.Q247R	.	.	92	5	197	0	.	660
MAML3	55534	bcgsc.ca	37	4	140811580	140811580	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MAML3	NM_018717	exon2	c.A1010G	p.K337R	.	.	61	4	185	4	.	455
MAP3K1	4214	bcgsc.ca	37	5	56161181	56161181	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MAP3K1	NM_005921	exon5	c.A1050G	p.A350A	.	.	177	6	353	0	.	956
MAP3K9	4293	bcgsc.ca	37	14	71267382	71267382	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MAP3K9	NM_033141	exon3	c.820+2T>C	.	.	.	63	5	140	0	.	546
MAPK6	5597	bcgsc.ca	37	15	52338757	52338757	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MAPK6	NM_002748	exon2	c.G100T	p.V34F	.	.	265	31	356	12	.	1403
MAPKAP1	79109	bcgsc.ca	37	9	128206876	128206876	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MAPKAP1	NM_001006617	exon11	c.T1347C	p.S449S	.	.	63	4	117	0	.	678
MASP2	10747	bcgsc.ca	37	1	11090231	11090231	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MASP2	NM_006610	exon11	c.1297+2T>C	.	.	.	75	4	99	0	.	94
MATR3	9782	bcgsc.ca	37	5	138650375	138650375	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MATR3	NM_018834	exon3	c.A924G	p.Q308Q	.	.	119	5	247	0	.	91
MBD4	8930	bcgsc.ca	37	3	129152731	129152731	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MBD4	NM_003925	exon5	c.A1373G	p.K458R	.	.	81	4	180	0	.	228
MBIP	51562	bcgsc.ca	37	14	36781177	36781177	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MBIP	NM_016586	exon5	c.A625G	p.S209G	.	.	148	5	279	0	.	658
MCM10	55388	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	13212934	13212934	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MCM10	NM_018518	exon3	c.A20G	p.N7S	.	.	247	127	168	0	.	653
MCM5	4174	bcgsc.ca	37	22	35812650	35812650	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MCM5	NM_006739	exon12	c.T1433C	p.L478P	.	.	93	4	89	2	.	228
MCOLN3	55283	bcgsc.ca	37	1	85510872	85510872	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MCOLN3	NM_001253693	exon2	c.A172G	p.R58G	.	.	67	4	119	0	.	91
MCTP1	79772	bcgsc.ca	37	5	94248548	94248548	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MCTP1	NM_024717	exon9	c.T1484C	p.V495A	.	.	91	4	218	0	.	92
MED15	51586	broad.mit.edu	37	22	20937163	20937163	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MED15	NM_001003891	exon11	c.C1446T	p.P482P	.	.	79	4	34	0	.	211
MED24	9862	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	38189358	38189358	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MED24	NM_014815	exon8	c.G773A	p.G258D	.	.	37	18	87	0	.	187
METTL21D	79609	bcgsc.ca	37	14	50582855	50582855	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	METTL21D	NM_024558	exon2	c.G309A	p.L103L	.	.	67	4	116	0	.	90
METTL2A	339175	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	60501620	60501620	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	METTL2A	NM_181725	exon2	c.G151A	p.E51K	.	.	76	20	127	0	.	248
MICAL3	57553	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	18358243	18358243	+	Silent	SNP	G	G	A	rs201286172		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MICAL3	NM_001136004	exon19	c.C2475T	p.P825P	.	.	59	12	73	0	.	68
MICALL2	79778	bcgsc.ca	37	7	1479566	1479566	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MICALL2	NM_182924	exon9	c.T1961C	p.L654P	.	.	142	6	78	1	.	90
MKI67	4288	bcgsc.ca	37	10	129914795	129914795	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MKI67	NM_001145966	exon6	c.A360G	p.P120P	.	.	55	4	115	0	.	519
MLL2	8085	bcgsc.ca	37	12	49427664	49427664	+	Silent	SNP	T	T	C	rs189571290	by1000genomes	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MLL2	NM_003482	exon39	c.A10824G	p.Q3608Q	.	.	48	6	77	0	T|0.999;C|0.000	612
MLL2	8085	bcgsc.ca	37	12	49427670	49427670	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MLL2	NM_003482	exon39	c.G10818A	p.Q3606Q	.	.	47	6	73	0	.	612
MLL2	8085	bcgsc.ca	37	12	49442941	49442941	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MLL2	NM_003482	exon12	c.G3967A	p.G1323S	.	.	70	4	76	0	.	612
MLPH	79083	bcgsc.ca	37	2	238434418	238434418	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MLPH	NM_001042467	exon7	c.A850G	p.R284G	.	.	77	5	86	0	.	91
MMP8	4317	broad.mit.edu	37	11	102595519	102595519	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MMP8	NM_002424	exon1	c.T68C	p.V23A	.	.	204	5	274	0	.	229
MMRN1	22915	bcgsc.ca	37	4	90857879	90857879	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MMRN1	NM_007351	exon6	c.A3048G	p.K1016K	.	.	70	4	141	0	.	94
MMS22L	253714	bcgsc.ca	37	6	97730320	97730320	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MMS22L	NM_198468	exon2	c.A34G	p.T12A	.	.	45	4	101	0	.	92
MOCS1	4337	bcgsc.ca	37	6	39883922	39883922	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MOCS1	NM_005943	exon3	c.T473C	p.I158T	.	.	19	3	40	0	.	92
MROH2B	133558	broad.mit.edu;bcgsc.ca;mdanderson.org	37	5	41055918	41055918	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_173489	exon10	c.A959C	p.E320A	.	.	122	12	157	1	.	.
MRPS22	56945	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	139062905	139062905	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MRPS22	NM_020191	exon1	c.C37T	p.L13F	.	.	54	16	49	0	.	93
MRPS31	10240	bcgsc.ca	37	13	41323357	41323357	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MRPS31	NM_005830	exon6	c.A875G	p.Q292R	.	.	134	5	211	0	.	226
MRPS34	65993	bcgsc.ca	37	16	1822499	1822499	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MRPS34	NM_023936	exon3	c.A380G	p.E127G	.	.	50	4	56	0	.	92
MTMR4	9110	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	56582147	56582147	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MTMR4	NM_004687	exon12	c.C1292T	p.T431M	.	.	47	12	81	0	.	91
MUC13	56667	bcgsc.ca	37	3	124632522	124632522	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MUC13	NM_033049	exon7	c.T968C	p.L323P	.	.	155	5	168	0	.	90
MUC17	140453	bcgsc.ca	37	7	100677787	100677787	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MUC17	NM_001040105	exon3	c.C3090T	p.T1030T	.	.	150	5	236	0	.	95
MUC21	394263	bcgsc.ca	37	6	30955133	30955133	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MUC21	NM_001010909	exon2	c.A1181G	p.E394G	.	.	117	23	172	15	.	92
MUC4	4585	bcgsc.ca	37	3	195511012	195511012	+	Missense_Mutation	SNP	G	G	T	rs200284897		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MUC4	NM_018406	exon2	c.C7439A	p.P2480H	.	.	199	21	279	2	G|0.999;T|0.001	90
MUC4	4585	bcgsc.ca	37	3	195511883	195511883	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MUC4	NM_018406	exon2	c.G6568A	p.A2190T	.	.	340	56	415	20	.	90
MUC6	4588	bcgsc.ca	37	11	1017526	1017526	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MUC6	NM_005961	exon31	c.C5275G	p.P1759A	.	.	882	55	1439	20	.	23
MYBPC2	4606	broad.mit.edu;ucsc.edu;mdanderson.org	37	19	50957533	50957533	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MYBPC2	NM_004533	exon18	c.C1921A	p.P641T	.	.	74	15	59	1	.	67
MYH15	22989	bcgsc.ca	37	3	108149686	108149686	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MYH15	NM_014981	exon27	c.A3365G	p.E1122G	.	.	59	4	56	0	.	73
MYH4	4622	bcgsc.ca	37	17	10364267	10364267	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MYH4	NM_017533	exon12	c.A1113G	p.Q371Q	.	.	124	5	289	0	.	102
MYH6	4624	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	23851737	23851737	+	Missense_Mutation	SNP	C	C	A	rs61731171	alternate_allele	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MYH6	NM_002471	exon38	c.G5696T	p.R1899L	.	.	132	26	199	0	C|0.986;T|0.014	94
MYO15A	51168	ucsc.edu	37	17	18029689	18029689	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MYO15A	NM_016239	exon5	c.T3785G	p.V1262G	.	.	40	4	59	0	.	97
MYO18A	399687	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	27449219	27449219	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MYO18A	NM_078471	exon3	c.A1052C	p.K351T	.	.	126	74	262	0	.	22
MYO5C	55930	bcgsc.ca	37	15	52553144	52553144	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MYO5C	NM_018728	exon10	c.T1228C	p.F410L	.	.	132	5	156	0	.	145
