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
AADACL3	126767	bcgsc.ca	37	1	12780887	12780887	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	AADACL3	NM_001103170	exon3	c.A217G	p.T73A	.	.	70	5	43	1	.	22
ABCA8	10351	hgsc.bcm.edu;bcgsc.ca	37	17	66879991	66879991	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ABCA8	NM_007168	exon27	c.T3528C	p.T1176T	.	.	111	5	104	0	.	93
ABHD12	26090	hgsc.bcm.edu;bcgsc.ca	37	20	25300910	25300910	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ABHD12	NM_001042472	exon4	c.A467G	p.D156G	.	.	81	4	64	0	.	91
ACACA	31	hgsc.bcm.edu	37	17	35766386	35766386	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ACACA	NM_198834	exon1	c.T4C	p.W2R	.	.	85	4	85	0	.	154
ACIN1	22985	hgsc.bcm.edu	37	14	23532238	23532238	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ACIN1	NM_014977	exon14	c.A2957G	p.K986R	.	.	82	4	71	0	.	156
ADAMTS9	56999	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	64617541	64617541	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ADAMTS9	NM_182920	exon15	c.G2236C	p.G746R	.	.	122	46	104	0	.	230
ADCY9	115	hgsc.bcm.edu	37	16	4039054	4039054	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ADCY9	NM_001116	exon6	c.A2251G	p.S751G	.	.	37	4	54	0	.	139
ADSS	159	hgsc.bcm.edu	37	1	244574699	244574699	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ADSS	NM_001126	exon12	c.A1208G	p.K403R	.	.	89	4	78	0	.	229
AFTPH	54812	bcgsc.ca	37	2	64819032	64819032	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	AFTPH	NM_203437	exon10	c.A2674G	p.R892G	.	.	69	4	40	0	.	70
AKR1D1	6718	hgsc.bcm.edu	37	7	137782670	137782670	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	AKR1D1	NM_001190907	exon4	c.A437G	p.N146S	.	.	52	4	29	0	.	91
ALAS1	211	ucsc.edu	37	3	52238757	52238757	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ALAS1	NM_000688	exon6	c.A626G	p.E209G	.	.	36	4	17	0	.	93
ALMS1	7840	hgsc.bcm.edu	37	2	73799567	73799567	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ALMS1	NM_015120	exon16	c.A10560G	p.K3520K	.	.	96	4	83	0	.	142
ALS2CR8	79800	hgsc.bcm.edu;bcgsc.ca	37	2	203834662	203834662	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ALS2CR8	NM_024744	exon11	c.A974G	p.Q325R	.	.	72	4	112	0	.	136
AMMECR1	9949	broad.mit.edu;bcgsc.ca	37	X	109459819	109459819	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	AMMECR1	NM_015365	exon3	c.A626G	p.E209G	.	.	206	8	194	0	.	130
ANKRD12	23253	hgsc.bcm.edu;bcgsc.ca	37	18	9255794	9255794	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ANKRD12	NM_015208	exon9	c.A2529G	p.K843K	.	.	86	4	66	0	.	92
ANKRD26	22852	hgsc.bcm.edu;broad.mit.edu	37	10	27349321	27349321	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ANKRD26	NM_014915	exon15	c.T1517C	p.V506A	.	.	124	5	88	0	.	138
ANKRD34C	390616	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	15	79587136	79587136	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001146341	exon2	c.A1510T	p.R504X	.	.	60	36	52	0	.	.
ANKS6	203286	hgsc.bcm.edu	37	9	101544811	101544811	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ANKS6	NM_173551	exon5	c.T1157C	p.V386A	.	.	90	4	81	0	.	92
AP1AR	55435	hgsc.bcm.edu	37	4	113187842	113187842	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	AP1AR	NM_018569	exon9	c.T613C	p.S205P	.	.	92	4	125	0	.	90
AP2A2	161	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	11	992671	992671	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	AP2A2	NM_001242837	exon11	c.A1441T	p.K481X	.	.	155	65	118	0	.	90
AP3B1	8546	hgsc.bcm.edu;bcgsc.ca	37	5	77471657	77471657	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	AP3B1	NM_003664	exon10	c.T1046C	p.V349A	.	.	85	4	60	0	.	90
AQR	9716	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	35222481	35222481	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	AQR	NM_014691	exon12	c.A992T	p.Y331F	.	.	35	10	27	0	.	135
AR	367	bcgsc.ca	37	X	66765152	66765152	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	AR	NM_000044	exon1	c.T164A	p.L55Q	.	.	89	10	61	0	.	661
AR	367	bcgsc.ca	37	X	66765155	66765155	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	AR	NM_000044	exon1	c.T167A	p.L56Q	.	.	94	17	59	0	.	661
ARHGAP32	9743	hgsc.bcm.edu	37	11	128932193	128932193	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ARHGAP32	NM_001142685	exon9	c.A903G	p.R301R	.	.	33	4	42	0	.	231
ARHGEF17	9828	hgsc.bcm.edu	37	11	73020389	73020389	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ARHGEF17	NM_014786	exon1	c.A706T	p.I236F	.	.	226	13	160	0	.	227
ARID1B	57492	hgsc.bcm.edu;bcgsc.ca	37	6	157256613	157256613	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ARID1B	NM_020732	exon5	c.A1940G	p.E647G	.	.	73	4	99	0	.	154
ARID2	196528	hgsc.bcm.edu;bcgsc.ca	37	12	46231166	46231166	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ARID2	NM_152641	exon9	c.T1086C	p.C362C	.	.	84	4	73	0	.	100
ARMC8	25852	hgsc.bcm.edu	37	3	137960687	137960687	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ARMC8	NM_213654	exon12	c.A858G	p.G286G	.	.	93	4	76	0	.	90
ASMTL	8623	hgsc.bcm.edu	37	X	1522164	1522164	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ASMTL	NM_004192	exon13	c.T1864G	p.X622G	.	.	81	8	66	0	.	62
ATP7B	540	hgsc.bcm.edu;bcgsc.ca	37	13	52532539	52532539	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ATP7B	NM_000053	exon8	c.A2263G	p.K755E	.	.	88	5	99	0	.	92
ATRX	546	hgsc.bcm.edu	37	X	76812950	76812950	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ATRX	NM_000489	exon30	c.A6671G	p.K2224R	.	.	98	4	80	0	.	248
ATRX	546	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	76856034	76856034	+	Splice_Site	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ATRX	NM_000489	exon24	c.5567-1G>A	.	.	.	104	47	92	0	.	248
AVL9	23080	hgsc.bcm.edu	37	7	32609744	32609744	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	AVL9	NM_015060	exon11	c.A1328G	p.H443R	.	.	123	5	91	0	.	90
