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
ABCB11	8647	broad.mit.edu	37	2	169850390	169850390	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ABCB11	NM_003742	exon8	c.A614G	p.D205G	.	.	154	5	94	0	.	139
ABHD10	55347	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	111710276	111710279	+	Frame_Shift_Del	DEL	CTGA	CTGA	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	CTGA	CTGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ABHD10	NM_018394	exon5	c.629_632del	p.210_211del	.	.	211	83	96	0	.	90
ACRC	93953	hgsc.bcm.edu	37	X	70824010	70824010	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ACRC	NM_052957	exon8	c.T883C	p.S295P	.	.	171	14	35	0	.	93
ACTRT1	139741	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	127185963	127185963	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ACTRT1	NM_138289	exon1	c.G223A	p.E75K	.	.	322	215	56	0	.	133
ADAM11	4185	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	42855379	42855379	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ADAM11	NM_002390	exon24	c.T2130A	p.S710R	.	.	62	29	40	0	.	227
ADAMTS8	11095	broad.mit.edu;bcgsc.ca;mdanderson.org	37	11	130297694	130297694	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ADAMTS8	NM_007037	exon1	c.G488A	p.R163Q	.	.	61	28	46	1	.	226
ADCY9	115	bcgsc.ca	37	16	4164366	4164366	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ADCY9	NM_001116	exon2	c.A1078G	p.R360G	.	.	127	5	79	0	.	139
AHNAK2	113146	broad.mit.edu	37	14	105412335	105412335	+	Silent	SNP	C	C	T	rs202104959	byfrequency	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	AHNAK2	NM_138420	exon7	c.G9453A	p.P3151P	.	.	159	12	73	0	C|0.963;T|0.037	47
ALDH18A1	5832	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	97402774	97402774	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ALDH18A1	NM_001017423	exon3	c.G278A	p.G93E	.	.	73	32	41	0	.	117
ALDH1L2	160428	broad.mit.edu	37	12	105425639	105425639	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ALDH1L2	NM_001034173	exon20	c.A2318G	p.K773R	.	.	289	5	137	1	.	91
ALMS1	7840	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	73717941	73717941	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ALMS1	NM_015120	exon10	c.G8852C	p.G2951A	.	.	86	33	62	0	.	142
ANK1	286	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	8	41573290	41573290	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ANK1	NM_001142446	exon14	c.1581delC	p.A527fs	.	.	145	68	69	0	.	716
ANKRD30BL	554226	broad.mit.edu	37	2	132919171	132919171	+	RNA	SNP	A	A	G	rs199695856		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	.	.	.	.	.	.	290	13	140	2	.	.
ANKRD30BL	554226	broad.mit.edu	37	2	132919192	132919192	+	RNA	SNP	G	G	A	rs111295191		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	.	.	.	.	.	.	292	14	141	0	.	.
APLN	8862	hgsc.bcm.edu	37	X	128782634	128782635	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	APLN	NM_017413	exon2	c.203_204insC	p.R68fs	.	.	267	19	40	0	.	108
ARHGEF40	55701	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	14	21543017	21543017	+	Silent	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ARHGEF40	NM_018071	exon3	c.C1128G	p.G376G	.	.	33	20	34	0	.	228
ATAD5	79915	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	29162318	29162318	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ATAD5	NM_024857	exon2	c.T1219C	p.F407L	.	.	152	55	103	0	.	93
ATF7IP2	80063	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	10574815	10574815	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ATF7IP2	NM_001256160	exon11	c.A1562G	p.Q521R	.	.	77	27	52	0	.	186
BRCC3	79184	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	154299926	154299926	+	Splice_Site	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	BRCC3	NM_001018055	exon1	c.123+1G>A	.	.	.	146	42	18	0	.	706
C10orf90	118611	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	128193357	128193357	+	Missense_Mutation	SNP	C	C	A	rs199676174	alternate_allele	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	C10orf90	NM_001004298	exon3	c.G412T	p.A138S	.	.	55	21	36	0	C|1.000;G|0.000	92
C14orf159	80017	bcgsc.ca	37	14	91681797	91681797	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	C14orf159	NM_001102368	exon13	c.T1613C	p.L538P	.	.	79	4	37	0	.	92
C2CD4C	126567	broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	408323	408323	+	Silent	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	C2CD4C	NM_001136263	exon2	c.G39T	p.R13R	.	.	128	58	100	1	.	46
C2CD5	9847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	22606893	22606893	+	Silent	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_014802	exon24	c.G2808C	p.G936G	.	.	220	83	91	0	.	.
C3orf72	401089	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	3	138669225	138669225	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	C3orf72	NM_001040061	exon3	c.C339T	p.L113L	.	.	26	9	34	0	.	22
C4orf21	55345	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	113510881	113510881	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	C4orf21	NM_018392	exon11	c.G3126C	p.E1042D	.	.	150	107	151	0	.	90
C5	727	bcgsc.ca	37	9	123753503	123753503	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	C5	NM_001735	exon23	c.C2907T	p.P969P	.	.	88	4	108	0	.	92
C6orf118	168090	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	165715292	165715292	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	C6orf118	NM_144980	exon2	c.G519T	p.R173S	.	.	42	19	27	0	.	90
C7orf61	402573	hgsc.bcm.edu;broad.mit.edu	37	7	100054424	100054425	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_001004323	exon3	c.572_573insC	p.R191fs	.	.	96	19	29	0	.	.
CACNA1B	774	bcgsc.ca	37	9	140907618	140907618	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CACNA1B	NM_001243812	exon18	c.T2198C	p.L733P	.	.	40	5	51	0	.	138
CAD	790	ucsc.edu	37	2	27456355	27456355	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CAD	NM_004341	exon20	c.A3167G	p.D1056G	.	.	60	5	29	1	.	295
CADPS	8618	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	62739120	62739120	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CADPS	NM_003716	exon3	c.G884C	p.C295S	.	.	93	45	34	0	.	281
CCDC14	64770	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	123650008	123650008	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CCDC14	NM_022757	exon11	c.A1740G	p.I580M	.	.	340	125	217	0	.	68
CCDC169-SOHLH2	100526761	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	36776092	36776092	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_001198910	exon7	c.T418C	p.C140R	.	.	130	49	56	0	.	.
CCDC65	85478	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	49312509	49312509	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CCDC65	NM_033124	exon6	c.C849A	p.S283R	.	.	104	45	93	0	.	92
CDHR5	53841	ucsc.edu	37	11	618740	618740	+	Missense_Mutation	SNP	C	C	G	rs142627719	byfrequency	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CDHR5	NM_021924	exon13	c.G1819C	p.A607P	.	.	437	105	197	13	C|0.981;G|0.019	90
CEBPB	1051	mdanderson.org	37	20	48807993	48807993	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CEBPB	NM_005194	exon1	c.C423T	p.S141S	.	.	9	4	8	0	.	226
CHAT	1103	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	50827803	50827803	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CHAT	NM_020549	exon3	c.G420C	p.Q140H	.	.	30	13	27	0	.	514
CHD4	1108	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	6710565	6710565	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CHD4	NM_001273	exon6	c.C689T	p.A230V	.	.	74	25	53	0	.	228
CHDC2	286464	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	X	36122659	36122659	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_173695	exon8	c.T896C	p.M299T	.	.	473	21	231	0	.	.