MYOCD	93649	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	12666487	12666487	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MYOCD	NM_001146312	exon14	c.C2487T	p.P829P	.	.	56	34	121	0	.	93
MYOF	26509	bcgsc.ca	37	10	95095685	95095685	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MYOF	NM_013451	exon41	c.A4556G	p.E1519G	.	.	91	4	167	2	.	93
MYOZ2	51778	bcgsc.ca	37	4	120107244	120107244	+	Silent	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MYOZ2	NM_016599	exon6	c.C684A	p.G228G	.	.	95	5	202	0	.	90
MYSM1	114803	bcgsc.ca	37	1	59132885	59132885	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	MYSM1	NM_001085487	exon16	c.A1856G	p.E619G	.	.	57	4	130	0	.	501
N4BP2L1	90634	ucsc.edu;bcgsc.ca	37	13	32981893	32981893	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	N4BP2L1	NM_052818	exon2	c.T196C	p.F66L	.	.	33	4	47	0	.	91
NAP1L5	266812	bcgsc.ca	37	4	89618483	89618483	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NAP1L5	NM_153757	exon1	c.A423G	p.E141E	.	.	128	10	209	3	.	91
NAP1L5	266812	bcgsc.ca	37	4	89618492	89618492	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NAP1L5	NM_153757	exon1	c.G414C	p.E138D	.	.	128	7	199	0	.	91
NAP1L5	266812	bcgsc.ca	37	4	89618495	89618495	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NAP1L5	NM_153757	exon1	c.G411A	p.E137E	.	.	130	8	195	0	.	91
NCAPD2	9918	bcgsc.ca	37	12	6630247	6630247	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NCAPD2	NM_014865	exon14	c.T1685C	p.L562P	.	.	133	6	157	0	.	660
NCAPD3	23310	bcgsc.ca	37	11	134074843	134074843	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NCAPD3	NM_015261	exon9	c.A1040G	p.E347G	.	.	70	4	112	0	.	229
NCOA2	10499	bcgsc.ca	37	8	71041215	71041215	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NCOA2	NM_006540	exon17	c.A3325G	p.S1109G	.	.	119	5	193	1	.	639
NCR2	9436	bcgsc.ca	37	6	41318522	41318522	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NCR2	NM_004828	exon5	c.T751C	p.S251P	.	.	53	4	87	0	.	91
ND5	0	broad.mit.edu;bcgsc.ca	37	MT	13718	13718	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	ENST00000361567	exon1	c.G1382A	p.S461N	.	.	78	26	624	1	.	.
ND6	0	broad.mit.edu;bcgsc.ca	37	MT	14607	14607	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	ENST00000361681	exon1	c.C67T	p.P23S	.	.	175	11	1100	0	.	.
NDRG2	57447	bcgsc.ca	37	14	21490242	21490242	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NDRG2	NM_201537	exon5	c.G323A	p.G108E	.	.	70	4	104	0	.	154
NEDD4L	23327	bcgsc.ca	37	18	56031567	56031567	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NEDD4L	NM_015277	exon19	c.1773+2T>C	.	.	.	49	4	123	0	.	658
NEK9	91754	bcgsc.ca	37	14	75573272	75573272	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NEK9	NM_033116	exon12	c.T1461C	p.C487C	.	.	73	5	150	0	.	359
NES	10763	bcgsc.ca	37	1	156640399	156640399	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NES	NM_006617	exon4	c.A3581G	p.H1194R	.	.	92	4	79	0	.	520
NETO2	81831	bcgsc.ca	37	16	47143591	47143591	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NETO2	NM_018092	exon7	c.A686G	p.E229G	.	.	139	5	199	0	.	90
NID2	22795	bcgsc.ca	37	14	52477608	52477608	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NID2	NM_007361	exon18	c.G3708A	p.V1236V	.	.	69	4	143	1	.	158
NIN	51199	bcgsc.ca	37	14	51190346	51190346	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NIN	NM_020921	exon31	c.T6237C	p.Y2079Y	.	.	131	5	296	2	.	229
NLE1	54475	bcgsc.ca	37	17	33464067	33464067	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NLE1	NM_018096	exon7	c.T781C	p.Y261H	.	.	88	4	137	0	.	290
NLN	57486	bcgsc.ca	37	5	65118607	65118607	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NLN	NM_020726	exon13	c.1981-2A>G	.	.	.	44	4	88	0	.	90
NOL6	65083	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	33468831	33468831	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NOL6	NM_022917	exon8	c.G1066C	p.V356L	.	.	63	22	114	0	.	92
NOL8	55035	bcgsc.ca	37	9	95076660	95076660	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NOL8	NM_017948	exon7	c.T2247C	p.S749S	.	.	77	4	149	0	.	23
NPLOC4	55666	ucsc.edu;bcgsc.ca	37	17	79567437	79567437	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NPLOC4	NM_017921	exon9	c.G851A	p.S284N	.	.	25	4	62	0	.	24
NPRL3	8131	bcgsc.ca	37	16	160597	160597	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NPRL3	.	.	.	.	.	.	78	4	94	0	.	23
NUP107	57122	bcgsc.ca	37	12	69084509	69084509	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	NUP107	NM_020401	exon4	c.T286C	p.F96L	.	.	66	4	103	0	.	629
OR1J1	347168	bcgsc.ca	37	9	125239322	125239322	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR1J1	NM_001004451	exon1	c.A884G	p.K295R	.	.	57	4	116	0	.	70
OR1S1	219959	bcgsc.ca	37	11	57982733	57982733	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR1S1	NM_001004458	exon1	c.A517G	p.T173A	.	.	267	8	377	1	.	113
OR1S2	219958	bcgsc.ca	37	11	57971352	57971352	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR1S2	NM_001004459	exon1	c.A302C	p.N101T	.	.	344	40	621	18	.	69
OR2G6	391211	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	248684959	248684959	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR2G6	NM_001013355	exon1	c.C12T	p.T4T	.	.	215	74	250	0	.	71
OR2M5	127059	bcgsc.ca	37	1	248309020	248309020	+	Missense_Mutation	SNP	G	G	A	rs139290187	byfrequency	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR2M5	NM_001004690	exon1	c.G571A	p.D191N	.	.	644	31	673	7	G|0.999;A|0.001	71
OR2S2	56656	bcgsc.ca	37	9	35957554	35957554	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR2S2	NM_019897	exon1	c.A542G	p.E181G	.	.	64	5	142	2	.	68
OR2T10	127069	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	248756794	248756794	+	Silent	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR2T10	NM_001004693	exon1	c.C276A	p.I92I	.	.	175	30	219	0	.	69
OR2T4	127074	bcgsc.ca	37	1	248524908	248524908	+	Missense_Mutation	SNP	G	G	A	rs140989725		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR2T4	NM_001004696	exon1	c.G26A	p.S9N	.	.	925	57	1030	5	G|1.000;A|0.000	68
OR2T4	127074	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	248525606	248525606	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR2T4	NM_001004696	exon1	c.C724A	p.P242T	.	.	1004	67	1155	0	.	68
OR2T6	254879	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	248551626	248551626	+	Silent	SNP	C	C	T	rs148186126		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	OR2T6,arm,malignant_melanoma,0	OR2T6	NM_001005471	exon1	c.C717T	p.A239A	.	.	310	86	307	0	.	71
OR4N4	283694	bcgsc.ca	37	15	22382936	22382936	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR4N4	NM_001005241	exon1	c.A464G	p.H155R	.	.	243	65	553	4	.	73
OR52E8	390079	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	5878726	5878726	+	Silent	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR52E8	NM_001005168	exon1	c.G207T	p.L69L	.	.	111	21	235	1	.	70
OR52N1	79473	bcgsc.ca	37	11	5809850	5809850	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR52N1	NM_001001913	exon1	c.C197T	p.A66V	.	.	85	5	159	1	.	69
OR5R1	219479	broad.mit.edu;bcgsc.ca;mdanderson.org	37	11	56185374	56185374	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR5R1	NM_001004744	exon1	c.G335C	p.C112S	.	.	23	7	67	1	.	70
OR5T1	390155	bcgsc.ca	37	11	56043638	56043638	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OR5T1	NM_001004745	exon1	c.C524A	p.T175K	.	.	468	58	862	34	.	71
ORC4	5000	bcgsc.ca	37	2	148705774	148705774	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ORC4	NM_002552	exon9	c.A608G	p.E203G	.	.	210	6	300	0	.	207
OSTM1	28962	bcgsc.ca	37	6	108375745	108375745	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OSTM1	NM_014028	exon3	c.T564C	p.Y188Y	.	.	73	4	86	0	.	68
OTOGL	283310	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	80732951	80732951	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_173591	exon42	c.G4930A	p.G1644R	.	.	105	14	186	0	.	.