BACH2	60468	hgsc.bcm.edu	37	6	90661469	90661469	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	BACH2	NM_021813	exon7	c.A356G	p.H119R	.	.	95	4	105	0	.	231
BAZ1A	11177	hgsc.bcm.edu;bcgsc.ca	37	14	35272095	35272095	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	BAZ1A	NM_182648	exon7	c.A826G	p.R276G	.	.	68	4	39	0	.	291
BCAN	63827	hgsc.bcm.edu	37	1	156622302	156622302	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	BCAN	NM_198427	exon8	c.A1560G	p.S520S	.	.	78	4	48	0	.	516
BDH2	56898	hgsc.bcm.edu;bcgsc.ca	37	4	104013835	104013835	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	BDH2	NM_020139	exon4	c.T170C	p.L57P	.	.	135	6	199	0	.	90
BDP1	55814	bcgsc.ca	37	5	70805435	70805435	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	BDP1	NM_018429	exon17	c.T2516C	p.V839A	.	.	65	4	56	0	.	92
BIN2	51411	hgsc.bcm.edu;bcgsc.ca	37	12	51693495	51693495	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	BIN2	NM_016293	exon6	c.A412G	p.R138G	.	.	71	4	39	0	.	91
BRCA1	672	broad.mit.edu;bcgsc.ca	37	17	41246664	41246664	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	BRCA1	NM_007300	exon10	c.A884G	p.D295G	.	.	227	6	151	0	.	3415
BRCA2	675	hgsc.bcm.edu	37	13	32912226	32912226	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	BRCA2	NM_000059	exon11	c.A3734G	p.E1245G	.	.	39	4	39	0	.	3153
BRD2	6046	hgsc.bcm.edu	37	6	32946061	32946061	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	BRD2	NM_005104	exon10	c.C1737T	p.P579P	.	.	98	4	60	0	.	398
BRD3	8019	bcgsc.ca	37	9	136913221	136913221	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	BRD3	NM_007371	exon6	c.A1070G	p.D357G	.	.	178	6	124	1	.	377
C11orf30	56946	hgsc.bcm.edu	37	11	76227256	76227256	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	C11orf30	NM_020193	exon11	c.T1584C	p.A528A	.	.	95	4	68	0	.	232
C14orf166B	145497	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	14	77292857	77292857	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_194287	exon1	c.T19C	p.S7P	.	.	73	5	83	0	.	.
C16orf13	84326	ucsc.edu;bcgsc.ca	37	16	684744	684744	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	C16orf13	NM_032366	exon5	c.C542T	p.A181V	.	.	38	4	62	0	.	22
C19orf33	64073	hgsc.bcm.edu	37	19	38795590	38795590	+	Missense_Mutation	SNP	G	G	A	rs199853866		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	C19orf33	NM_033520	exon4	c.G307A	p.E103K	.	.	211	22	159	0	.	90
C2CD3	26005	hgsc.bcm.edu	37	11	73785299	73785299	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	C2CD3	NM_015531	exon24	c.A4950G	p.K1650K	.	.	100	4	89	0	.	75
C5orf47	133491	broad.mit.edu;bcgsc.ca	37	5	173416434	173416434	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001144954	exon1	c.A168G	p.E56E	.	.	138	5	127	0	.	.
C7orf43	55262	hgsc.bcm.edu	37	7	99755336	99755336	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	C7orf43	NM_018275	exon3	c.A557G	p.D186G	.	.	95	4	62	0	.	90
C9orf142	286257	ucsc.edu	37	9	139887588	139887588	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	C9orf142	NM_183241	exon4	c.T314C	p.L105P	.	.	40	4	27	0	.	68
C9orf85	138241	hgsc.bcm.edu;bcgsc.ca	37	9	74561974	74561974	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	C9orf85	NM_182505	exon2	c.T155C	p.L52P	.	.	81	4	61	0	.	90
CAB39L	81617	hgsc.bcm.edu;bcgsc.ca	37	13	49913821	49913821	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CAB39L	NM_030925	exon7	c.T682C	p.S228P	.	.	92	4	126	0	.	90
CADPS	8618	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	62385129	62385129	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CADPS	NM_003716	exon30	c.G4014A	p.Q1338Q	.	.	119	45	132	0	.	281
CAMTA1	23261	hgsc.bcm.edu	37	1	7151365	7151365	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CAMTA1	NM_015215	exon4	c.A236G	p.E79G	.	.	96	4	78	0	.	520
CATSPERD	257062	hgsc.bcm.edu;bcgsc.ca	37	19	5737210	5737210	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_152784	exon6	c.T453C	p.F151F	.	.	60	4	77	0	.	.
CCDC122	160857	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	44433973	44433973	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CCDC122	NM_144974	exon5	c.A390G	p.A130A	.	.	49	35	63	0	.	90
CCDC150	284992	hgsc.bcm.edu	37	2	197540964	197540964	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001080539	exon11	c.A1235G	p.N412S	.	.	100	4	120	0	.	.
CCDC158	339965	hgsc.bcm.edu;bcgsc.ca	37	4	77247091	77247091	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CCDC158	NM_001042784	exon22	c.A3076G	p.T1026A	.	.	80	4	60	0	.	96
CCDC3	83643	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	13040436	13040436	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CCDC3	NM_031455	exon2	c.A451G	p.R151G	.	.	94	26	83	0	.	91
CCDC83	220047	hgsc.bcm.edu	37	11	85627242	85627242	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CCDC83	NM_173556	exon11	c.A1139G	p.K380R	.	.	62	4	91	0	.	91
CCDC88A	55704	hgsc.bcm.edu	37	2	55562103	55562103	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CCDC88A	NM_018084	exon15	c.A1854G	p.E618E	.	.	99	4	83	0	.	94
CCHCR1	54535	broad.mit.edu	37	6	31118522	31118522	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CCHCR1	NM_001105564	exon6	c.A1081G	p.K361E	.	.	171	5	109	0	.	91
CCIN	881	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	36169807	36169807	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CCIN	NM_005893	exon1	c.A308T	p.E103V	.	.	126	46	104	0	.	92
CCNF	899	hgsc.bcm.edu;bcgsc.ca	37	16	2487180	2487180	+	Missense_Mutation	SNP	C	C	T	rs138913390		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CCNF	NM_001761	exon5	c.C397T	p.R133C	.	.	58	4	47	0	C|1.000;T|0.000	658
CCSER1	401145	bcgsc.ca	37	4	91389505	91389505	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001145065	exon5	c.A1724G	p.Q575R	.	.	35	3	68	0	.	.