CIDEC	63924	bcgsc.ca	37	3	9920137	9920137	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CIDEC	NM_001199623	exon2	c.T73C	p.Y25H	.	.	147	7	70	0	.	90
CLEC12A	160364	bcgsc.ca	37	12	10137573	10137573	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CLEC12A	NM_001207010	exon7	c.A776G	p.E259G	.	.	60	4	61	0	.	91
CNOT2	4848	broad.mit.edu	37	12	70736063	70736063	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CNOT2	NM_001199302	exon14	c.A1266T	p.L422F	.	.	319	7	150	0	.	226
COL19A1	1310	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	70852682	70852682	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	COL19A1	NM_001858	exon23	c.C1596T	p.S532S	.	.	77	29	54	0	.	156
COMMD3-BMI1	0	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	22618024	22618024	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_001204062	exon13	c.A1047G	p.L349L	.	.	172	56	115	0	.	.
COPA	1314	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	160295377	160295377	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	COPA	NM_001098398	exon7	c.G562A	p.D188N	.	.	287	176	95	1	.	92
COPS6	10980	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	99686935	99686935	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	COPS6	NM_006833	exon2	c.C99T	p.C33C	.	.	157	50	34	0	.	658
CRNN	49860	broad.mit.edu	37	1	152382590	152382590	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CRNN	NM_016190	exon3	c.G968A	p.G323D	.	.	2113	136	352	4	.	93
CSMD3	114788	bcgsc.ca	37	8	113564847	113564847	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CSMD3	NM_198123	exon26	c.A4337G	p.E1446G	.	.	196	8	51	0	.	1132
CST11	140880	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	23431159	23431159	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CST11	NM_130794	exon3	c.G401C	p.S134T	.	.	148	64	91	0	.	90
CTNNB1	1499	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	41266132	41266133	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	CTNNB1,NS,carcinoma,+1	CTNNB1	NM_001098210	exon3	c.129_130insC	p.A43fs	.	.	229	29	102	0	.	24361
CTNNB1	1499	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	41266138	41266138	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	CTNNB1,NS,carcinoma,+2	CTNNB1	NM_001098209	exon3	c.135delT	p.S45fs	.	.	232	31	106	0	.	24361
CTNNB1	1499	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	41266138	41266138	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	CTNNB1,NS,carcinoma,+2	CTNNB1	NM_001098209	exon3	c.T135C	p.S45S	.	.	228	62	103	0	.	24361
CTNNB1	1499	hgsc.bcm.edu;ucsc.edu	37	3	41266135	41266135	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	CTNNB1,NS,carcinoma,+2	CTNNB1	NM_001098209	exon3	c.T132C	p.P44P	.	.	231	72	105	0	.	24361
CTNNB1	1499	hgsc.bcm.edu;ucsc.edu	37	3	41266137	41266137	+	Missense_Mutation	SNP	C	C	T	rs121913409	bycluster	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	CTNNB1,NS,carcinoma,+1	CTNNB1	NM_001098209	exon3	c.C134T	p.S45F	.	.	232	52	106	1	.	24361
CYP11A1	1583	broad.mit.edu;bcgsc.ca	37	15	74637399	74637399	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CYP11A1	NM_000781	exon3	c.G611A	p.R204H	.	.	90	6	38	0	.	92
CYP2A6	1548	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	19	41354534	41354534	+	Missense_Mutation	SNP	G	G	T	rs60563539		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	CYP2A6	NM_000762	exon3	c.C478A	p.L160I	.	.	63	7	56	0	.	92
DCAF4L2	138009	bcgsc.ca	37	8	88885237	88885237	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	DCAF4L2	NM_152418	exon1	c.T963G	p.H321Q	.	.	200	30	110	1	.	91
DCAF4L2	138009	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	8	88885240	88885242	+	In_Frame_Del	DEL	CAC	CAC	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	CAC	CAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	DCAF4L2	NM_152418	exon1	c.958_960del	p.320_320del	.	.	205	26	111	0	.	91
DCAF4L2	138009	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	8	88885245	88885246	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	DCAF4L2	NM_152418	exon1	c.954_955del	p.318_319del	.	.	214	27	114	0	.	91
DCAF6	55827	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	168014320	168014320	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	DCAF6	NM_001198956	exon16	c.G2113C	p.E705Q	.	.	389	225	134	0	.	516
DDX11	1663	bcgsc.ca	37	12	31244703	31244703	+	Silent	SNP	C	C	T	rs74439745		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	DDX11	NM_030653	exon10	c.C1140T	p.A380A	.	.	289	51	162	11	C|0.500;T|0.500	229
DNAH8	1769	broad.mit.edu	37	6	38800143	38800143	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	DNAH8	NM_001206927	exon31	c.A4234G	p.S1412G	.	.	402	7	94	0	.	615
DNAH8	1769	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	38810541	38810541	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	DNAH8	NM_001206927	exon35	c.G4707A	p.M1569I	.	.	319	67	84	0	.	615
DNTT	1791	bcgsc.ca	37	10	98095685	98095685	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	DNTT	NM_004088	exon10	c.A1397G	p.E466G	.	.	138	6	78	0	.	228
DPCR1	135656	hgsc.bcm.edu	37	6	30917879	30917879	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	DPCR1	NM_080870	exon2	c.G1638A	p.R546R	.	.	894	57	303	0	.	90
DRP2	1821	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	X	100513348	100513348	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	DRP2	NM_001939	exon22	c.C2441G	p.A814G	.	.	222	132	51	0	.	132
EGR2	1959	broad.mit.edu	37	10	64575753	64575753	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	EGR2	NM_000399	exon1	c.A37G	p.T13A	.	.	118	5	63	1	.	92
EIF3E	3646	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	109229595	109229595	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	EIF3E	NM_001568	exon8	c.G817T	p.V273F	.	.	46	12	18	0	.	188
EIF4E1B	253314	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	176070173	176070173	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_001099408	exon4	c.C106A	p.P36T	.	.	185	72	113	0	.	.
ERO1LB	56605	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	236416758	236416758	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ERO1LB	NM_019891	exon3	c.T270C	p.C90C	.	.	360	82	131	2	.	90
F2	2147	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	46747715	46747715	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	F2	NM_000506	exon7	c.A866G	p.N289S	.	.	27	12	24	0	.	93
FAM160B1	57700	hgsc.bcm.edu	37	10	116595358	116595359	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	FAM160B1	NM_020940	exon4	c.357_358insC	p.R119fs	.	.	91	10	53	0	.	91
FAM182A	284800	broad.mit.edu	37	20	26061818	26061818	+	RNA	SNP	G	G	C	rs112101451		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	.	.	.	.	.	.	156	6	92	1	G|0.994;C|0.006	.