OTOP1	133060	hgsc.bcm.edu	37	4	4199089	4199090	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	OTOP1	NM_177998	exon5	c.1472_1473insC	p.Q491fs	.	.	156	12	219	0	.	92
PABPC4L	132430	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	135121364	135121364	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_001114734	exon2	c.C985T	p.R329X	.	.	41	7	94	0	.	.
PABPN1L	390748	bcgsc.ca	37	16	88932842	88932842	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_001080487	exon1	c.A173G	p.E58G	.	.	75	4	119	0	.	.
PALD1	27143	bcgsc.ca	37	10	72299469	72299469	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_014431	exon15	c.T1859C	p.L620P	.	.	72	4	95	0	.	.
PAM	5066	bcgsc.ca	37	5	102310074	102310074	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PAM	NM_138822	exon14	c.A1417G	p.S473G	.	.	61	4	163	1	.	68
PANX3	116337	bcgsc.ca	37	11	124487335	124487335	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PANX3	NM_052959	exon3	c.A490G	p.I164V	.	.	78	4	79	0	.	68
PARP2	10038	ucsc.edu;bcgsc.ca	37	14	20820418	20820418	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PARP2	NM_005484	exon7	c.C551T	p.T184M	.	.	25	4	34	0	.	661
PCBP4	57060	bcgsc.ca	37	3	51994564	51994564	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PCBP4	NM_033008	exon5	c.T233C	p.M78T	.	.	90	4	99	0	.	226
PCDH19	57526	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	99658623	99658623	+	Silent	SNP	T	T	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PCDH19	NM_001184880	exon2	c.A2187T	p.I729I	.	.	169	42	278	1	.	110
PCDHA10	56139	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	140237874	140237874	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PCDHA10	NM_031859	exon1	c.T2241C	p.S747S	.	.	134	29	285	0	.	99
PCDHA13	56136	bcgsc.ca	37	5	140262413	140262413	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PCDHA13	NM_031865	exon1	c.A560G	p.E187G	.	.	57	4	147	2	.	75
PCDHGA5	56110	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	140746244	140746244	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PCDHGA5	NM_032054	exon1	c.G2347A	p.E783K	.	.	81	16	161	0	.	35
PCLO	27445	broad.mit.edu;bcgsc.ca	37	7	82595694	82595694	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PCLO	NM_014510	exon4	c.T3410A	p.M1137K	.	.	341	13	452	0	.	29
PCNA	5111	bcgsc.ca	37	20	5095971	5095971	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PCNA	NM_002592	exon7	c.A744G	p.K248K	.	.	144	5	228	0	.	651
PCNXL4	64430	ucsc.edu;bcgsc.ca	37	14	60592539	60592539	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_022495	exon9	c.A2563G	p.M855V	.	.	39	4	115	0	.	.
PCSK4	54760	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	1484101	1484101	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PCSK4	NM_017573	exon9	c.G1094A	p.C365Y	.	.	128	71	68	0	.	90
PDE6B	5158	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	651215	651215	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PDE6B	NM_001145291	exon10	c.A1333G	p.K445E	.	.	192	32	173	0	.	90
PDE8A	5151	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	85666356	85666356	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PDE8A	NM_002605	exon19	c.C2017T	p.H673Y	.	.	86	17	138	2	.	94
PDZD7	79955	bcgsc.ca	37	10	102781968	102781968	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PDZD7	NM_001195263	exon5	c.C717T	p.S239S	.	.	94	4	138	0	.	136
PHF3	23469	bcgsc.ca	37	6	64394621	64394621	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PHF3	NM_015153	exon3	c.A998G	p.D333G	.	.	63	4	175	0	.	229
PHGDH	26227	bcgsc.ca	37	1	120286626	120286626	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PHGDH	NM_006623	exon12	c.A1565G	p.K522R	.	.	117	5	147	0	.	91
PHKA2	5256	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	X	18972509	18972509	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PHKA2	NM_000292	exon2	c.T100G	p.S34A	.	.	60	14	95	0	.	131
PHLDB1	23187	bcgsc.ca	37	11	118486878	118486878	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PHLDB1	NM_001144758	exon4	c.T307C	p.C103R	.	.	57	6	64	0	.	90
PIWIL2	55124	bcgsc.ca	37	8	22210720	22210720	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PIWIL2	NM_001135721	exon21	c.T2652C	p.C884C	.	.	76	5	171	0	.	91
PKHD1L1	93035	bcgsc.ca	37	8	110452941	110452941	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PKHD1L1	NM_177531	exon33	c.A3959G	p.D1320G	.	.	88	4	142	1	.	145
PLA2R1	22925	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	160807990	160807990	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PLA2R1	NM_001195641	exon24	c.C3401A	p.T1134N	.	.	434	137	574	0	.	93
PLCG2	5336	bcgsc.ca	37	16	81969885	81969885	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PLCG2	NM_002661	exon27	c.T2954C	p.V985A	.	.	42	4	51	0	.	892
PLEKHH2	130271	bcgsc.ca	37	2	43924448	43924448	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PLEKHH2	NM_172069	exon7	c.A641G	p.K214R	.	.	91	4	112	0	.	92
PLIN4	729359	bcgsc.ca	37	19	4511548	4511548	+	Missense_Mutation	SNP	A	A	T	rs202212610	alternate_allele	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PLIN4	NM_001080400	exon3	c.T2382A	p.N794K	.	.	249	11	427	8	A|0.995;G|0.005	68
PLS1	5357	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	142388293	142388293	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PLS1	NM_001172312	exon3	c.C132T	p.S44S	.	.	79	9	107	0	.	91
PMS2	5395	ucsc.edu	37	7	6035179	6035179	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PMS2	NM_000535	exon8	c.T889C	p.C297R	.	.	34	4	53	0	.	1083
PNISR	25957	bcgsc.ca	37	6	99856050	99856050	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PNISR	NM_015491	exon6	c.A771G	p.E257E	.	.	86	4	245	1	.	22
PODN	127435	bcgsc.ca	37	1	53543455	53543455	+	Silent	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PODN	NM_153703	exon7	c.G981T	p.L327L	.	.	54	4	62	0	.	92
POLR2A	5430	broad.mit.edu;bcgsc.ca	37	17	7399609	7399609	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	POLR2A	NM_000937	exon3	c.A307G	p.T103A	.	.	228	7	483	0	.	91
POLR3A	11128	bcgsc.ca	37	10	79767595	79767595	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	POLR3A	NM_007055	exon15	c.A1939G	p.S647G	.	.	84	4	138	0	.	90
POLR3K	51728	bcgsc.ca	37	16	97541	97541	+	Silent	SNP	G	G	A	rs4984750	byfrequency	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	POLR3K	NM_016310	exon3	c.C216T	p.C72C	.	.	76	4	90	0	G|0.996;A|0.004	90
PPP1R3C	5507	bcgsc.ca	37	10	93389912	93389912	+	Silent	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PPP1R3C	NM_005398	exon2	c.G726T	p.G242G	.	.	58	4	142	0	.	658
PPP4R2	151987	bcgsc.ca	37	3	73110175	73110175	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PPP4R2	NM_174907	exon5	c.A383G	p.N128S	.	.	111	5	172	0	.	227
PRAM1	84106	bcgsc.ca	37	19	8555552	8555552	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_032152	exon7	c.G1832T	p.R611L	.	.	50	4	68	0	.	.
PRICKLE2	166336	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	64145681	64145681	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PRICKLE2	NM_198859	exon4	c.G331A	p.E111K	.	.	146	35	224	2	.	95
PRICKLE3	4007	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	49032070	49032070	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PRICKLE3	NM_006150	exon9	c.C1800T	p.R600R	.	.	94	19	102	0	.	193
PRKG2	5593	bcgsc.ca	37	4	82125987	82125987	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PRKG2	NM_006259	exon1	c.T215C	p.L72P	.	.	134	8	233	1	.	524
PROSER1	80209	bcgsc.ca	37	13	39588260	39588260	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_025138	exon11	c.G1129C	p.A377P	.	.	73	21	185	26	.	.