CD48	962	hgsc.bcm.edu	37	1	160648863	160648863	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CD48	NM_001778	exon4	c.T711C	p.I237I	.	.	85	4	63	0	.	90
CDC23	8697	hgsc.bcm.edu;bcgsc.ca	37	5	137537070	137537070	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CDC23	NM_004661	exon5	c.A483G	p.K161K	.	.	72	4	75	0	.	226
CDH5	1003	hgsc.bcm.edu	37	16	66423413	66423413	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CDH5	NM_001795	exon5	c.T769C	p.F257L	.	.	75	4	84	0	.	525
CDHR4	389118	hgsc.bcm.edu;bcgsc.ca	37	3	49832387	49832387	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001007540	exon9	c.T1178C	p.V393A	.	.	73	5	60	0	.	.
CERS6	253782	hgsc.bcm.edu	37	2	169626076	169626076	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001256126	exon11	c.A1083G	p.E361E	.	.	86	4	59	0	.	.
CHKA	1119	hgsc.bcm.edu;bcgsc.ca	37	11	67821492	67821492	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CHKA	NM_001277	exon12	c.A1337G	p.D446G	.	.	82	4	69	0	.	91
CHN1	1123	hgsc.bcm.edu	37	2	175673733	175673733	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CHN1	NM_001822	exon11	c.A1002G	p.E334E	.	.	93	4	129	0	.	631
CKAP5	9793	hgsc.bcm.edu	37	11	46819406	46819406	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CKAP5	NM_001008938	exon11	c.T1287C	p.A429A	.	.	100	4	69	0	.	92
CLCA4	22802	hgsc.bcm.edu	37	1	87025972	87025972	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CLCA4	NM_012128	exon3	c.A379G	p.K127E	.	.	91	4	52	0	.	92
CLCA4	22802	hgsc.bcm.edu	37	1	87038340	87038340	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CLCA4	NM_012128	exon9	c.C1404T	p.G468G	.	.	98	4	109	0	.	92
CLEC14A	161198	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	14	38725216	38725216	+	Silent	SNP	C	C	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CLEC14A	NM_175060	exon1	c.G12T	p.A4A	.	.	85	46	38	0	.	94
CLECL1	160365	hgsc.bcm.edu	37	12	9885713	9885713	+	Missense_Mutation	SNP	A	A	T	rs200639830		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CLECL1	NM_001267701	exon1	c.T148A	p.Y50N	.	.	102	6	56	0	.	90
CLIC6	54102	hgsc.bcm.edu	37	21	36081737	36081737	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CLIC6	NM_053277	exon5	c.C1800T	p.Y600Y	.	.	61	4	52	0	.	91
CNBD2	140894	hgsc.bcm.edu	37	20	34611572	34611572	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_080834	exon11	c.T1306C	p.L436L	.	.	95	4	71	0	.	.
CNST	163882	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	246754974	246754974	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CNST	NM_152609	exon2	c.A110T	p.D37V	.	.	143	45	119	0	.	90
COBL	23242	hgsc.bcm.edu	37	7	51098573	51098573	+	Missense_Mutation	SNP	T	T	A	rs76265922	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	COBL	NM_015198	exon9	c.A1440T	p.E480D	.	.	129	7	98	0	T|0.988;A|0.012	95
COL11A1	1301	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	103481268	103481268	+	Missense_Mutation	SNP	C	C	A	rs150428394	alternate_allele	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	COL11A1	NM_080629	exon12	c.G1480T	p.A494S	.	.	129	45	134	0	C|1.000;T|0.000	586
COL5A3	50509	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	10112330	10112330	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	COL5A3	NM_015719	exon8	c.A980G	p.D327G	.	.	99	39	71	0	.	99
COMMD4	54939	bcgsc.ca	37	15	75628300	75628300	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	COMMD4	.	.	.	.	.	.	78	49	38	0	.	90
COX4I2	84701	ucsc.edu	37	20	30227800	30227800	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	COX4I2	NM_032609	exon3	c.A147G	p.P49P	.	.	38	4	15	0	.	227
CPEB1	64506	hgsc.bcm.edu	37	15	83296065	83296065	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CPEB1	NM_030594	exon2	c.T69C	p.A23A	.	.	87	4	57	0	.	136
CREB3L2	64764	hgsc.bcm.edu	37	7	137612918	137612918	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CREB3L2	NM_001253775	exon2	c.C297T	p.T99T	.	.	360	23	186	0	.	92
CRIP1	1396	bcgsc.ca	37	14	105954536	105954536	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CRIP1	NM_001311	exon3	c.A74G	p.H25R	.	.	59	4	113	0	.	90
CTDSP1	58190	hgsc.bcm.edu	37	2	219266306	219266306	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CTDSP1	NM_001206878	exon2	c.T87C	p.A29A	.	.	87	4	125	0	.	91
CTSA	5476	hgsc.bcm.edu	37	20	44520240	44520240	+	Silent	SNP	G	G	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CTSA	NM_000308	exon2	c.G87C	p.L29L	.	.	67	4	22	0	.	91
CTSG	1511	hgsc.bcm.edu	37	14	25044539	25044539	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CTSG	NM_001911	exon2	c.T135C	p.G45G	.	.	82	4	68	0	.	92
CX3CR1	1524	broad.mit.edu	37	3	39307904	39307904	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CX3CR1	NM_001171174	exon2	c.T193C	p.F65L	.	.	188	5	147	0	.	658
CYFIP2	26999	hgsc.bcm.edu	37	5	156721863	156721863	+	Silent	SNP	T	T	C	rs200051515		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CYFIP2	NM_001037332	exon4	c.T279C	p.I93I	.	.	199	3	185	0	.	22
CYSLTR2	57105	hgsc.bcm.edu	37	13	49281801	49281801	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	CYSLTR2	NM_020377	exon1	c.T848C	p.L283P	.	.	71	4	88	0	.	278
DAB1	1600	hgsc.bcm.edu;bcgsc.ca	37	1	57480890	57480890	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DAB1	NM_021080	exon14	c.A1110G	p.Q370Q	.	.	64	5	41	0	.	93
DAPK2	23604	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	15	64275877	64275877	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DAPK2	NM_014326	exon3	c.C169T	p.R57W	.	.	108	20	39	0	.	333
DDX23	9416	hgsc.bcm.edu	37	12	49226344	49226344	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DDX23	NM_004818	exon14	c.A1816G	p.T606A	.	.	73	4	53	0	.	539
DEFB126	81623	hgsc.bcm.edu	37	20	126160	126160	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DEFB126	NM_030931	exon2	c.C163G	p.Q55E	.	.	115	6	91	0	.	90
DENND4B	9909	hgsc.bcm.edu	37	1	153907287	153907287	+	Missense_Mutation	SNP	G	G	C	rs199597671		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DENND4B	NM_014856	exon18	c.C2722G	p.Q908E	.	.	83	9	65	0	.	69
DERL1	79139	hgsc.bcm.edu;bcgsc.ca	37	8	124037286	124037286	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DERL1	NM_001134671	exon3	c.T270C	p.A90A	.	.	61	4	37	0	.	226
DHX37	57647	hgsc.bcm.edu	37	12	125435267	125435267	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DHX37	NM_032656	exon22	c.A2952G	p.E984E	.	.	95	4	62	0	.	227
DHX37	57647	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	125451369	125451369	+	Silent	SNP	T	T	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DHX37	NM_032656	exon12	c.A1560T	p.S520S	.	.	168	69	155	0	.	227
DMXL1	1657	bcgsc.ca	37	5	118510990	118510990	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DMXL1	NM_005509	exon26	c.C6716T	p.S2239F	.	.	64	4	71	0	.	92
DNAH6	1768	bcgsc.ca	37	2	84831616	84831616	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DNAH6	NM_001370	exon19	c.A3022G	p.I1008V	.	.	61	4	56	1	.	69
DNM1P46	196968	bcgsc.ca	37	15	100340413	100340413	+	RNA	SNP	C	C	T	rs75484537	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	.	.	.	.	.	.	19	18	7	0	C|0.784;T|0.216	.