FAM186A	121006	broad.mit.edu	37	12	50746166	50746166	+	Silent	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	FAM186A	NM_001145475	exon4	c.C4449G	p.L1483L	.	.	209	8	108	1	.	68
FAM188A	80013	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	15858832	15858832	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	FAM188A	NM_024948	exon11	c.882+2T>C	.	.	.	162	57	87	0	.	228
FAM195A	84331	ucsc.edu	37	16	698146	698146	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	FAM195A	NM_138418	exon5	c.T439C	p.W147R	.	.	42	5	36	0	.	90
FAM71A	149647	broad.mit.edu	37	1	212799990	212799990	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	FAM71A	NM_153606	exon1	c.T1771C	p.F591L	.	.	222	8	93	0	.	94
FANK1	92565	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	127684064	127684064	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	FANK1	NM_145235	exon4	c.G395C	p.G132A	.	.	521	210	254	0	.	91
FAT3	120114	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	92616349	92616349	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	FAT3	NM_001008781	exon23	c.A12727G	p.S4243G	.	.	26	17	23	0	.	73
FCRL2	79368	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	157739786	157739786	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	FCRL2	NM_030764	exon4	c.C465T	p.G155G	.	.	392	223	94	0	.	92
FRG1	2483	broad.mit.edu;mdanderson.org	37	4	190874235	190874235	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	FRG1	NM_004477	exon4	c.C272G	p.P91R	.	.	1922	120	910	1	.	90
FST	10468	bcgsc.ca	37	5	52781791	52781791	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	FST	NM_013409	exon6	c.A963G	p.E321E	.	.	306	8	150	0	.	90
GAL3ST3	89792	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	11	65810799	65810799	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	GAL3ST3	NM_033036	exon3	c.G475T	p.E159X	.	.	34	9	43	0	.	91
GCNT4	51301	broad.mit.edu	37	5	74325629	74325629	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	GCNT4	NM_016591	exon1	c.A234G	p.E78E	.	.	373	7	188	0	.	93
GLB1	2720	ucsc.edu	37	3	33063081	33063081	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	GLB1	NM_000404	exon12	c.T1210C	p.L404L	.	.	37	4	22	0	.	135
GNB5	10681	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	52418147	52418147	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	GNB5	NM_016194	exon11	c.G1007T	p.S336I	.	.	213	79	76	0	.	227
GPATCH4	54865	hgsc.bcm.edu	37	1	156565049	156565049	+	Missense_Mutation	SNP	A	A	C	rs77528517	byfrequency	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	GPATCH4	NM_015590	exon8	c.T1084G	p.F362V	.	.	844	6	187	0	A|0.333;C|0.333;G|0.333	91
GPRIN2	9721	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	46999358	46999358	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	GPRIN2	NM_014696	exon3	c.G478A	p.G160S	.	.	37	7	30	0	.	90
GRID2	2895	bcgsc.ca	37	4	94032056	94032056	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	GRID2	NM_001510	exon4	c.A687G	p.R229R	.	.	157	6	94	0	.	159
H2AFY	9555	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	134724771	134724771	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	H2AFY	NM_138610	exon2	c.G13A	p.G5S	.	.	52	21	24	0	.	90
HIST1H4G	8369	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	26246995	26246995	+	Missense_Mutation	SNP	C	C	T	rs140916075		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	HIST1H4G	NM_003547	exon1	c.G211A	p.V71M	.	.	223	120	82	0	C|1.000;T|0.000	68
HIVEP1	3096	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	12162108	12162108	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	HIVEP1	NM_002114	exon8	c.G6924T	p.E2308D	.	.	346	81	85	0	.	139
HLA-A	3105	broad.mit.edu	37	6	29910607	29910607	+	Silent	SNP	G	G	C	rs72555397		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	HLA-A	NM_001242758	exon2	c.G147C	p.V49V	.	.	155	6	93	3	.	92
HSD17B7	51478	broad.mit.edu	37	1	162773288	162773288	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	HSD17B7	NM_016371	exon6	c.C710T	p.P237L	.	.	992	6	282	1	.	91
IGFBP4	3487	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	17	38600272	38600272	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	IGFBP4	NM_001552	exon1	c.C285A	p.H95Q	.	.	22	8	17	0	.	522
IL13RA2	3598	broad.mit.edu	37	X	114245393	114245393	+	Splice_Site	SNP	T	T	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	IL13RA2	NM_000640	exon7	c.522-2A>C	.	.	.	518	9	95	0	.	132
IRAK3	11213	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	66641584	66641584	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	IRAK3	NM_007199	exon12	c.C1424A	p.P475Q	.	.	274	97	185	2	.	1379
IRF2	3660	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	185340688	185340688	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	IRF2	NM_002199	exon3	c.C122T	p.A41V	.	.	61	12	33	0	.	91
ITIH2	3698	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	10	7773850	7773850	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ITIH2	NM_002216	exon13	c.1538delT	p.V513fs	.	.	81	39	53	0	.	93
KANK4	163782	hgsc.bcm.edu	37	1	62718788	62718789	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	KANK4	NM_181712	exon8	c.2633_2634insG	p.V878fs	.	.	153	9	55	0	.	74
KCMF1	56888	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	85255054	85255054	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	KCMF1	NM_020122	exon2	c.G59A	p.R20H	.	.	258	103	166	0	.	24
KCNK2	3776	broad.mit.edu	37	1	215342617	215342617	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	KCNK2	NM_001017425	exon4	c.T551A	p.L184H	.	.	919	10	300	1	.	90
KCTD8	386617	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	4	44449751	44449751	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	KCTD8	NM_198353	exon1	c.A790T	p.K264X	.	.	55	16	53	0	.	92
KDM1B	221656	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	18215297	18215297	+	Silent	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	KDM1B	NM_153042	exon16	c.C1473A	p.T491T	.	.	141	30	51	0	.	91
KNDC1	85442	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	134981785	134981785	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	KNDC1	NM_152643	exon3	c.C329A	p.P110H	.	.	43	13	27	0	.	229
KRT16P2	400578	broad.mit.edu	37	17	16735844	16735844	+	RNA	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	.	.	.	.	.	.	132	26	247	1	.	.
KRT8	3856	broad.mit.edu	37	12	53298675	53298675	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	KRT8	NM_001256282	exon2	c.T175G	p.S59A	.	.	43	3	40	0	.	92
KRTAP4-11	653240	broad.mit.edu	37	17	39274319	39274319	+	Missense_Mutation	SNP	G	G	C	rs199712484		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_033059	exon1	c.C249G	p.S83R	.	.	53	4	48	0	.	.
KRTAP5-10	387273	bcgsc.ca	37	11	71276879	71276879	+	Silent	SNP	G	G	T	rs111331435	alternate_allele	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	KRTAP5-10	NM_001012710	exon1	c.G246T	p.G82G	.	.	83	19	57	1	G|0.500;A|0.500	91
KTN1	3895	broad.mit.edu	37	14	56104011	56104011	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	KTN1	NM_004986	exon11	c.A1645G	p.R549G	.	.	548	8	315	0	.	1147
LAMC1	3915	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	183093943	183093943	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	LAMC1	NM_002293	exon14	c.A2579G	p.Y860C	.	.	221	48	77	0	.	252
LINC00854	100874261	broad.mit.edu	37	17	41381938	41381938	+	RNA	SNP	C	C	G	rs4986161	bycluster;byfrequency	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	.	.	.	.	.	.	44	5	44	0	C|0.500;G|0.500	.