PRPF3	9129	bcgsc.ca	37	1	150307438	150307438	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PRPF3	NM_004698	exon7	c.C761T	p.T254I	.	.	93	4	104	0	.	91
PRPF40B	25766	bcgsc.ca	37	12	50031311	50031311	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PRPF40B	NM_001031698	exon17	c.A1619G	p.E540G	.	.	60	4	71	0	.	95
PRR12	57479	broad.mit.edu;mdanderson.org	37	19	50124861	50124861	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PRR12	NM_020719	exon11	c.G5703A	p.S1901S	.	.	31	5	26	0	.	70
PSG11	5680	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	43529064	43529064	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_002785	exon2	c.G209A	p.G70E	.	.	203	27	250	0	.	.
PSG9	5678	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	43763032	43763032	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PSG9	NM_002784	exon4	c.A965C	p.N322T	.	.	124	29	96	0	.	92
PTOV1	53635	bcgsc.ca	37	19	50363264	50363264	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PTOV1	NM_017432	exon11	c.T1063C	p.Y355H	.	.	146	5	104	0	.	226
PTPN22	26191	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	114380695	114380695	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PTPN22	NM_015967	exon13	c.C1327A	p.P443T	.	.	38	14	129	0	.	227
PTPRC	5788	bcgsc.ca	37	1	198665945	198665945	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PTPRC	NM_002838	exon4	c.T205C	p.F69L	.	.	109	5	169	0	.	295
PTPRJ	5795	bcgsc.ca	37	11	48166423	48166423	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PTPRJ	NM_002843	exon13	c.T2772C	p.P924P	.	.	113	5	194	0	.	541
PTPRQ	374462	bcgsc.ca	37	12	81007451	81007451	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_001145026	exon26	c.C4483T	p.P1495S	.	.	62	4	209	1	.	.
PTPRZ1	5803	bcgsc.ca	37	7	121650879	121650879	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PTPRZ1	NM_001206838	exon12	c.T1779C	p.T593T	.	.	81	4	111	1	.	699
PZP	5858	bcgsc.ca	37	12	9305513	9305513	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	PZP	NM_002864	exon31	c.A4028G	p.E1343G	.	.	179	6	192	0	.	157
QDPR	5860	bcgsc.ca	37	4	17510955	17510955	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	QDPR	NM_000320	exon2	c.A137G	p.E46G	.	.	126	5	170	0	.	91
QSOX1	5768	bcgsc.ca	37	1	180135675	180135675	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	QSOX1	NM_002826	exon2	c.C315T	p.T105T	.	.	117	5	83	0	.	91
RAB9A	9367	broad.mit.edu	37	X	13727231	13727231	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RAB9A	NM_004251	exon3	c.G366A	p.L122L	.	.	71	4	83	0	.	660
RABGAP1	23637	bcgsc.ca	37	9	125782609	125782609	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RABGAP1	NM_012197	exon13	c.A1665G	p.R555R	.	.	63	4	106	0	.	500
RANBP2	5903	bcgsc.ca	37	2	109399108	109399108	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RANBP2	NM_006267	exon28	c.A9159G	p.S3053S	.	.	199	6	303	0	.	675
RAPGEF3	10411	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	48135289	48135289	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RAPGEF3	NM_001098531	exon19	c.T1922C	p.L641P	.	.	143	30	141	0	.	660
RASGRP1	10125	bcgsc.ca	37	15	38794582	38794582	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RASGRP1	NM_005739	exon12	c.T1469C	p.I490T	.	.	89	4	165	0	.	697
RASGRP3	25780	bcgsc.ca	37	2	33752388	33752388	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RASGRP3	NM_170672	exon11	c.A992G	p.H331R	.	.	64	4	103	0	.	661
RB1	5925	bcgsc.ca	37	13	48919317	48919317	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RB1	NM_000321	exon4	c.T482C	p.L161P	.	.	55	4	164	1	.	3784
RBMXL3	139804	bcgsc.ca	37	X	114425918	114425918	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_001145346	exon1	c.T1914C	p.L638L	.	.	143	19	190	3	.	.
RC3H2	54542	bcgsc.ca	37	9	125639795	125639795	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RC3H2	NM_018835	exon9	c.G1280A	p.R427Q	.	.	53	4	109	0	.	523
RCBTB2	1102	bcgsc.ca	37	13	49064262	49064262	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RCBTB2	NM_001268	exon15	c.A1641G	p.G547G	.	.	88	4	190	0	.	418
RDX	5962	bcgsc.ca	37	11	110124777	110124777	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RDX	NM_001260493	exon9	c.A853G	p.M285V	.	.	86	5	167	0	.	90
REXO1	57455	hgsc.bcm.edu	37	19	1828274	1828275	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	REXO1	NM_020695	exon2	c.514_515insC	p.A172fs	.	.	51	11	58	0	.	90
RMI1	80010	bcgsc.ca	37	9	86616699	86616699	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RMI1	NM_024945	exon3	c.A798G	p.E266E	.	.	72	4	155	0	.	90
RNASEL	6041	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	182554500	182554500	+	Missense_Mutation	SNP	T	T	C	rs200144732		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RNASEL	NM_021133	exon2	c.A1442G	p.Y481C	.	.	223	42	374	1	T|0.999;C|0.001	336
RNF133	168433	bcgsc.ca	37	7	122338002	122338002	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RNF133	NM_139175	exon1	c.A971G	p.E324G	.	.	99	5	179	0	.	227
RNF149	284996	broad.mit.edu;bcgsc.ca	37	2	101902619	101902619	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RNF149	NM_173647	exon5	c.G884A	p.C295Y	.	.	340	8	461	0	.	290
RNF17	56163	bcgsc.ca	37	13	25417903	25417903	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RNF17	NM_001184993	exon20	c.T2625C	p.S875S	.	.	67	4	188	0	.	228
RNF43	54894	ucsc.edu	37	17	56435611	56435611	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RNF43	NM_017763	exon9	c.T1526C	p.V509A	.	.	45	4	93	0	.	92
RNR2	6053	broad.mit.edu	37	MT	2635	2635	+	RNA	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	.	.	.	.	.	.	110	5	701	0	.	.
RNU6-71	100873774	ucsc.edu	37	6	56535448	56535448	+	RNA	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	.	.	.	.	.	.	42	4	82	0	.	.
RP1L1	94137	bcgsc.ca	37	8	10480316	10480316	+	Silent	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RP1L1	NM_178857	exon2	c.C396A	p.V132V	.	.	35	4	80	0	.	139
RPE65	6121	bcgsc.ca	37	1	68896750	68896750	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RPE65	NM_000329	exon13	c.A1448G	p.D483G	.	.	164	5	260	0	.	91
RPL13	6137	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	16	89629361	89629361	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RPL13	NM_000977	exon6	c.C547T	p.R183C	.	.	120	13	165	0	.	90
RPL13AP20	387841	bcgsc.ca	37	12	13028548	13028548	+	RNA	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	.	.	.	.	.	.	43	4	45	0	.	.
RSRC2	65117	bcgsc.ca	37	12	123001896	123001896	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RSRC2	NM_023012	exon5	c.A480G	p.R160R	.	.	301	11	400	1	.	91
RTFDC1	51507	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	20	55048453	55048453	+	Splice_Site	SNP	T	T	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_016407	exon2	c.164+2T>A	.	.	.	48	11	84	0	.	.