DOT1L	84444	bcgsc.ca	37	19	2213638	2213638	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DOT1L	NM_032482	exon17	c.A1658G	p.E553G	.	.	64	5	52	1	.	132
DOT1L	84444	hgsc.bcm.edu	37	19	2216382	2216382	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DOT1L	NM_032482	exon20	c.A2026G	p.K676E	.	.	106	5	70	0	.	132
DPP8	54878	hgsc.bcm.edu	37	15	65739300	65739300	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DPP8	NM_197960	exon21	c.A2619G	p.G873G	.	.	112	5	50	0	.	91
DSPP	1834	hgsc.bcm.edu	37	4	88535745	88535745	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DSPP	NM_014208	exon5	c.A1931G	p.D644G	.	.	110	6	159	0	.	90
DYNAP	284254	bcgsc.ca	37	18	52265216	52265216	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_173629	exon3	c.T473C	p.V158A	.	.	66	4	101	1	.	.
DYNC2LI1	51626	hgsc.bcm.edu;bcgsc.ca	37	2	44032355	44032355	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DYNC2LI1	NM_001193464	exon12	c.A966G	p.E322E	.	.	119	6	99	0	.	91
DYSF	8291	ucsc.edu	37	2	71730415	71730415	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	DYSF	NM_001130984	exon4	c.C311G	p.A104G	.	.	73	1	64	0	.	158
E2F4	1874	hgsc.bcm.edu	37	16	67229817	67229817	+	Missense_Mutation	SNP	G	G	A	rs140980388		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	E2F4	NM_001950	exon7	c.G941A	p.S314N	.	.	84	15	53	0	G|1.000;A|0.000	414
E2F4	1874	hgsc.bcm.edu	37	16	67229823	67229823	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	E2F4	NM_001950	exon7	c.G947A	p.S316N	.	.	89	11	53	0	.	414
EBLN2	55096	hgsc.bcm.edu	37	3	73111481	73111481	+	Missense_Mutation	SNP	C	C	A	rs201649088		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_018029	exon1	c.C249A	p.N83K	.	.	76	4	64	0	.	.
EDC4	23644	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	67916365	67916365	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	EDC4	NM_014329	exon25	c.G3310A	p.D1104N	.	.	89	33	70	0	.	92
EFNA3	1944	hgsc.bcm.edu	37	1	155057650	155057650	+	Missense_Mutation	SNP	T	T	C	rs145094848	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	EFNA3	NM_004952	exon2	c.T212C	p.V71A	.	.	107	18	62	0	T|0.999;C|0.001	90
EFNA3	1944	hgsc.bcm.edu	37	1	155057654	155057654	+	Silent	SNP	C	C	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	EFNA3	NM_004952	exon2	c.C216A	p.G72G	.	.	97	7	61	0	.	90
EFNA3	1944	hgsc.bcm.edu	37	1	155057657	155057657	+	Silent	SNP	C	C	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	EFNA3	NM_004952	exon2	c.C219G	p.P73P	.	.	101	10	61	0	.	90
EHMT2	10919	ucsc.edu	37	6	31860325	31860325	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	EHMT2	NM_025256	exon7	c.T723C	p.G241G	.	.	45	4	23	0	.	91
EIF2AK3	9451	hgsc.bcm.edu;bcgsc.ca	37	2	88879055	88879055	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	EIF2AK3	NM_004836	exon11	c.A1867G	p.R623G	.	.	90	5	107	0	.	361
EMCN	51705	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	4	101396223	101396223	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	EMCN	NM_001159694	exon3	c.A231G	p.T77T	.	.	38	4	56	0	.	90
EN1	2019	mdanderson.org	37	2	119600803	119600803	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	EN1	NM_001426	exon2	c.A890G	p.K297R	.	.	17	3	19	0	.	154
EPC1	80314	hgsc.bcm.edu	37	10	32576101	32576101	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	EPC1	NM_001272004	exon7	c.T1077C	p.A359A	.	.	71	4	48	0	.	93
EPHX1	2052	hgsc.bcm.edu;bcgsc.ca	37	1	226016567	226016567	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	EPHX1	NM_001136018	exon2	c.A137G	p.D46G	.	.	99	5	84	0	.	281
EPPK1	83481	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	8	144944633	144944633	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	EPPK1	NM_031308	exon1	c.G2789A	p.G930E	.	.	35	12	14	0	.	25
ERCC4	2072	hgsc.bcm.edu;bcgsc.ca	37	16	14024746	14024746	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ERCC4	NM_005236	exon5	c.A972G	p.S324S	.	.	54	4	66	0	.	665
EXOC3	11336	bcgsc.ca	37	5	464476	464476	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	EXOC3	NM_007277	exon10	c.C1725T	p.T575T	.	.	60	4	45	0	.	90
FA2H	79152	hgsc.bcm.edu	37	16	74761274	74761274	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FA2H	NM_024306	exon3	c.A374G	p.D125G	.	.	53	4	41	0	.	90
FAM105A	54491	hgsc.bcm.edu	37	5	14609107	14609107	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	FAM105A,NS,carcinoma,+1	FAM105A	NM_019018	exon7	c.A878G	p.D293G	.	.	87	4	88	0	.	91
FAM131C	348487	ucsc.edu	37	1	16385007	16385007	+	Silent	SNP	C	C	T	rs28667975		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FAM131C	NM_182623	exon7	c.G768A	p.G256G	.	.	26	10	18	4	C|1.000;|0.000	514
FAM13B	51306	hgsc.bcm.edu	37	5	137354156	137354156	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001101800	exon4	c.A205G	p.T69A	.	.	97	4	95	0	.	.