LLGL2	3993	ucsc.edu	37	17	73568132	73568132	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	LLGL2	NM_004524	exon19	c.A2447G	p.E816G	.	.	27	4	14	0	.	251
LMNB1	4001	broad.mit.edu;ucsc.edu;mdanderson.org	37	5	126145938	126145938	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	LMNB1	NM_005573	exon4	c.G709T	p.E237X	.	.	102	37	69	1	.	226
LOC100130331	0	broad.mit.edu	37	1	238090055	238090055	+	RNA	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	.	.	.	.	.	.	58	25	19	0	.	.
LPA	4018	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	161006134	161006134	+	Silent	SNP	A	A	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	LPA	NM_005577	exon27	c.T4233G	p.S1411S	.	.	216	66	91	0	.	74
LPHN3	23284	broad.mit.edu;bcgsc.ca	37	4	62897203	62897203	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	LPHN3	NM_015236	exon20	c.T3262G	p.L1088V	.	.	305	8	154	0	.	508
LPL	4023	bcgsc.ca	37	8	19810853	19810853	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	LPL	NM_000237	exon4	c.T462C	p.H154H	.	.	77	5	66	0	.	92
MACC1	346389	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	20199410	20199410	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MACC1	NM_182762	exon5	c.T574A	p.C192S	.	.	175	41	93	0	.	93
MACROD1	28992	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	63918758	63918758	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MACROD1	NM_014067	exon3	c.T470C	p.L157P	.	.	116	44	63	0	.	68
MAGEB6	158809	broad.mit.edu	37	X	26212997	26212997	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MAGEB6	NM_173523	exon2	c.G1034C	p.R345P	.	.	215	133	110	0	.	133
MAPK7	5598	broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	19285441	19285441	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MAPK7	NM_002749	exon5	c.C1825T	p.P609S	.	.	124	43	111	1	.	1402
MCM4	4173	broad.mit.edu	37	8	48885507	48885507	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MCM4	NM_182746	exon14	c.C2019T	p.S673S	.	.	220	5	94	0	.	230
MFSD5	84975	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	53647509	53647509	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MFSD5	NM_001170790	exon2	c.C1211A	p.S404Y	.	.	141	52	62	0	.	93
MIR31HG	554202	broad.mit.edu	37	9	21455809	21455809	+	RNA	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	.	.	.	.	.	.	13	4	8	0	.	.
MIR519D	574480	broad.mit.edu;ucsc.edu;mdanderson.org	37	19	54216629	54216629	+	RNA	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	.	.	.	.	.	.	229	79	142	0	.	.
MKRN1	23608	bcgsc.ca	37	7	140156632	140156632	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MKRN1	NM_013446	exon5	c.T806C	p.L269P	.	.	142	6	33	0	.	91
MLL2	8085	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	49449093	49449100	+	Frame_Shift_Del	DEL	CTTCTGGC	CTTCTGGC	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	CTTCTGGC	CTTCTGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MLL2	NM_003482	exon1	c.8_15del	p.3_5del	.	.	90	26	93	0	.	612
MLL3	58508	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	7	151884488	151884488	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MLL3	NM_170606	exon33	c.G4867T	p.E1623X	.	.	212	112	94	0	.	1398
MOCOS	55034	bcgsc.ca	37	18	33831188	33831188	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MOCOS	NM_017947	exon11	c.T2106C	p.C702C	.	.	72	6	52	0	.	91
MUC16	94025	broad.mit.edu;ucsc.edu;mdanderson.org	37	19	9057202	9057202	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MUC16	NM_024690	exon3	c.G30244T	p.E10082X	.	.	209	70	106	1	.	566
MUC21	394263	ucsc.edu;bcgsc.ca	37	6	30954434	30954434	+	Missense_Mutation	SNP	A	A	G	rs9262337	byfrequency	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MUC21	NM_001010909	exon2	c.A482G	p.E161G	.	.	395	82	94	6	A|0.935;G|0.065	92
MUC4	4585	broad.mit.edu	37	3	195506460	195506460	+	Missense_Mutation	SNP	G	G	C	rs113130007	byfrequency	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MUC4	NM_018406	exon2	c.C11991G	p.H3997Q	.	.	154	6	69	0	G|0.006;C|0.994	90
MUC5B	727897	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	1280240	1280240	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_002458	exon44	c.C16662A	p.D5554E	.	.	30	10	25	0	.	.
MUC5B	727897	ucsc.edu;bcgsc.ca	37	11	1261426	1261426	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_002458	exon30	c.A3791G	p.E1264G	.	.	36	5	37	1	.	.
MUC7	4589	bcgsc.ca	37	4	71346784	71346784	+	Missense_Mutation	SNP	C	C	A	rs200936768		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MUC7	NM_001145007	exon4	c.C323A	p.T108K	.	.	115	23	197	1	.	93
MYBL2	4605	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	42331511	42331511	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MYBL2	NM_002466	exon8	c.C1333G	p.P445A	.	.	124	39	70	0	.	415
MYOM2	9172	bcgsc.ca	37	8	2041837	2041837	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MYOM2	NM_003970	exon17	c.T2044C	p.F682L	.	.	77	4	71	0	.	95
MYT1L	23040	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	1796112	1796112	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MYT1L	NM_015025	exon24	c.A3395G	p.N1132S	.	.	214	81	60	1	.	95
MZF1	7593	bcgsc.ca	37	19	59073786	59073786	+	Missense_Mutation	SNP	T	T	C	rs201824464		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	MZF1	NM_198055	exon6	c.A1858G	p.T620A	.	.	142	8	64	0	T|1.000;C|0.000	91
NAALAD2	10003	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	89924847	89924847	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	NAALAD2	NM_005467	exon19	c.A2155G	p.K719E	.	.	109	39	48	0	.	92
NAPEPLD	222236	broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	102743978	102743978	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	NAPEPLD	NM_001122838	exon5	c.G1080A	p.K360K	.	.	548	154	191	1	.	227
NCAPD3	23310	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	134073725	134073725	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	NCAPD3	NM_015261	exon11	c.T1292C	p.L431P	.	.	133	46	70	2	.	229
NCOA3	8202	mdanderson.org	37	20	46279827	46279827	+	Silent	SNP	G	G	A	rs6018623	byfrequency	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	NCOA3	NM_181659	exon20	c.G3753A	p.Q1251Q	.	.	46	14	53	1	G|0.861;A|0.139	229
NCOA4	8031	bcgsc.ca	37	10	51585501	51585501	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	NCOA4	NM_001145261	exon9	c.T1648C	p.F550L	.	.	81	5	60	0	.	1042
ND4	0	bcgsc.ca	37	MT	11711	11711	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	ENST00000361381	exon1	c.G952A	p.A318T	.	.	120	116	678	5	.	.
ND5	0	bcgsc.ca	37	MT	13105	13105	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	ENST00000361567	exon1	c.A769G	p.I257V	.	.	117	6	651	4	.	.