RXFP2	122042	bcgsc.ca	37	13	32351522	32351522	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RXFP2	NM_001166058	exon8	c.T651C	p.D217D	.	.	61	5	117	0	.	90
RYR2	6262	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	237948157	237948157	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RYR2	NM_001035	exon90	c.T13145A	p.L4382Q	.	.	77	23	84	0	.	158
RYR3	6263	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	34105063	34105063	+	Splice_Site	SNP	G	G	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	RYR3	NM_001243996	exon72	c.10243-1G>C	.	.	.	56	11	87	0	.	520
SAP30BP	29115	bcgsc.ca	37	17	73689538	73689538	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SAP30BP	NM_013260	exon4	c.A283G	p.K95E	.	.	81	4	155	0	.	91
SAR1B	51128	bcgsc.ca	37	5	133942753	133942753	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SAR1B	NM_001033503	exon8	c.A484G	p.S162G	.	.	67	4	130	0	.	227
SART3	9733	bcgsc.ca	37	12	108920201	108920201	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SART3	NM_014706	exon16	c.A2045G	p.K682R	.	.	88	4	133	0	.	91
SBNO1	55206	bcgsc.ca	37	12	123813349	123813349	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SBNO1	NM_001167856	exon9	c.T1228C	p.S410P	.	.	71	4	121	1	.	292
SCML2	10389	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	18283818	18283818	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SCML2	NM_006089	exon8	c.C835G	p.Q279E	.	.	289	62	461	0	.	226
SCUBE3	222663	ucsc.edu	37	6	35214005	35214005	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SCUBE3	NM_152753	exon21	c.A2775G	p.E925E	.	.	35	4	96	0	.	91
SECISBP2	79048	bcgsc.ca	37	9	91940828	91940828	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SECISBP2	NM_024077	exon4	c.A449G	p.E150G	.	.	69	4	102	0	.	93
SECISBP2L	9728	bcgsc.ca	37	15	49327843	49327843	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SECISBP2L	NM_001193489	exon3	c.A216T	p.L72F	.	.	72	4	104	0	.	136
SEMA3D	223117	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	84666319	84666319	+	Silent	SNP	C	C	G	rs143217112	alternate_allele	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SEMA3D	NM_152754	exon10	c.G1077C	p.V359V	.	.	66	15	117	0	C|1.000;T|0.000	138
SEMA3F	6405	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	50220186	50220186	+	Silent	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SEMA3F	NM_004186	exon9	c.G873T	p.A291A	.	.	24	11	47	0	.	279
SERPINB6	5269	bcgsc.ca	37	6	2959440	2959440	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SERPINB6	NM_001271823	exon2	c.A184G	p.M62V	.	.	182	6	167	0	.	226
SESN1	27244	bcgsc.ca	37	6	109311860	109311860	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SESN1	NM_014454	exon8	c.T1412C	p.M471T	.	.	82	4	179	0	.	227
SETD1A	9739	bcgsc.ca	37	16	30976653	30976653	+	Silent	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SETD1A	NM_014712	exon7	c.G1590T	p.V530V	.	.	93	4	78	0	.	93
SETX	23064	bcgsc.ca	37	9	135161854	135161854	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SETX	NM_015046	exon18	c.A6352G	p.K2118E	.	.	30	4	44	0	.	93
SFMBT2	57713	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	7285628	7285628	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SFMBT2	NM_001029880	exon9	c.C1012T	p.L338L	.	.	104	11	93	0	.	141
SFXN3	81855	bcgsc.ca	37	10	102795379	102795379	+	Missense_Mutation	SNP	T	T	C	rs112765679		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SFXN3	NM_030971	exon4	c.T299C	p.V100A	.	.	83	7	131	2	.	91
SGCE	8910	bcgsc.ca	37	7	94217098	94217098	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SGCE	NM_001099400	exon10	c.A1297G	p.R433G	.	.	159	6	223	0	.	91
SGK196	0	bcgsc.ca	37	8	42977342	42977342	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_032237	exon5	c.G375T	p.M125I	.	.	92	5	226	0	.	.
SGOL1	151648	bcgsc.ca	37	3	20219806	20219806	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SGOL1	NM_001199253	exon4	c.A373G	p.N125D	.	.	82	4	166	0	.	90
SH3TC2	79628	bcgsc.ca	37	5	148407280	148407280	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SH3TC2	NM_024577	exon11	c.T2015C	p.V672A	.	.	53	4	88	0	.	92
SIPA1L1	26037	ucsc.edu	37	14	72190374	72190374	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SIPA1L1	NM_015556	exon16	c.T4282C	p.S1428P	.	.	76	14	132	2	.	156
SIPA1L1	26037	ucsc.edu;bcgsc.ca	37	14	72139334	72139334	+	Silent	SNP	G	G	T	rs144855084	alternate_allele	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SIPA1L1	NM_015556	exon9	c.G3099T	p.P1033P	.	.	41	4	74	0	G|0.999;A|0.000	156
SIRPG	55423	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	1629885	1629885	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SIRPG	NM_001039508	exon2	c.A243C	p.K81N	.	.	816	294	1118	2	.	23
SLC12A6	9990	bcgsc.ca	37	15	34531349	34531349	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC12A6	NM_133647	exon19	c.C2449A	p.L817I	.	.	81	4	109	0	.	517
SLC17A9	63910	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	61588131	61588131	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC17A9	NM_022082	exon2	c.C74T	p.A25V	.	.	28	9	47	0	.	92
SLC18A2	6571	bcgsc.ca	37	10	119029953	119029953	+	Silent	SNP	A	A	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC18A2	NM_003054	exon15	c.A1419C	p.P473P	.	.	246	28	387	16	.	90
SLC1A2	6506	bcgsc.ca	37	11	35314045	35314045	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC1A2	NM_004171	exon7	c.T880C	p.C294R	.	.	57	4	96	0	.	516
SLC22A16	85413	bcgsc.ca	37	6	110759969	110759969	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC22A16	NM_033125	exon5	c.T1265C	p.L422P	.	.	91	5	117	0	.	91
SLC25A27	9481	bcgsc.ca	37	6	46630227	46630227	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC25A27	NM_001204051	exon4	c.A498G	p.K166K	.	.	163	6	232	0	.	90
SLC2A3	6515	bcgsc.ca	37	12	8074186	8074186	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC2A3	NM_006931	exon10	c.C1314T	p.F438F	.	.	78	24	148	10	.	94
SLC35B4	84912	bcgsc.ca	37	7	133979684	133979684	+	Silent	SNP	G	G	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC35B4	NM_032826	exon10	c.C897G	p.G299G	.	.	121	21	200	13	.	91
SLC35F3	148641	broad.mit.edu;bcgsc.ca	37	1	234454558	234454558	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC35F3	NM_173508	exon6	c.T1016C	p.I339T	.	.	339	8	329	1	.	92
SLC35F5	80255	bcgsc.ca	37	2	114487069	114487069	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC35F5	NM_025181	exon11	c.T999C	p.S333S	.	.	133	6	189	0	.	90
SLC38A4	55089	bcgsc.ca	37	12	47186751	47186751	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC38A4	NM_001143824	exon2	c.A104G	p.K35R	.	.	235	6	353	2	.	93
SLC6A3	6531	bcgsc.ca	37	5	1403099	1403099	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC6A3	NM_001044	exon13	c.A1705G	p.M569V	.	.	84	6	78	0	.	157
SLC9A4	389015	bcgsc.ca	37	2	103128729	103128729	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC9A4	NM_001011552	exon7	c.A1556G	p.D519G	.	.	241	10	357	1	.	92
SLC9A5	6553	broad.mit.edu;mdanderson.org	37	16	67282983	67282983	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLC9A5	NM_004594	exon1	c.G66A	p.Q22Q	.	.	10	6	13	0	.	92
SLCO1B7	338821	bcgsc.ca	37	12	21196342	21196342	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_001009562	exon6	c.G661T	p.V221L	.	.	450	42	809	31	.	.