FAM160B1	57700	hgsc.bcm.edu;bcgsc.ca	37	10	116605202	116605202	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FAM160B1	NM_020940	exon8	c.T1090C	p.F364L	.	.	80	4	78	0	.	91
FAM188B	84182	hgsc.bcm.edu;bcgsc.ca	37	7	30821784	30821784	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FAM188B	NM_032222	exon3	c.A375G	p.E125E	.	.	77	4	49	0	.	90
FAM205B	389715	broad.mit.edu	37	9	34835480	34835480	+	RNA	SNP	C	C	T	rs75725332	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	.	.	.	.	.	.	44	6	38	0	C|0.500;T|0.500	.
FAM73A	374986	hgsc.bcm.edu	37	1	78245387	78245387	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FAM73A	NM_001270384	exon1	c.T47C	p.V16A	.	.	90	4	49	0	.	91
FAM8A1	51439	bcgsc.ca	37	6	17602839	17602839	+	Missense_Mutation	SNP	C	C	T	rs77560474	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FAM8A1	NM_016255	exon2	c.C731T	p.P244L	.	.	47	6	34	0	C|0.979;T|0.021	90
FAM98A	25940	hgsc.bcm.edu;bcgsc.ca	37	2	33811687	33811687	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FAM98A	NM_015475	exon6	c.T662C	p.L221P	.	.	87	4	84	0	.	91
FANCG	2189	hgsc.bcm.edu	37	9	35077012	35077012	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FANCG	NM_004629	exon6	c.T733C	p.L245L	.	.	93	4	83	0	.	724
FANCM	57697	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	45623916	45623916	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FANCM	NM_020937	exon7	c.A1200G	p.K400K	.	.	75	23	68	0	.	569
FCHSD1	89848	hgsc.bcm.edu	37	5	141024179	141024179	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FCHSD1	NM_033449	exon16	c.A1603G	p.S535G	.	.	82	4	69	0	.	230
FKBP11	51303	hgsc.bcm.edu	37	12	49318403	49318403	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FKBP11	NM_016594	exon3	c.A224G	p.D75G	.	.	91	4	54	0	.	226
FKBP6	8468	hgsc.bcm.edu	37	7	72744311	72744311	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FKBP6	NM_003602	exon4	c.T424C	p.F142L	.	.	117	6	69	0	.	180
FLII	2314	hgsc.bcm.edu	37	17	18148691	18148691	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FLII	NM_002018	exon29	c.A3652G	p.K1218E	.	.	120	5	51	0	.	91
FMO3	2328	hgsc.bcm.edu	37	1	171061807	171061807	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FMO3	NM_006894	exon2	c.A8G	p.K3R	.	.	98	4	87	0	.	187
FN1	2335	hgsc.bcm.edu;bcgsc.ca	37	2	216264012	216264012	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FN1	NM_212476	exon21	c.A3316G	p.T1106A	.	.	84	4	78	0	.	584
FNBP4	23360	hgsc.bcm.edu	37	11	47788670	47788670	+	Silent	SNP	G	G	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FNBP4	NM_015308	exon1	c.C171G	p.T57T	.	.	8	5	5	0	.	91
FOXK1	221937	hgsc.bcm.edu	37	7	4794874	4794874	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	FOXK1	NM_001037165	exon4	c.T910C	p.S304P	.	.	59	4	42	0	.	516
GABRB3	2562	broad.mit.edu	37	15	26825508	26825508	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GABRB3	NM_021912	exon6	c.G640A	p.V214M	.	.	113	3	62	0	.	518
GAR1	54433	hgsc.bcm.edu	37	4	110739158	110739158	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GAR1	NM_018983	exon3	c.A281G	p.K94R	.	.	49	4	71	0	.	90
GHDC	84514	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	17	40342899	40342899	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GHDC	NM_001142623	exon7	c.C1105T	p.R369X	.	.	55	25	59	0	.	90
GLI2	2736	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	121748010	121748010	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GLI2	NM_005270	exon13	c.C4520A	p.A1507D	.	.	82	53	133	1	.	954
GLIPR1L2	144321	hgsc.bcm.edu	37	12	75816819	75816819	+	Missense_Mutation	SNP	G	G	C	rs77365041	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GLIPR1L2	NM_152436	exon4	c.G720C	p.K240N	.	.	58	6	35	0	G|0.872;C|0.128	91
GNPDA2	132789	hgsc.bcm.edu	37	4	44709828	44709828	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GNPDA2	NM_138335	exon6	c.T710C	p.F237S	.	.	89	4	74	0	.	91
GON4L	54856	bcgsc.ca	37	1	155733245	155733245	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GON4L	NM_001037533	exon22	c.G4584A	p.E1528E	.	.	105	12	112	4	.	93
GPR119	139760	hgsc.bcm.edu;bcgsc.ca	37	X	129518585	129518585	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GPR119	NM_178471	exon1	c.T837C	p.Y279Y	.	.	95	6	133	0	.	132
GPR52	9293	broad.mit.edu	37	1	174417292	174417292	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GPR52	NM_005684	exon1	c.A43G	p.S15G	.	.	328	6	252	0	.	91
GPSM2	29899	hgsc.bcm.edu	37	1	109465168	109465168	+	Missense_Mutation	SNP	T	T	A	rs201481482		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GPSM2	NM_013296	exon13	c.T1570A	p.S524T	.	.	109	5	85	0	.	227
GRAMD1C	54762	hgsc.bcm.edu	37	3	113601662	113601662	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GRAMD1C	NM_017577	exon6	c.A523G	p.N175D	.	.	87	4	92	0	.	93
GRASP	160622	hgsc.bcm.edu	37	12	52407934	52407934	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GRASP	NM_181711	exon7	c.A631G	p.K211E	.	.	99	4	74	0	.	91
GRIA4	2893	hgsc.bcm.edu	37	11	105774565	105774565	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GRIA4	NM_001077244	exon8	c.G911A	p.G304E	.	.	99	4	104	0	.	230
GRIK3	2899	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	37282833	37282833	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GRIK3	NM_000831	exon13	c.G1919T	p.G640V	.	.	188	72	127	0	.	158
GSTCD	79807	hgsc.bcm.edu	37	4	106763224	106763224	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	GSTCD,NS,carcinoma,+2	GSTCD	NM_001031720	exon11	c.A1698G	p.E566E	.	.	39	2	45	1	.	92
GSTP1	2950	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	67352159	67352159	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GSTP1	NM_000852	exon4	c.T148C	p.Y50H	.	.	116	48	92	0	.	91
GTF3C4	9329	hgsc.bcm.edu	37	9	135562687	135562687	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GTF3C4	NM_012204	exon4	c.A2377G	p.S793G	.	.	78	4	76	0	.	91
GUCY2C	2984	hgsc.bcm.edu	37	12	14829836	14829836	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GUCY2C	NM_004963	exon7	c.T900C	p.S300S	.	.	94	4	138	0	.	338