NEDD4L	23327	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	55996342	55996342	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	NEDD4L	NM_015277	exon10	c.G796C	p.G266R	.	.	63	28	57	0	.	658
NEK11	79858	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	130748574	130748574	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	NEK11	NM_024800	exon3	c.G22T	p.A8S	.	.	188	89	79	0	.	848
NID2	22795	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	52509060	52509060	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	NID2	NM_007361	exon7	c.C1588A	p.H530N	.	.	68	34	23	0	.	158
NPAS4	266743	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	66191452	66191452	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	NPAS4	NM_178864	exon7	c.C1091T	p.T364I	.	.	58	24	35	0	.	90
NTNG1	22854	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	107937923	107937923	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	NTNG1	NM_014917	exon4	c.C1035T	p.P345P	.	.	125	54	48	0	.	140
NUDT14	256281	hgsc.bcm.edu;bcgsc.ca	37	14	105643003	105643004	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	NUDT14	NM_177533	exon4	c.296_297insG	p.V99fs	.	.	48	18	48	0	.	91
OBSCN	84033	bcgsc.ca	37	1	228468480	228468480	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	OBSCN	NM_001271223	exon35	c.C9467A	p.A3156D	.	.	31	7	26	0	.	403
OBSCN	84033	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	228529240	228529240	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	OBSCN	NM_001271223	exon85	c.C20830T	p.R6944W	.	.	84	25	33	0	.	403
OR10G7	390265	broad.mit.edu;bcgsc.ca;mdanderson.org	37	11	123909593	123909593	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	OR10G7	NM_001004463	exon1	c.G116T	p.G39V	.	.	553	245	174	1	.	70
OR1J2	26740	broad.mit.edu;bcgsc.ca	37	9	125273456	125273456	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	OR1J2	NM_054107	exon1	c.A376T	p.I126L	.	.	428	15	229	0	.	72
OR2H2	7932	hgsc.bcm.edu	37	6	29556264	29556264	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	OR2H2	NM_007160	exon1	c.T543C	p.A181A	.	.	467	24	114	0	.	22
OR2J3	442186	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	29080433	29080433	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	OR2J3	NM_001005216	exon1	c.A766T	p.I256F	.	.	868	202	181	1	.	90
OR2L13	284521	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	248262994	248262994	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	OR2L13	NM_175911	exon3	c.T317C	p.M106T	.	.	311	169	91	0	.	70
OR2T27	403239	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	1	248813316	248813316	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	OR2T27	NM_001001824	exon1	c.C870A	p.Y290X	.	.	573	83	197	0	.	47
OR2T4	127074	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	248525893	248525893	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	OR2T4	NM_001004696	exon1	c.A1011G	p.L337L	.	.	689	225	257	0	.	68
OR51L1	119682	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	5020988	5020988	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	OR51L1	NM_001004755	exon1	c.G776A	p.G259E	.	.	361	162	162	0	.	69
OR52E2	119678	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	11	5079905	5079905	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	OR52E2	NM_001005164	exon1	c.A953T	p.E318V	.	.	121	34	66	0	.	71
OR52H1	390067	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	5566529	5566529	+	Silent	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	OR52H1	NM_001005289	exon1	c.C225A	p.A75A	.	.	212	80	93	0	.	114
OSBPL5	114879	mdanderson.org	37	11	3111131	3111131	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	OSBPL5	NM_020896	exon21	c.C2446T	p.Q816X	.	.	42	12	40	1	.	113
PARP11	57097	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	12	3939168	3939168	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PARP11	NM_020367	exon2	c.C35G	p.A12G	.	.	178	77	126	0	.	523
PCDH10	57575	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	134071720	134071720	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PCDH10	NM_032961	exon1	c.C425A	p.P142H	.	.	51	22	32	0	.	92
PCDHB18	54660	broad.mit.edu	37	5	140615614	140615614	+	RNA	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PCDHB18	.	.	.	.	.	.	147	10	95	2	.	69
PCDHGB1	56104	bcgsc.ca	37	5	140731360	140731360	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PCDHGB1	NM_018922	exon1	c.C1533T	p.F511F	.	.	68	4	55	0	.	33
PCYOX1L	78991	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	148745666	148745666	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PCYOX1L	NM_024028	exon4	c.C632G	p.A211G	.	.	73	28	31	0	.	91
PHKA1	5255	hgsc.bcm.edu	37	X	71800935	71800936	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PHKA1	NM_002637	exon32	c.3589_3590insG	p.F1197fs	.	.	260	23	57	0	.	134
PIEZO2	63895	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	18	10696431	10696440	+	Frame_Shift_Del	DEL	CAGTGTCAGC	CAGTGTCAGC	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	CAGTGTCAGC	CAGTGTCAGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_022068	exon42	c.6586_6595del	p.2196_2199del	.	.	96	19	68	0	.	.
PLEKHG4B	153478	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	5	140645	140645	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PLEKHG4B	NM_052909	exon1	c.C223T	p.R75W	.	.	153	67	100	0	.	228
PLEKHG7	440107	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	12	93148009	93148009	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PLEKHG7	NM_001004330	exon6	c.C459G	p.Y153X	.	.	111	40	63	0	.	23
PLXNA4	91584	broad.mit.edu	37	7	131815307	131815307	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PLXNA4	NM_020911	exon32	c.C5616A	p.D1872E	.	.	380	9	165	0	.	91
PLXNB2	23654	ucsc.edu	37	22	50716387	50716387	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PLXNB2	NM_012401	exon32	c.A4943G	p.H1648R	.	.	39	6	36	0	.	211
PLXNB3	5365	ucsc.edu;bcgsc.ca	37	X	153039047	153039047	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PLXNB3	NM_001163257	exon20	c.A3227G	p.E1076G	.	.	102	24	33	1	.	130
PMEPA1	56937	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	56227217	56227217	+	Silent	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PMEPA1	NM_020182	exon4	c.G756T	p.P252P	.	.	46	20	43	0	.	227
POLD1	5424	ucsc.edu	37	19	50920314	50920314	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	POLD1	NM_002691	exon25	c.A3080G	p.E1027G	.	.	40	4	33	1	.	840
POTEC	388468	broad.mit.edu	37	18	14513764	14513764	+	Missense_Mutation	SNP	C	C	T	rs79575795		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	POTEC	NM_001137671	exon10	c.G1430A	p.R477Q	.	.	1301	17	433	1	.	3
POTEC	388468	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	18	14542729	14542729	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	POTEC	NM_001137671	exon1	c.T417C	p.D139D	.	.	906	360	327	0	.	3