SLCO3A1	28232	bcgsc.ca	37	15	92647687	92647687	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLCO3A1	NM_013272	exon4	c.A924G	p.E308E	.	.	151	5	233	0	.	91
SLMAP	7871	bcgsc.ca	37	3	57827030	57827030	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SLMAP	NM_007159	exon3	c.C351T	p.T117T	.	.	66	4	127	0	.	90
SMARCA4	6597	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	11143994	11143994	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SMARCA4	NM_003072	exon26	c.G3575A	p.R1192H	.	.	77	15	90	0	.	1523
SMC4	10051	bcgsc.ca	37	3	160130127	160130127	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SMC4	NM_005496	exon6	c.A866G	p.K289R	.	.	130	5	251	0	.	291
SMCR8	140775	bcgsc.ca	37	17	18219307	18219307	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SMCR8	NM_144775	exon1	c.A204G	p.G68G	.	.	112	5	214	2	.	91
SMG1	23049	bcgsc.ca	37	16	18883581	18883581	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SMG1	NM_015092	exon15	c.C2108A	p.T703K	.	.	446	44	537	16	.	1160
SMPD4	55627	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	130930247	130930247	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SMPD4	NM_017751	exon7	c.C575A	p.P192Q	.	.	158	34	184	0	.	90
SMU1	55234	bcgsc.ca	37	9	33056911	33056911	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SMU1	NM_018225	exon8	c.A919G	p.S307G	.	.	69	4	161	1	.	91
SNAPC2	6618	bcgsc.ca	37	19	7987099	7987099	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SNAPC2	NM_003083	exon4	c.T552C	p.P184P	.	.	81	4	92	0	.	90
SNUPN	10073	bcgsc.ca	37	15	75899635	75899635	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SNUPN	NM_001042581	exon6	c.C522T	p.C174C	.	.	83	4	113	0	.	91
SOCS4	122809	bcgsc.ca	37	14	55510370	55510370	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SOCS4	NM_080867	exon2	c.T611C	p.L204S	.	.	66	4	163	0	.	970
SOCS6	9306	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	18	67992724	67992724	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SOCS6	NM_004232	exon2	c.G820C	p.V274L	.	.	164	55	279	0	.	721
SOX7	83595	bcgsc.ca	37	8	10583403	10583403	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SOX7	NM_031439	exon2	c.A1012G	p.T338A	.	.	68	4	114	0	.	522
SPAG9	9043	bcgsc.ca	37	17	49124782	49124782	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SPAG9	NM_001130528	exon4	c.C544T	p.L182F	.	.	55	4	142	0	.	659
SPECC1	92521	bcgsc.ca	37	17	20135097	20135097	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SPECC1	NM_001033553	exon6	c.A2098G	p.K700E	.	.	91	4	142	0	.	639
SPEG	10290	bcgsc.ca	37	2	220356969	220356969	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SPEG	NM_005876	exon40	c.T9598C	p.S3200P	.	.	67	4	66	0	.	383
SPSB3	90864	bcgsc.ca	37	16	1828203	1828203	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SPSB3	NM_080861	exon4	c.A424G	p.K142E	.	.	69	4	51	0	.	226
SPTBN4	57731	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	41073984	41073984	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SPTBN4	NM_020971	exon31	c.G6752A	p.R2251Q	.	.	50	15	41	0	.	94
SPTBN5	51332	bcgsc.ca	37	15	42144011	42144011	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SPTBN5	NM_016642	exon63	c.A10517G	p.E3506G	.	.	64	4	74	0	.	91
SPTY2D1	144108	bcgsc.ca	37	11	18634023	18634023	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SPTY2D1	NM_194285	exon4	c.T1724C	p.L575P	.	.	137	5	236	0	.	90
SRGAP3	9901	broad.mit.edu	37	3	9027542	9027542	+	Silent	SNP	C	C	T	rs199848187		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SRGAP3	NM_014850	exon22	c.G2961A	p.A987A	.	.	27	3	21	0	C|0.999;G|0.000;T|0.001	344
SSX7	280658	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	52677345	52677345	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SSX7	NM_173358	exon6	c.A432G	p.K144K	.	.	1049	178	1399	1	.	91
ST14	6768	bcgsc.ca	37	11	130079403	130079403	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ST14	NM_021978	exon18	c.T2336C	p.L779P	.	.	52	14	82	7	.	94
ST18	9705	ucsc.edu;bcgsc.ca	37	8	53124658	53124658	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ST18	NM_014682	exon8	c.T67C	p.S23P	.	.	36	4	48	0	.	95
ST5	6764	bcgsc.ca	37	11	8719083	8719083	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ST5	NM_213618	exon17	c.A3041G	p.D1014G	.	.	78	6	143	0	.	227
ST8SIA1	6489	ucsc.edu	37	12	22354637	22354637	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ST8SIA1	NM_003034	exon5	c.T920C	p.I307T	.	.	77	11	119	3	.	93
STAG3	10734	broad.mit.edu;ucsc.edu;mdanderson.org	37	7	99800188	99800188	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	STAG3	NM_012447	exon25	c.C2675A	p.S892X	.	.	46	6	71	0	.	543
STK32A	202374	bcgsc.ca	37	5	146750277	146750277	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	STK32A	NM_001112724	exon9	c.A721G	p.T241A	.	.	79	4	129	0	.	521
SUFU	51684	bcgsc.ca	37	10	104377134	104377134	+	Silent	SNP	C	C	G	rs144158469	byfrequency;alternate_allele	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SUFU	NM_001178133	exon10	c.C1245G	p.G415G	.	.	100	21	219	22	C|0.999;T|0.001	2246
SYCP2L	221711	bcgsc.ca	37	6	10902942	10902942	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SYCP2L	NM_001040274	exon7	c.A499G	p.S167G	.	.	95	4	181	0	.	24
SYCP2L	221711	bcgsc.ca	37	6	10926585	10926585	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SYCP2L	NM_001040274	exon16	c.A1232G	p.Q411R	.	.	65	4	65	0	.	24
SYMPK	8189	bcgsc.ca	37	19	46326639	46326639	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SYMPK	NM_004819	exon20	c.G2691A	p.G897G	.	.	49	4	46	0	.	91
SYNE2	23224	bcgsc.ca	37	14	64608761	64608761	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SYNE2	NM_182914	exon82	c.A15261G	p.S5087S	.	.	145	6	207	0	.	164
SYNJ1	8867	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	21	34022586	34022586	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SYNJ1	NM_203446	exon23	c.G3062A	p.S1021N	.	.	237	77	406	0	.	232
SYT2	127833	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	202572235	202572235	+	Silent	SNP	G	G	A	rs141305662	byfrequency	TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SYT2	NM_177402	exon4	c.C357T	p.D119D	.	.	95	19	115	0	G|0.999;A|0.001	93
SYTL2	54843	bcgsc.ca	37	11	85445148	85445148	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	SYTL2	NM_001162953	exon6	c.T1224C	p.H408H	.	.	218	27	462	4	.	137
TANK	10010	bcgsc.ca	37	2	162061253	162061253	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TANK	NM_004180	exon4	c.T276C	p.D92D	.	.	331	57	580	33	.	228
TANK	10010	bcgsc.ca	37	2	162091999	162091999	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TANK	NM_004180	exon8	c.T1248C	p.H416H	.	.	70	4	114	0	.	228
TARSL2	123283	bcgsc.ca	37	15	102224427	102224427	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TARSL2	NM_152334	exon12	c.C1501T	p.H501Y	.	.	66	4	101	0	.	92
TCAIM	285343	bcgsc.ca	37	3	44441957	44441957	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_173826	exon9	c.A996C	p.L332F	.	.	134	23	232	6	.	.
TCAIM	285343	bcgsc.ca	37	3	44441966	44441966	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_173826	exon9	c.A1005G	p.V335V	.	.	131	5	220	0	.	.
TCF20	6942	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	22	42606748	42606748	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TCF20	NM_181492	exon1	c.T4564A	p.S1522T	.	.	323	22	352	0	.	95
TCHH	7062	bcgsc.ca	37	1	152082286	152082286	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TCHH	NM_007113	exon3	c.T3407G	p.L1136R	.	.	313	42	293	10	.	72
TCHH	7062	bcgsc.ca	37	1	152082400	152082400	+	Missense_Mutation	SNP	G	G	C	rs201862078		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TCHH	NM_007113	exon3	c.C3293G	p.P1098R	.	.	244	24	250	17	.	72
TCHH	7062	bcgsc.ca	37	1	152083965	152083965	+	Missense_Mutation	SNP	A	A	C	rs201410645		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TCHH	NM_007113	exon3	c.T1728G	p.D576E	.	.	204	27	224	17	A|0.999;C|0.001	72
TCHP	84260	bcgsc.ca	37	12	110342574	110342574	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TCHP	NM_001143852	exon4	c.A432G	p.K144K	.	.	86	4	131	0	.	91
TDRD9	122402	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	104488538	104488538	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TDRD9	NM_153046	exon24	c.C2477T	p.T826I	.	.	123	39	268	0	.	70
TECR	9524	broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	14676612	14676612	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TECR	NM_138501	exon13	c.C856A	p.H286N	.	.	104	11	104	1	.	90
TENM1	10178	bcgsc.ca	37	X	123654375	123654375	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_001163278	exon18	c.A3293G	p.E1098G	.	.	122	7	143	0	.	.