GUCY2C	2984	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	14840921	14840921	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	GUCY2C	NM_004963	exon2	c.C294A	p.S98R	.	.	34	25	53	0	.	338
HAX1	10456	hgsc.bcm.edu	37	1	154247645	154247645	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	HAX1	NM_006118	exon5	c.T572C	p.V191A	.	.	91	4	93	0	.	90
HCN1	348980	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	45303811	45303811	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	HCN1	NM_021072	exon6	c.T1508C	p.I503T	.	.	131	55	114	0	.	91
HGF	3082	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	81358964	81358964	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	HGF	NM_000601	exon8	c.T997C	p.Y333H	.	.	83	5	60	0	.	516
HIPK1	204851	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	114500750	114500750	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	HIPK1	NM_198268	exon8	c.T1818C	p.D606D	.	.	136	50	112	0	.	361
HIPK3	10114	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	33308924	33308924	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	HIPK3	NM_001048200	exon2	c.G964T	p.D322Y	.	.	98	43	113	1	.	336
HIPK4	147746	ucsc.edu;bcgsc.ca;mdanderson.org	37	19	40886742	40886742	+	Missense_Mutation	SNP	C	C	T	rs56365273	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	HIPK4	NM_144685	exon3	c.G1156A	p.A386T	.	.	74	28	59	0	C|0.988;T|0.012	334
HMGCR	3156	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	74645959	74645959	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	HMGCR	NM_001130996	exon7	c.T649G	p.S217A	.	.	200	72	156	1	.	227
HMX2	3167	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	10	124909334	124909334	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	HMX2	NM_005519	exon2	c.T517C	p.Y173H	.	.	82	37	66	0	.	90
HRC	3270	hgsc.bcm.edu	37	19	49657889	49657889	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	HRC	NM_002152	exon1	c.A606G	p.E202E	.	.	149	5	92	0	.	91
HRC	3270	hgsc.bcm.edu	37	19	49657916	49657916	+	Silent	SNP	T	T	C	rs7409255		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	HRC	NM_002152	exon1	c.A579G	p.E193E	.	.	157	11	88	0	.	91
HSPA1L	3305	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	31778417	31778417	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	HSPA1L	NM_005527	exon2	c.T1333C	p.Y445H	.	.	365	118	239	0	.	230
HSPB2	3316	broad.mit.edu;bcgsc.ca	37	11	111784335	111784335	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	HSPB2	NM_001541	exon2	c.A265G	p.T89A	.	.	51	4	79	0	.	659
IARS2	55699	hgsc.bcm.edu;bcgsc.ca	37	1	220276069	220276069	+	Silent	SNP	A	A	G	rs112842443		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	IARS2	NM_018060	exon7	c.A900G	p.Q300Q	.	.	76	4	65	0	A|0.500;G|0.500	94
IDO1	3620	hgsc.bcm.edu	37	8	39776332	39776332	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	IDO1	NM_002164	exon4	c.304-2A>G	.	.	.	60	4	71	0	.	227
IFNGR1	3459	hgsc.bcm.edu	37	6	137540422	137540422	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	IFNGR1	NM_000416	exon1	c.A43G	p.S15G	.	.	98	5	104	0	.	91
IL12A	3592	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	159711260	159711260	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	IL12A	NM_000882	exon4	c.G401C	p.R134T	.	.	112	45	115	0	.	90
IL34	146433	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	70688456	70688456	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	IL34	NM_152456	exon3	c.T44A	p.L15H	.	.	190	68	165	0	.	91
INADL	10207	hgsc.bcm.edu	37	1	62593700	62593700	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	INADL	NM_176877	exon40	c.A5100G	p.G1700G	.	.	86	4	62	0	.	94
INCENP	3619	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	11	61906200	61906200	+	Silent	SNP	A	A	G	rs150865728		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	INCENP	NM_001040694	exon6	c.A1131G	p.E377E	.	.	40	4	34	0	A|1.000;G|0.000	227
ING3	54556	hgsc.bcm.edu;bcgsc.ca	37	7	120607623	120607623	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ING3	NM_019071	exon7	c.T477C	p.D159D	.	.	87	4	54	0	.	515
INPP4B	8821	hgsc.bcm.edu	37	4	143067030	143067030	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	INPP4B	NM_003866	exon19	c.A1683G	p.E561E	.	.	91	4	107	0	.	228
INPP5A	3632	hgsc.bcm.edu;bcgsc.ca	37	10	134523851	134523851	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	INPP5A	NM_005539	exon8	c.538delT	p.L180fs	.	.	137	55	101	0	.	229
INTS2	57508	hgsc.bcm.edu	37	17	59984985	59984985	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	INTS2	NM_020748	exon8	c.A989G	p.E330G	.	.	121	5	96	0	.	206
IQSEC1	9922	hgsc.bcm.edu	37	3	12942853	12942853	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	IQSEC1	NM_001134382	exon14	c.T2975C	p.L992P	.	.	42	5	25	0	.	91
IQSEC2	23096	broad.mit.edu	37	X	53263500	53263500	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	IQSEC2	NM_001111125	exon15	c.C4368T	p.S1456S	.	.	68	3	63	1	.	178
ITGAL	3683	hgsc.bcm.edu;bcgsc.ca	37	16	30507878	30507878	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ITGAL	NM_002209	exon15	c.T1823C	p.I608T	.	.	119	6	81	0	.	994
KALRN	8997	bcgsc.ca	37	3	124385382	124385382	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KALRN	NM_001024660	exon46	c.A6429G	p.K2143K	.	.	158	6	124	1	.	738
KCNB2	9312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	73849087	73849087	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KCNB2	NM_004770	exon3	c.G1497A	p.L499L	.	.	48	12	17	0	.	158
KCNK17	89822	hgsc.bcm.edu	37	6	39281882	39281882	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	KCNK17,NS,malignant_melanoma,-1	KCNK17	NM_001135111	exon1	c.C215G	p.P72R	.	.	38	3	17	0	.	227
KCNK9	51305	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	140631049	140631049	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KCNK9	NM_016601	exon2	c.T577C	p.C193R	.	.	141	46	87	0	.	93