PRADC1	84279	broad.mit.edu;mdanderson.org	37	2	73456589	73456589	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PRADC1	NM_032319	exon3	c.G278C	p.G93A	.	.	56	21	15	0	.	90
PRB2	653247	ucsc.edu	37	12	11546121	11546121	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PRB2	NM_006248	exon3	c.T891C	p.S297S	.	.	528	89	219	15	.	22
PRG4	10216	bcgsc.ca	37	1	186277277	186277277	+	Missense_Mutation	SNP	G	G	A	rs113308576		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PRG4	NM_005807	exon7	c.G2426A	p.G809E	.	.	399	38	223	8	G|0.500;A|0.500	91
PRH2	5555	broad.mit.edu	37	12	11083284	11083284	+	Missense_Mutation	SNP	A	A	C	rs2923234	byfrequency;bysubmitter	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PRH2	NM_001110213	exon3	c.A124C	p.I42L	.	.	351	9	164	1	A|0.543;C|0.457	90
PRKAG3	53632	broad.mit.edu	37	2	219688599	219688599	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PRKAG3	NM_017431	exon13	c.A1356G	p.V452V	.	.	47	4	28	0	.	659
PRKG1	5592	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	52834527	52834527	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PRKG1	NM_006258	exon1	c.G177T	p.Q59H	.	.	166	70	113	1	.	523
PRPF4B	8899	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	4053106	4053106	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PRPF4B	NM_003913	exon11	c.T2465C	p.L822P	.	.	181	46	44	1	.	1308
PRR21	643905	hgsc.bcm.edu	37	2	240982379	240982379	+	Silent	SNP	T	T	C	rs138056768	byfrequency	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PRR21	NM_001080835	exon1	c.A21G	p.T7T	.	.	66	20	24	0	T|0.989;C|0.011	70
PRSS16	10279	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	27218524	27218524	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PRSS16	NM_005865	exon5	c.G530T	p.S177I	.	.	179	45	42	1	.	94
PRX	57716	bcgsc.ca	37	19	40902691	40902691	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PRX	NM_181882	exon7	c.T1568C	p.L523P	.	.	145	35	76	4	.	92
PSPH	5723	bcgsc.ca	37	7	56088786	56088786	+	Silent	SNP	A	A	T	rs202027697	byfrequency	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PSPH	NM_004577	exon4	c.T120A	p.V40V	.	.	241	52	57	3	A|0.749;T|0.251	92
PTPDC1	138639	broad.mit.edu	37	9	96860136	96860136	+	Missense_Mutation	SNP	C	C	T	rs142408898	byfrequency	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PTPDC1	NM_001253829	exon6	c.C1288T	p.R430W	.	.	47	3	57	1	C|0.999;T|0.001	227
PTPN21	11099	bcgsc.ca	37	14	88952176	88952176	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PTPN21	NM_007039	exon11	c.A943G	p.T315A	.	.	92	5	53	0	.	230
PTPRH	5794	bcgsc.ca	37	19	55699483	55699483	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PTPRH	NM_002842	exon13	c.A2438G	p.E813G	.	.	84	5	53	0	.	138
PTPRR	5801	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	71139795	71139795	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	PTPRR	NM_002849	exon6	c.C810T	p.H270H	.	.	697	276	302	0	.	652
RABIF	5877	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	202858125	202858125	+	Silent	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	RABIF	NM_002871	exon1	c.G102C	p.G34G	.	.	109	54	89	1	.	227
REPS1	85021	bcgsc.ca	37	6	139251122	139251122	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	REPS1	NM_001128617	exon9	c.A1249G	p.S417G	.	.	79	5	40	0	.	522
RFC1	5981	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	39322038	39322038	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	RFC1	NM_002913	exon9	c.C1060G	p.P354A	.	.	267	108	166	0	.	230
RHOBTB2	23221	bcgsc.ca	37	8	22863606	22863606	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	RHOBTB2	NM_001160036	exon6	c.C496T	p.L166L	.	.	51	5	35	0	.	416
SACS	26278	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	13	23905027	23905027	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SACS	NM_014363	exon10	c.A12988G	p.R4330G	.	.	271	14	139	0	.	298
SATB1	6304	broad.mit.edu	37	3	18390814	18390814	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SATB1	NM_001195470	exon12	c.G2236T	p.V746F	.	.	281	7	191	0	.	228
SCN10A	6336	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	38835301	38835301	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SCN10A	NM_006514	exon1	c.T201C	p.Y67Y	.	.	335	149	122	0	.	99
SDK2	54549	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	17	71382609	71382609	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SDK2	NM_001144952	exon31	c.G4473A	p.S1491S	.	.	53	14	17	0	.	24
SEC23B	10483	broad.mit.edu	37	20	18523791	18523791	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SEC23B	NM_032985	exon14	c.G1640A	p.W547X	.	.	121	4	123	0	.	91
SEPT7P2	641977	broad.mit.edu	37	7	45797640	45797640	+	RNA	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NR_024271	exon4	c.595+2T>C	.	.	.	548	12	162	2	.	.
SERPINE1	5054	ucsc.edu	37	7	100773744	100773744	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SERPINE1	NM_000602	exon3	c.T314C	p.L105P	.	.	53	5	20	1	.	652
SERPINE3	647174	bcgsc.ca	37	13	51921293	51921293	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SERPINE3	NM_001101320	exon3	c.A623G	p.Q208R	.	.	214	6	56	0	.	24
SFPQ	6421	hgsc.bcm.edu;bcgsc.ca	37	1	35654866	35654867	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SFPQ	NM_005066	exon5	c.1533_1534insA	p.N511fs	.	.	710	262	262	0	.	231
SH3YL1	26751	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	218860	218860	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SH3YL1	NM_015677	exon10	c.T980G	p.L327R	.	.	152	75	48	0	.	91
SHKBP1	92799	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	41089323	41089323	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SHKBP1	NM_138392	exon11	c.T980A	p.I327N	.	.	50	20	34	0	.	92
SLC1A7	6512	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	53555552	53555552	+	Silent	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SLC1A7	NM_006671	exon9	c.C1281G	p.L427L	.	.	173	76	90	0	.	155
SLC22A8	9376	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	62761284	62761284	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SLC22A8	NM_001184732	exon9	c.G1283A	p.C428Y	.	.	145	68	89	0	.	93
SMEK1	55671	ucsc.edu;bcgsc.ca	37	14	91952073	91952073	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SMEK1	NM_032560	exon4	c.A200G	p.D67G	.	.	34	4	24	0	.	226
SNX13	23161	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	17908059	17908059	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SNX13	NM_015132	exon9	c.G808C	p.D270H	.	.	347	110	124	0	.	650
SORCS3	22986	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	106976778	106976778	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SORCS3	NM_014978	exon19	c.G2632C	p.G878R	.	.	112	53	61	1	.	99
SPATA3	130560	hgsc.bcm.edu;bcgsc.ca	37	2	231861082	231861082	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_139073	exon1	c.C134G	p.T45R	.	.	111	9	65	0	.	.
SPATA3	130560	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	231861109	231861109	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_139073	exon1	c.C161G	p.T54R	.	.	114	39	70	0	.	.