TEX10	54881	bcgsc.ca	37	9	103065945	103065945	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TEX10	NM_017746	exon14	c.T2645C	p.I882T	.	.	185	6	258	3	.	92
TFPT	29844	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	54611472	54611472	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TFPT	NM_013342	exon5	c.C503T	p.P168L	.	.	93	16	106	0	.	658
TGFBRAP1	9392	ucsc.edu	37	2	105924582	105924582	+	Silent	SNP	C	C	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TGFBRAP1	NM_004257	exon2	c.G177C	p.G59G	.	.	72	16	87	15	.	91
THOC1	9984	bcgsc.ca	37	18	223505	223505	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	THOC1	NM_005131	exon17	c.T1305C	p.N435N	.	.	74	4	124	0	.	91
TIPARP	25976	bcgsc.ca	37	3	156396189	156396189	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TIPARP	NM_015508	exon2	c.C703T	p.H235Y	.	.	149	6	235	0	.	523
TLL1	7092	bcgsc.ca	37	4	166916312	166916312	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TLL1	NM_001204760	exon5	c.T614C	p.F205S	.	.	64	4	94	0	.	158
TLN1	7094	bcgsc.ca	37	9	35710816	35710816	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TLN1	NM_006289	exon32	c.A4181G	p.D1394G	.	.	51	4	98	0	.	609
TM2D2	83877	ucsc.edu;bcgsc.ca	37	8	38851171	38851171	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TM2D2	NM_078473	exon3	c.T324C	p.G108G	.	.	29	4	64	0	.	90
TMC2	117532	bcgsc.ca	37	20	2618220	2618220	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TMC2	NM_080751	exon19	c.T2486C	p.L829P	.	.	96	4	115	0	.	93
TMEM106B	54664	bcgsc.ca	37	7	12271586	12271586	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TMEM106B	NM_001134232	exon8	c.T810C	p.L270L	.	.	82	20	169	11	.	90
TMEM173	340061	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	138855859	138855859	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TMEM173	NM_198282	exon8	c.C1127A	p.T376K	.	.	67	30	116	0	.	69
TMEM51	55092	bcgsc.ca	37	1	15541789	15541789	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TMEM51	NM_018022	exon2	c.T206C	p.L69P	.	.	68	4	74	0	.	90
TMEM67	91147	bcgsc.ca	37	8	94777860	94777860	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TMEM67	NM_153704	exon6	c.C637T	p.R213C	.	.	89	4	150	0	.	92
TNC	3371	bcgsc.ca	37	9	117819444	117819444	+	Missense_Mutation	SNP	T	T	G	rs200662007		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TNC	NM_002160	exon15	c.A4567C	p.T1523P	.	.	45	19	57	3	.	517
TNKS2	80351	bcgsc.ca	37	10	93611041	93611041	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TNKS2	NM_025235	exon21	c.A2763G	p.G921G	.	.	70	4	118	0	.	541
TNRC18	84629	ucsc.edu;bcgsc.ca	37	7	5391483	5391483	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TNRC18	NM_001080495	exon17	c.T5437C	p.F1813L	.	.	47	5	65	0	.	46
TOP2A	7153	bcgsc.ca	37	17	38564871	38564871	+	Missense_Mutation	SNP	A	A	C	rs79747707		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TOP2A	NM_001067	exon11	c.T1215G	p.C405W	.	.	78	18	202	4	.	655
TOP3A	7156	ucsc.edu;bcgsc.ca	37	17	18206022	18206022	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TOP3A	NM_004618	exon6	c.A515G	p.Q172R	.	.	35	5	75	0	.	228
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	17	7578524	7578524	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	TP53,head_neck,carcinoma,+2	TP53	NM_000546	exon5	c.C406T	p.Q136X	.	.	35	21	48	0	.	70225
TPH2	121278	bcgsc.ca	37	12	72332810	72332810	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TPH2	NM_173353	exon1	c.G44A	p.R15Q	.	.	57	4	82	0	.	93
TPK1	27010	bcgsc.ca	37	7	144463035	144463035	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TPK1	NM_022445	exon3	c.A53G	p.K18R	.	.	145	5	144	0	.	188
TRAF3IP1	26146	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	239237694	239237694	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TRAF3IP1	NM_015650	exon5	c.G626T	p.G209V	.	.	203	34	217	0	.	228
TRAM2	9697	bcgsc.ca	37	6	52374362	52374362	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TRAM2	NM_012288	exon5	c.G434A	p.R145K	.	.	117	15	149	7	.	90
TRAPPC10	7109	bcgsc.ca	37	21	45502991	45502991	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TRAPPC10	NM_003274	exon14	c.A2046G	p.R682R	.	.	86	4	128	0	.	92
TREM1	54210	bcgsc.ca	37	6	41250154	41250154	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TREM1	NM_001242590	exon2	c.A385G	p.I129V	.	.	74	4	139	0	.	577
TRHR	7201	bcgsc.ca	37	8	110099925	110099925	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TRHR	NM_003301	exon1	c.T184C	p.C62R	.	.	93	6	147	0	.	620
TRIM42	287015	bcgsc.ca	37	3	140406590	140406590	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TRIM42	NM_152616	exon3	c.A1066G	p.M356V	.	.	63	4	100	0	.	227
TRIP11	9321	bcgsc.ca	37	14	92441611	92441611	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TRIP11	NM_004239	exon18	c.T5362C	p.F1788L	.	.	84	4	155	0	.	1400
TRPC7	57113	bcgsc.ca	37	5	135610505	135610505	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_020389	exon4	c.T984C	p.C328C	.	.	32	4	60	0	.	.
TRPM1	4308	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	31295063	31295063	+	Silent	SNP	A	A	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TRPM1	NM_001252020	exon27	c.T3891G	p.L1297L	.	.	82	17	138	0	.	94
TSLP	85480	bcgsc.ca	37	5	110407732	110407732	+	Silent	SNP	T	T	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TSLP	NM_033035	exon1	c.T144A	p.S48S	.	.	51	4	132	0	.	90
TTC17	55761	bcgsc.ca	37	11	43413403	43413403	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TTC17	NM_018259	exon5	c.T564C	p.P188P	.	.	143	6	251	0	.	95
TTC17	55761	bcgsc.ca	37	11	43413470	43413470	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TTC17	NM_018259	exon5	c.A631G	p.I211V	.	.	61	4	135	0	.	95
TTC18	118491	bcgsc.ca	37	10	75032716	75032716	+	Silent	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TTC18	NM_145170	exon25	c.C3105A	p.T1035T	.	.	100	5	170	0	.	92
TTC3	7267	bcgsc.ca	37	21	38501342	38501342	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TTC3	NM_001001894	exon16	c.A1337G	p.N446S	.	.	262	7	419	2	.	590
TTC39B	158219	bcgsc.ca	37	9	15187022	15187022	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TTC39B	NM_152574	exon15	c.G1407A	p.V469V	.	.	50	4	140	0	.	187
TTC5	91875	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	20763925	20763925	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TTC5	NM_138376	exon7	c.A785G	p.Q262R	.	.	106	18	138	0	.	91
TTC8	123016	bcgsc.ca	37	14	89343636	89343636	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TTC8	NM_144596	exon15	c.1432-2A>G	.	.	.	63	5	155	0	.	90
TTN	7273	bcgsc.ca	37	2	179477305	179477305	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TTN	NM_001256850	exon217	c.45026-2A>G	.	.	.	90	4	144	0	.	636
TXNDC11	51061	bcgsc.ca	37	16	11829976	11829976	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	TXNDC11	NM_015914	exon2	c.G368T	p.R123L	.	.	72	4	99	0	.	90
UBE2Z	65264	bcgsc.ca	37	17	47004446	47004446	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_023079	exon7	c.A1015G	p.S339G	.	.	62	5	148	0	.	.
UBXN4	23190	bcgsc.ca	37	2	136533897	136533897	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	UBXN4	NM_014607	exon10	c.A1029G	p.E343E	.	.	85	4	170	0	.	92
UGT2A1	10941	bcgsc.ca	37	4	70513076	70513076	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	UGT2A1	NM_001252274	exon2	c.A287G	p.E96G	.	.	103	18	206	8	.	92
UGT2B28	54490	bcgsc.ca	37	4	70152481	70152481	+	Silent	SNP	A	A	G	rs141618560		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	UGT2B28	NM_053039	exon3	c.A882G	p.E294E	.	.	261	11	366	5	A|1.000;G|0.000	91
ULK1	8408	hgsc.bcm.edu	37	12	132395334	132395335	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ULK1	NM_003565	exon12	c.937_938insC	p.A313fs	.	.	62	10	90	0	.	758
UNC79	57578	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	14	94052959	94052959	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_020818	exon21	c.G2290A	p.E764K	.	.	69	19	208	0	.	.