KCNT2	343450	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	196451495	196451495	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KCNT2	NM_198503	exon4	c.G290C	p.W97S	.	.	52	19	59	0	.	159
KCTD19	146212	hgsc.bcm.edu	37	16	67337084	67337084	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KCTD19	NM_001100915	exon4	c.T608C	p.L203P	.	.	111	5	99	0	.	69
KIAA0100	9703	hgsc.bcm.edu	37	17	26961916	26961916	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KIAA0100	NM_014680	exon16	c.A2689G	p.M897V	.	.	74	5	50	0	.	93
KIAA1462	57608	hgsc.bcm.edu;ucsc.edu	37	10	30317392	30317392	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KIAA1462	NM_020848	exon3	c.A1685G	p.Q562R	.	.	40	4	24	0	.	72
KIAA1683	80726	bcgsc.ca	37	19	18375376	18375376	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KIAA1683	NM_001145304	exon3	c.T2974C	p.C992R	.	.	69	4	74	0	.	92
KIF15	56992	hgsc.bcm.edu	37	3	44816758	44816758	+	Silent	SNP	T	T	C	rs34893204	alternate_allele	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KIF15	NM_020242	exon3	c.T75C	p.D25D	.	.	98	4	83	0	T|0.987;A|0.013	91
KIF27	55582	broad.mit.edu;ucsc.edu;bcgsc.ca	37	9	86504072	86504072	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KIF27	NM_017576	exon7	c.A1906G	p.K636E	.	.	172	63	136	1	.	523
KIF2A	3796	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	61669513	61669513	+	Splice_Site	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KIF2A	NM_001098511	exon18	c.1761-1G>A	.	.	.	85	40	63	0	.	228
KIF4B	285643	broad.mit.edu	37	5	154395756	154395756	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KIF4B	NM_001099293	exon1	c.T2337C	p.V779V	.	.	150	4	125	0	.	1
KIFAP3	22920	bcgsc.ca	37	1	169947323	169947323	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KIFAP3	NM_014970	exon16	c.T1800C	p.A600A	.	.	56	4	55	0	.	91
KLC4	89953	hgsc.bcm.edu	37	6	43039095	43039095	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KLC4	NM_201523	exon9	c.A1292G	p.E431G	.	.	106	5	79	0	.	94
KLHL7	55975	hgsc.bcm.edu	37	7	23145743	23145743	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KLHL7	NM_001172428	exon1	c.T98C	p.V33A	.	.	52	4	59	0	.	90
KRT8	3856	broad.mit.edu	37	12	53298675	53298675	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KRT8	NM_001256282	exon2	c.T175G	p.S59A	.	.	78	5	66	1	.	92
KRTAP10-2	386679	hgsc.bcm.edu	37	21	45970771	45970771	+	Missense_Mutation	SNP	C	C	T	rs200215960	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KRTAP10-2	NM_198693	exon1	c.G571A	p.V191I	.	.	54	15	69	0	C|0.956;T|0.044	135
KRTAP5-10	387273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	71277087	71277087	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KRTAP5-10	NM_001012710	exon1	c.T454G	p.S152A	.	.	145	51	157	0	.	91
KSR2	283455	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	117922348	117922348	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	KSR2	NM_173598	exon16	c.G2236C	p.G746R	.	.	123	62	80	1	.	1449
LANCL2	55915	hgsc.bcm.edu;bcgsc.ca	37	7	55466298	55466298	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	LANCL2	NM_018697	exon3	c.T505C	p.C169R	.	.	82	4	88	0	.	516
LCN2	3934	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	130911936	130911936	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	LCN2	NM_005564	exon1	c.C132A	p.D44E	.	.	75	29	68	0	.	90
LDHA	3939	hgsc.bcm.edu;bcgsc.ca	37	11	18425285	18425285	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	LDHA	NM_001165414	exon6	c.A724G	p.T242A	.	.	68	5	64	0	.	650
LDOC1L	84247	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	44892949	44892949	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	LDOC1L	NM_032287	exon2	c.G488A	p.R163H	.	.	98	36	78	0	.	69
LIN9	286826	hgsc.bcm.edu	37	1	226420805	226420805	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	LIN9	NM_173083	exon14	c.T1563C	p.S521S	.	.	90	4	59	0	.	90
LMBR1L	55716	hgsc.bcm.edu	37	12	49498580	49498580	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	LMBR1L	NM_018113	exon4	c.T280C	p.S94P	.	.	100	4	82	0	.	227
LMCD1	29995	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	8607167	8607167	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	LMCD1	NM_014583	exon5	c.A773T	p.Y258F	.	.	125	51	90	0	.	91
LOC644669	0	broad.mit.edu	37	18	15316521	15316521	+	RNA	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	.	.	.	.	.	.	50	15	67	0	.	.
LRP2	4036	hgsc.bcm.edu;bcgsc.ca	37	2	170048456	170048456	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	LRP2	NM_004525	exon48	c.A8918G	p.D2973G	.	.	69	4	78	0	.	175
LRRC43	254050	hgsc.bcm.edu	37	12	122676094	122676094	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	LRRC43	NM_001098519	exon6	c.T1069C	p.S357P	.	.	79	4	27	0	.	135
LTBP2	4053	hgsc.bcm.edu	37	14	75070369	75070369	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	LTBP2	NM_000428	exon2	c.A534G	p.T178T	.	.	94	4	165	0	.	92
LTN1	26046	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	21	30329699	30329699	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	LTN1	NM_015565	exon15	c.G2985A	p.P995P	.	.	68	4	64	0	.	530
MAGOHB	55110	broad.mit.edu	37	12	10766119	10766119	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MAGOHB	NM_018048	exon1	c.A13G	p.S5G	.	.	64	3	42	0	.	153
MAP3K1	4214	hgsc.bcm.edu	37	5	56178549	56178549	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MAP3K1	NM_005921	exon14	c.T3522C	p.N1174N	.	.	94	4	98	0	.	956
MAPK6	5597	hgsc.bcm.edu	37	15	52350974	52350974	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MAPK6	NM_002748	exon4	c.T845C	p.L282P	.	.	94	4	76	0	.	1403
MARCH5	54708	hgsc.bcm.edu	37	10	94109142	94109142	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MARCH5	NM_017824	exon4	c.A406G	p.R136G	.	.	97	4	87	0	.	226
MAU2	23383	hgsc.bcm.edu	37	19	19466193	19466193	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MAU2	NM_015329	exon18	c.T1760C	p.L587P	.	.	57	4	33	0	.	91
MBD4	8930	hgsc.bcm.edu	37	3	129151369	129151369	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MBD4	NM_003925	exon7	c.T1642C	p.F548L	.	.	94	4	111	0	.	228