SPATC1	375686	ucsc.edu;bcgsc.ca;mdanderson.org	37	8	145101782	145101782	+	Silent	SNP	C	C	T	rs140647326	byfrequency;alternate_allele	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SPATC1	NM_198572	exon5	c.C1701T	p.L567L	.	.	45	20	31	0	C|0.999;A|0.001	91
SPDYE1	285955	broad.mit.edu	37	7	44047000	44047000	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SPDYE1	NM_175064	exon5	c.C766T	p.P256S	.	.	526	12	228	0	.	91
SPOCK1	6695	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	136314376	136314376	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SPOCK1	NM_004598	exon11	c.T1287C	p.D429D	.	.	303	130	123	0	.	91
SRCAP	10847	broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	30724539	30724539	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SRCAP	NM_006662	exon15	c.A2141G	p.K714R	.	.	123	48	51	1	.	94
SRCAP	10847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	30724538	30724538	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SRCAP	NM_006662	exon15	c.A2140T	p.K714X	.	.	123	47	51	0	.	94
SRR	63826	broad.mit.edu	37	17	2221265	2221265	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SRR	NM_021947	exon3	c.T270C	p.A90A	.	.	119	4	71	0	.	90
SSTR4	6754	broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	23017142	23017142	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SSTR4	NM_001052	exon1	c.A1022G	p.E341G	.	.	96	12	73	0	.	522
STK39	27347	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	169018309	169018309	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	STK39	NM_013233	exon5	c.G616T	p.V206L	.	.	348	126	195	0	.	546
STON2	85439	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	81862242	81862242	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	STON2	NM_001256430	exon4	c.G369C	p.E123D	.	.	118	50	51	0	.	95
STXBP1	6812	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	130442485	130442485	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	STXBP1	NM_001032221	exon17	c.C1511T	p.T504I	.	.	47	36	35	0	.	91
SYT12	91683	hgsc.bcm.edu	37	11	66807407	66807409	+	In_Frame_Del	DEL	GGA	GGA	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SYT12	NM_001177880	exon4	c.354_356del	p.118_119del	.	.	66	0	47	0	.	91
SYT12	91683	hgsc.bcm.edu	37	11	66807408	66807408	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SYT12	NM_001177880	exon4	c.G355T	p.E119X	.	.	69	24	47	0	.	91
SYT12	91683	hgsc.bcm.edu;bcgsc.ca	37	11	66807409	66807409	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SYT12	NM_001177880	exon4	c.A356C	p.E119A	.	.	72	24	47	0	.	91
SYT12	91683	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	66807406	66807406	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	SYT12	NM_001177880	exon4	c.353delG	p.R118fs	.	.	68	21	48	0	.	91
TBC1D26	353149	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	15642108	15642108	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TBC1D26	NM_178571	exon8	c.A461G	p.Q154R	.	.	215	111	189	0	.	90
TCHH	7062	bcgsc.ca	37	1	152083665	152083665	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TCHH	NM_007113	exon3	c.T2028G	p.H676Q	.	.	363	30	125	1	.	72
TCHHL1	126637	broad.mit.edu	37	1	152058982	152058982	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TCHHL1	NM_001008536	exon3	c.A1176G	p.K392K	.	.	958	9	328	0	.	92
TCTN3	26123	broad.mit.edu	37	10	97440367	97440367	+	Splice_Site	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TCTN3	NM_015631	exon14	c.1453-1G>A	.	.	.	84	4	49	0	.	22
TG	7038	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	133925494	133925494	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TG	NM_003235	exon20	c.G4362C	p.Q1454H	.	.	148	53	52	0	.	145
THOC5	8563	ucsc.edu	37	22	29913059	29913059	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	THOC5	NM_001002878	exon18	c.A1640G	p.D547G	.	.	173	34	82	2	.	585
TMEM131	23505	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	98373568	98373568	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TMEM131	NM_015348	exon41	c.G5646C	p.E1882D	.	.	105	37	46	1	.	74
TMPO	7112	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	98938128	98938128	+	Splice_Site	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TMPO	NM_001032283	exon5	c.783+1G>C	.	.	.	140	51	65	0	.	93
TNFRSF21	27242	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	47252058	47252058	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TNFRSF21	NM_014452	exon3	c.G859A	p.D287N	.	.	418	170	191	1	.	227
TNIP3	79931	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	122085259	122085259	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TNIP3	NM_001244764	exon4	c.A253G	p.T85A	.	.	162	55	66	0	.	91
TNRC6B	23112	mdanderson.org	37	22	40642092	40642092	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TNRC6B	NM_001024843	exon5	c.G187A	p.E63K	.	.	144	33	85	3	.	22
TNXB	7148	broad.mit.edu	37	6	32040012	32040012	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TNXB	NM_019105	exon13	c.A4745G	p.E1582G	.	.	172	15	62	2	.	90
TNXB	7148	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	32035476	32035476	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TNXB	NM_019105	exon18	c.G6506A	p.G2169E	.	.	157	73	74	1	.	90
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	7578211	7578211	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	TP53,NS,carcinoma,-1	TP53	NM_000546	exon6	c.G638A	p.R213Q	.	.	90	57	76	0	.	70225
TPR	7175	hgsc.bcm.edu	37	1	186303575	186303576	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TPR	NM_003292	exon36	c.5064_5065insG	p.G1688fs	.	.	951	73	304	0	.	228
TPTE2P6	374491	broad.mit.edu	37	13	25168489	25168489	+	RNA	SNP	G	G	A	rs200109937		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	.	.	.	.	.	.	88	10	45	1	.	.
TPTE2P6	374491	broad.mit.edu	37	13	25168501	25168501	+	RNA	SNP	G	G	A	rs4770716	byfrequency	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	.	.	.	.	.	.	87	10	46	0	G|0.789;A|0.211	.
TRAK1	22906	hgsc.bcm.edu	37	3	42251577	42251577	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TRAK1	NM_001265608	exon14	c.C2063A	p.T688K	.	.	61	4	44	0	.	91
TRIM13	10206	hgsc.bcm.edu	37	13	50589145	50589146	+	RNA	INS	-	-	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TRIM13	.	.	.	.	.	.	53	18	28	0	.	228
TRIOBP	11078	broad.mit.edu	37	22	38120095	38120095	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TRIOBP	NM_001039141	exon7	c.G1532A	p.R511K	.	.	453	7	273	1	.	136
TRPA1	8989	broad.mit.edu;bcgsc.ca	37	8	72981380	72981380	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TRPA1	NM_007332	exon3	c.A322G	p.K108E	.	.	314	8	126	0	.	230
TRPM3	80036	ucsc.edu	37	9	73152220	73152220	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TRPM3	NM_001007471	exon25	c.A3773G	p.D1258G	.	.	46	4	65	1	.	521
TRRAP	8295	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	98506458	98506458	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TRRAP	NM_001244580	exon14	c.A1223G	p.D408G	.	.	132	38	45	0	.	923
TTLL11	158135	hgsc.bcm.edu	37	9	124855337	124855337	+	Missense_Mutation	SNP	C	C	T	rs201124286		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TTLL11	NM_001139442	exon1	c.G361A	p.E121K	.	.	5	4	11	0	.	112
TTN	7273	hgsc.bcm.edu	37	2	179633434	179633435	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	TTN	NM_001267550	exon38	c.9129_9130insG	p.G3043fs	.	.	257	26	93	0	.	636