UNC80	285175	broad.mit.edu;bcgsc.ca	37	2	210752981	210752981	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	UNC80	NM_032504	exon26	c.A4279G	p.K1427E	.	.	142	6	199	0	.	90
UNC93A	54346	bcgsc.ca	37	6	167704982	167704982	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	UNC93A	NM_018974	exon1	c.A5G	p.D2G	.	.	107	5	128	0	.	90
URM1	81605	ucsc.edu;bcgsc.ca	37	9	131151971	131151971	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	URM1	NM_030914	exon5	c.C264T	p.D88D	.	.	29	4	57	0	.	90
USP38	84640	bcgsc.ca	37	4	144141513	144141513	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	USP38	NM_032557	exon10	c.C3033T	p.P1011P	.	.	86	4	132	0	.	660
USPL1	10208	bcgsc.ca	37	13	31227291	31227291	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	USPL1	NM_005800	exon8	c.T1245C	p.S415S	.	.	62	4	157	0	.	524
VCAN	1462	bcgsc.ca	37	5	82835894	82835894	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	VCAN	NM_004385	exon8	c.C7072T	p.P2358S	.	.	59	4	156	0	.	238
VGLL4	9686	bcgsc.ca	37	3	11684965	11684965	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	VGLL4	NM_001128219	exon1	c.A28G	p.N10D	.	.	83	4	181	2	.	91
VN1R1	57191	bcgsc.ca	37	19	57967131	57967131	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	VN1R1	NM_020633	exon1	c.A724C	p.M242L	.	.	443	36	663	25	.	91
VPS13A	23230	bcgsc.ca	37	9	79888220	79888220	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	VPS13A	NM_001018038	exon24	c.A2452G	p.T818A	.	.	53	4	146	0	.	161
VPS37A	137492	bcgsc.ca	37	8	17133909	17133909	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	VPS37A	NM_152415	exon6	c.A646G	p.S216G	.	.	58	4	155	0	.	90
VPS8	23355	bcgsc.ca	37	3	184647433	184647433	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	VPS8	NM_001009921	exon32	c.T2780C	p.L927S	.	.	72	4	99	0	.	91
WBP11	51729	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	14947913	14947913	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	WBP11	NM_016312	exon6	c.A513G	p.S171S	.	.	160	36	272	1	.	92
WDR12	55759	bcgsc.ca	37	2	203760839	203760839	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	WDR12	NM_018256	exon6	c.A558G	p.R186R	.	.	210	7	237	2	.	90
WDR17	116966	bcgsc.ca	37	4	177067167	177067167	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	WDR17	NM_170710	exon13	c.T1623G	p.C541W	.	.	72	19	225	15	.	95
WDR62	284403	bcgsc.ca	37	19	36593743	36593743	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	WDR62	NM_001083961	exon27	c.A3325G	p.K1109E	.	.	80	4	96	0	.	90
WDR62	284403	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	36582154	36582154	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	WDR62	NM_173636	exon17	c.G2087A	p.S696N	.	.	113	38	163	3	.	90
WDR66	144406	bcgsc.ca	37	12	122413150	122413150	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	WDR66	NM_144668	exon18	c.T2772C	p.S924S	.	.	144	5	192	0	.	92
WDR87	83889	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	38377028	38377028	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_031951	exon6	c.C7166A	p.P2389H	.	.	276	61	427	1	.	.
WDR96	80217	bcgsc.ca	37	10	105948142	105948142	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	WDR96	NM_025145	exon13	c.T1573C	p.S525P	.	.	79	5	179	0	.	95
WEE1	7465	bcgsc.ca	37	11	9606861	9606861	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	WEE1	NM_003390	exon7	c.G1345A	p.E449K	.	.	73	4	119	0	.	1404
WFDC13	164237	bcgsc.ca	37	20	44333108	44333108	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	WFDC13	NM_172005	exon2	c.C114T	p.C38C	.	.	175	6	191	0	.	90
XDH	7498	ucsc.edu;bcgsc.ca;mdanderson.org	37	2	31624141	31624141	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	XDH	NM_000379	exon4	c.C251T	p.A84V	.	.	92	20	103	3	.	158
XPO7	23039	bcgsc.ca	37	8	21824392	21824392	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	XPO7	NM_015024	exon2	c.T43C	p.C15R	.	.	125	5	234	0	.	273
XRN2	22803	bcgsc.ca	37	20	21336763	21336763	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	XRN2	NM_012255	exon22	c.A2066G	p.H689R	.	.	160	6	216	0	.	515
YLPM1	56252	bcgsc.ca	37	14	75276406	75276406	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	YLPM1	NM_019589	exon7	c.T4845C	p.S1615S	.	.	61	4	178	1	.	71
ZC3H6	376940	bcgsc.ca	37	2	113089324	113089324	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZC3H6	NM_198581	exon12	c.A2829G	p.R943R	.	.	134	7	215	0	.	93
ZFHX3	463	bcgsc.ca	37	16	72822377	72822377	+	Silent	SNP	C	C	A	rs201619039		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZFHX3	NM_006885	exon10	c.G9798T	p.T3266T	.	.	216	9	343	2	C|0.999;A|0.000	72
ZFYVE1	53349	ucsc.edu	37	14	73440829	73440829	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZFYVE1	NM_021260	exon11	c.A2060G	p.N687S	.	.	54	6	86	0	.	91
ZMYM4	9202	bcgsc.ca	37	1	35847307	35847307	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZMYM4	NM_005095	exon9	c.A1517G	p.E506G	.	.	129	5	224	0	.	291
ZNF100	163227	bcgsc.ca	37	19	21909907	21909907	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF100	NM_173531	exon5	c.T1207C	p.C403R	.	.	79	4	108	0	.	90
ZNF185	7739	bcgsc.ca	37	X	152137942	152137942	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF185	NM_001178106	exon22	c.T1981C	p.C661R	.	.	105	5	128	0	.	133
ZNF200	7752	broad.mit.edu	37	16	3274303	3274303	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF200	NM_003454	exon5	c.A777G	p.K259K	.	.	234	5	460	0	.	90
ZNF232	7775	bcgsc.ca	37	17	5009303	5009303	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF232	NM_014519	exon5	c.A1151G	p.E384G	.	.	70	5	183	2	.	154
ZNF232	7775	bcgsc.ca	37	17	5009798	5009798	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF232	NM_014519	exon5	c.T656C	p.V219A	.	.	109	6	239	1	.	154
ZNF236	7776	bcgsc.ca	37	18	74617278	74617278	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF236	NM_007345	exon13	c.G2198T	p.G733V	.	.	97	11	191	8	.	94
ZNF263	10127	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	3335685	3335685	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF263	NM_005741	exon3	c.A573T	p.L191F	.	.	179	32	209	1	.	94
ZNF330	27309	bcgsc.ca	37	4	142153683	142153683	+	Missense_Mutation	SNP	G	G	T	rs78573384		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF330	NM_014487	exon9	c.G575T	p.C192F	.	.	112	25	245	14	.	90
ZNF34	80778	bcgsc.ca	37	8	145998710	145998710	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF34	NM_030580	exon6	c.C1624A	p.H542N	.	.	110	13	218	0	.	90
ZNF382	84911	bcgsc.ca	37	19	37118042	37118042	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF382	NM_032825	exon5	c.A1243G	p.K415E	.	.	82	4	85	0	.	90
ZNF43	7594	bcgsc.ca	37	19	21990647	21990647	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF43	NM_001256653	exon4	c.A2219G	p.E740G	.	.	59	4	111	0	.	154
ZNF440	126070	bcgsc.ca;mdanderson.org	37	19	11941474	11941474	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF440	NM_152357	exon3	c.A173G	p.N58S	.	.	444	117	778	3	.	68
ZNF484	83744	bcgsc.ca	37	9	95618571	95618571	+	Silent	SNP	T	T	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF484	NM_001261458	exon2	c.A51T	p.V17V	.	.	92	4	142	0	.	90
ZNF559	84527	bcgsc.ca	37	19	9452415	9452415	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF559	NM_001202406	exon6	c.T480C	p.C160C	.	.	66	4	130	0	.	91
ZNF57	126295	ucsc.edu;bcgsc.ca	37	19	2917541	2917541	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF57	NM_173480	exon4	c.T922A	p.Y308N	.	.	41	4	107	0	.	71
ZNF681	148213	bcgsc.ca	37	19	23937701	23937701	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_138286	exon3	c.A150G	p.P50P	.	.	153	6	212	0	.	.
ZNF765	91661	bcgsc.ca	37	19	53911843	53911843	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF765	NM_001040185	exon4	c.T1035C	p.H345H	.	.	66	4	97	1	.	69
ZNF860	344787	bcgsc.ca	37	3	32030641	32030641	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZNF860	NM_001137674	exon2	c.T70C	p.L24L	.	.	90	4	192	0	.	1
ZSCAN25	221785	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	99227217	99227217	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	NM_145115	exon8	c.C1209T	p.Y403Y	.	.	46	11	77	0	.	.
ZSCAN4	201516	bcgsc.ca	37	19	58187614	58187614	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZSCAN4	NM_152677	exon3	c.A101G	p.Q34R	.	.	167	5	221	0	.	91
ZWILCH	55055	bcgsc.ca	37	15	66832447	66832447	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	ZWILCH	NM_017975	exon17	c.A1586G	p.Q529R	.	.	216	7	293	2	.	91
CCDC8	83987	bcgsc.ca	37	19	46915089	46915090	+	Missense_Mutation	DNP	GG	GG	CC	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	GG	GG	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	.	.	.	p.DQ326EE	.	.	.	.	.	.	.	
HOXA4	3201	broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	27168891	27168892	+	Missense_Mutation	DNP	GA	GA	AT	novel		TCGA-BC-A10R-01A-11D-A12Z-10	TCGA-BC-A10R-11A-11D-A12Z-10	GA	GA	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	e98ae9b4-4696-4b17-a6ed-b072d679ba40	a458c859-a526-4bd8-a5ff-ed71b5ce571b	.	.	.	.	.	p.HP305QS	.	.	.	.	.	.	.	