UBA2	10054	broad.mit.edu	37	19	34954974	34954974	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	UBA2	NM_005499	exon15	c.C1542T	p.G514G	.	.	254	7	141	0	.	227
UBR4	23352	broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	19511591	19511591	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	UBR4	NM_020765	exon16	c.1938+2T>C	.	.	.	97	45	63	1	.	612
USP47	55031	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	11964527	11964527	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	USP47	NM_017944	exon19	c.G2755T	p.D919Y	.	.	152	62	88	0	.	660
UTP3	57050	bcgsc.ca	37	4	71554788	71554788	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	UTP3	NM_020368	exon1	c.A394G	p.R132G	.	.	75	4	59	1	.	226
VAV2	7410	ucsc.edu;bcgsc.ca	37	9	136650970	136650970	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	VAV2	NM_001134398	exon17	c.A1460G	p.K487R	.	.	49	4	45	0	.	1273
VIM	7431	hgsc.bcm.edu;broad.mit.edu	37	10	17277290	17277291	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	VIM	NM_003380	exon7	c.1131_1132insC	p.A377fs	.	.	126	9	63	0	.	291
VPS16	64601	bcgsc.ca	37	20	2846064	2846064	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	VPS16	NM_022575	exon22	c.A2194G	p.T732A	.	.	66	4	49	0	.	94
VPS33A	65082	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	12	122745969	122745969	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	VPS33A	NM_022916	exon4	c.G322C	p.D108H	.	.	127	43	61	0	.	91
WDR49	151790	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	167246878	167246878	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	WDR49	NM_178824	exon10	c.G1312A	p.G438R	.	.	273	93	140	0	.	155
XAB2	56949	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	19	7687527	7687527	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	XAB2	NM_020196	exon11	c.C1392T	p.A464A	.	.	17	8	16	0	.	272
ZCCHC2	54877	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	60241883	60241883	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZCCHC2	NM_017742	exon13	c.T2569G	p.F857V	.	.	260	88	127	1	.	432
ZCCHC4	29063	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	25353268	25353268	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZCCHC4	NM_024936	exon8	c.G968T	p.R323L	.	.	343	134	123	0	.	70
ZFX	7543	hgsc.bcm.edu;bcgsc.ca	37	X	24227055	24227104	+	Frame_Shift_Del	DEL	GCAAGTGCCCTCTTGCACATAGATGAGTCTGCTGGCCTCGGCAGACTGGC	GCAAGTGCCCTCTTGCACATAGATGAGTCTGCTGGCCTCGGCAGACTGGC	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	GCAAGTGCCCTCTTGCACATAGATGAGTCTGCTGGCCTCGGCAGACTGGC	GCAAGTGCCCTCTTGCACATAGATGAGTCTGCTGGCCTCGGCAGACTGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZFX	NM_003410	exon9	c.1132_1181del	p.378_394del	.	.	65	18	107	0	.	132
ZNF142	7701	hgsc.bcm.edu	37	2	219509578	219509579	+	Frame_Shift_Ins	INS	-	-	GG	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF142	NM_001105537	exon8	c.1661_1662insCC	p.R554fs	.	.	230	0	119	0	.	137
ZNF208	7757	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	19	22156136	22156136	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF208	NM_007153	exon4	c.C1700A	p.T567N	.	.	56	20	22	0	.	7
ZNF223	7766	bcgsc.ca	37	19	44570475	44570475	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF223	NM_013361	exon5	c.T494C	p.L165P	.	.	181	6	90	0	.	91
ZNF2	7549	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	95847630	95847630	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF2	NM_021088	exon5	c.G1057T	p.D353Y	.	.	119	54	54	0	.	90
ZNF285	26974	bcgsc.ca	37	19	44890654	44890654	+	Missense_Mutation	SNP	C	C	T	rs149238831	byfrequency	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF285	NM_152354	exon4	c.G1753A	p.E585K	.	.	314	32	121	5	C|0.996;T|0.004	94
ZNF285	26974	bcgsc.ca	37	19	44891003	44891003	+	Silent	SNP	G	G	A	rs201302972		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF285	NM_152354	exon4	c.C1404T	p.S468S	.	.	295	11	108	1	G|0.998;A|0.002	94
ZNF285	26974	bcgsc.ca	37	19	44891010	44891010	+	Missense_Mutation	SNP	G	G	C	rs150792548	byfrequency	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF285	NM_152354	exon4	c.C1397G	p.A466G	.	.	311	13	108	1	A|0.000;C|0.002;G|0.998	94
ZNF28	7576	broad.mit.edu;bcgsc.ca	37	19	53304625	53304625	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF28	NM_006969	exon4	c.G473T	p.G158V	.	.	403	14	183	0	.	91
ZNF28	7576	hgsc.bcm.edu;bcgsc.ca	37	19	53303182	53303182	+	Missense_Mutation	SNP	T	T	C	rs75548544		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF28	NM_006969	exon4	c.A1916G	p.E639G	.	.	249	11	99	0	.	91
ZNF354A	6940	broad.mit.edu;bcgsc.ca	37	5	178140116	178140116	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF354A	NM_005649	exon5	c.763delT	p.S255fs	.	.	245	34	165	0	.	93
ZNF354A	6940	broad.mit.edu;bcgsc.ca	37	5	178140121	178140122	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF354A	NM_005649	exon5	c.758_759insC	p.Q253fs	.	.	250	34	166	0	.	93
ZNF436	80818	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	23689653	23689653	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF436	NM_001077195	exon4	c.A222G	p.Q74Q	.	.	279	121	120	0	.	153
ZNF490	57474	bcgsc.ca	37	19	12692095	12692095	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF490	NM_020714	exon5	c.T794C	p.L265P	.	.	91	5	46	0	.	90
ZNF536	9745	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	19	30936253	30936254	+	Frame_Shift_Ins	INS	-	-	AAGT	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF536	NM_014717	exon2	c.1784_1785insAAGT	p.P595fs	.	.	70	12	52	0	.	144
ZNF608	57507	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	123982848	123982848	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF608	NM_020747	exon4	c.T3229A	p.S1077T	.	.	291	111	148	0	.	229
ZNF679	168417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	63726562	63726562	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF679	NM_153363	exon5	c.T551G	p.F184C	.	.	428	230	196	0	.	1
ZNF682	91120	broad.mit.edu	37	19	20117808	20117808	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF682	NM_033196	exon4	c.C503T	p.T168I	.	.	291	5	112	2	.	92
ZNF700	90592	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	19	12059506	12059506	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF700	NM_001271848	exon4	c.A676T	p.K226X	.	.	189	79	106	0	.	90
ZNF736	728927	broad.mit.edu	37	7	63796704	63796704	+	Missense_Mutation	SNP	C	C	T	rs183210467	by1000genomes	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_001170905	exon3	c.C71T	p.A24V	.	.	249	9	69	0	C|0.999;T|0.000	.
ZNF790	388536	bcgsc.ca	37	19	37309479	37309479	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	ZNF790	NM_206894	exon5	c.T1767C	p.C589C	.	.	261	7	101	0	.	92
ZNF845	91664	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	53856410	53856410	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	NM_138374	exon4	c.G2482A	p.E828K	.	.	197	96	109	0	.	.
KRTAP5-10	387273	bcgsc.ca	37	11	71276957	71276958	+	Missense_Mutation	DNP	GG	GG	CT	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	GG	GG	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	.	.	.	p.G109C	.	.	.	.	.	.	.	
NUFIP1P	89761	bcgsc.ca	37	6	66803767	66803768	+	RNA	DNP	GT	GT	AG	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A16Z-10	GT	GT	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	cc5b70cb-4799-4d23-86d6-30f9aec7989a	.	.	.	.	.	.	.	.	.	.	.	.	.	