MCF2L2	23101	hgsc.bcm.edu	37	3	183028819	183028819	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MCF2L2	NM_015078	exon10	c.879-2A>G	.	.	.	73	5	66	0	.	293
MCTP1	79772	bcgsc.ca	37	5	94050485	94050485	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MCTP1	NM_024717	exon20	c.A2717G	p.K906R	.	.	48	4	45	0	.	92
MED26	9441	hgsc.bcm.edu	37	19	16687921	16687921	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MED26	NM_004831	exon3	c.A720G	p.G240G	.	.	99	4	66	0	.	70
MEOX2	4223	hgsc.bcm.edu	37	7	15725800	15725800	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MEOX2	NM_005924	exon1	c.C228T	p.H76H	.	.	68	8	43	0	.	515
METTL6	131965	hgsc.bcm.edu;bcgsc.ca	37	3	15467900	15467900	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	METTL6	NM_152396	exon2	c.A119G	p.E40G	.	.	113	5	84	0	.	90
MGA	23269	hgsc.bcm.edu;bcgsc.ca	37	15	42003112	42003112	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MGA	NM_001080541	exon8	c.T2649C	p.S883S	.	.	65	4	61	0	.	522
MLL5	55904	hgsc.bcm.edu	37	7	104717613	104717613	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MLL5	NM_018682	exon9	c.C972T	p.N324N	.	.	97	4	65	0	.	93
MOGAT1	116255	hgsc.bcm.edu;bcgsc.ca	37	2	223559205	223559205	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MOGAT1	NM_058165	exon4	c.T603C	p.T201T	.	.	57	4	93	0	.	67
MPND	84954	hgsc.bcm.edu	37	19	4345914	4345914	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MPND	NM_032868	exon3	c.A467G	p.D156G	.	.	116	5	89	0	.	522
MPO	4353	hgsc.bcm.edu	37	17	56350831	56350831	+	Missense_Mutation	SNP	T	T	C	rs201916134	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MPO	NM_000250	exon9	c.A1565G	p.N522S	.	.	81	10	70	0	T|0.998;C|0.002	156
MROH1	727957	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	145255353	145255353	+	Silent	SNP	A	A	G	rs144186714	by1000genomes	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001099280	exon12	c.A1050G	p.L350L	.	.	60	17	47	0	A|0.999;G|0.001	.
MS4A6A	64231	hgsc.bcm.edu	37	11	59947440	59947440	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MS4A6A	NM_152851	exon4	c.148-2A>G	.	.	.	89	4	88	0	.	90
MST1L	11223	ucsc.edu	37	1	17085564	17085564	+	Missense_Mutation	SNP	A	A	G	rs80308386	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001271733	exon9	c.T1157C	p.L386P	.	.	82	12	68	4	A|0.625;G|0.375	.
MTX1	4580	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	155180142	155180142	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MTX1	NM_198883	exon2	c.T534C	p.Y178Y	.	.	119	51	106	0	.	91
MUC13	56667	broad.mit.edu	37	3	124642381	124642381	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MUC13	NM_033049	exon3	c.T627C	p.C209C	.	.	96	4	64	0	.	90
MUC21	394263	bcgsc.ca	37	6	30954863	30954863	+	Missense_Mutation	SNP	A	A	G	rs201896109		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MUC21	NM_001010909	exon2	c.A911G	p.E304G	.	.	154	8	110	1	.	92
MUC4	4585	broad.mit.edu	37	3	195506007	195506007	+	Silent	SNP	G	G	A	rs71635085		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MUC4	NM_018406	exon2	c.C12444T	p.T4148T	.	.	91	3	82	1	G|1.000;|0.000	90
MYH7B	57644	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	33575459	33575459	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MYH7B	NM_020884	exon17	c.A1373T	p.K458M	.	.	141	32	70	0	.	136
MYO3A	53904	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	10	26442791	26442791	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MYO3A	NM_017433	exon24	c.A2648T	p.H883L	.	.	142	6	140	0	.	1007
MYPN	84665	hgsc.bcm.edu	37	10	69918260	69918260	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MYPN	NM_001256267	exon8	c.A1335G	p.S445S	.	.	89	4	61	0	.	95
MYRIP	25924	hgsc.bcm.edu	37	3	40211580	40211580	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	MYRIP	NM_015460	exon8	c.T869C	p.L290P	.	.	96	4	58	0	.	94
NBPF10	100132406	bcgsc.ca	37	1	145293490	145293490	+	Missense_Mutation	SNP	G	G	C	rs6671335		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001039703	exon1	c.G85C	p.A29P	.	.	49	6	50	1	G|0.750;C|0.250	.
NBPF10	100132406	bcgsc.ca	37	1	145293498	145293498	+	Missense_Mutation	SNP	G	G	C	rs4409714	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001039703	exon1	c.G93C	p.K31N	.	.	49	7	47	1	G|0.700;C|0.300	.
NBPF10	100132406	bcgsc.ca	37	1	145293510	145293510	+	Missense_Mutation	SNP	C	C	G	rs4356110		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001039703	exon1	c.C105G	p.F35L	.	.	46	6	48	1	C|0.750;G|0.250	.
NCOA4	8031	bcgsc.ca	37	10	51585399	51585399	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NCOA4	NM_001145261	exon9	c.A1546G	p.R516G	.	.	58	4	58	0	.	1042
ND6	0	broad.mit.edu;bcgsc.ca	37	MT	14604	14604	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	ENST00000361681	exon1	c.T70A	p.S24T	.	.	18	10	27	0	.	.
NDRG2	57447	hgsc.bcm.edu	37	14	21488710	21488710	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NDRG2	NM_201537	exon8	c.T500C	p.V167A	.	.	84	4	66	0	.	154
NEDD4L	23327	hgsc.bcm.edu	37	18	56008984	56008984	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NEDD4L	NM_001144967	exon15	c.T1332C	p.P444P	.	.	90	4	84	0	.	658
NEFL	4747	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	8	24811079	24811079	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NEFL	NM_006158	exon3	c.A1400T	p.K467M	.	.	30	24	52	0	.	24
NFKB1	4790	hgsc.bcm.edu;bcgsc.ca	37	4	103531782	103531782	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NFKB1	NM_003998	exon20	c.T2278C	p.S760P	.	.	46	4	77	0	.	912
NFKBIL1	4795	hgsc.bcm.edu	37	6	31525591	31525591	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NFKBIL1	NM_005007	exon3	c.A521G	p.E174G	.	.	94	4	60	0	.	90
NIPBL	25836	hgsc.bcm.edu	37	5	36984922	36984922	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NIPBL	NM_015384	exon10	c.A1640G	p.Q547R	.	.	100	4	57	0	.	293
NMI	9111	hgsc.bcm.edu;bcgsc.ca	37	2	152127280	152127280	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NMI	NM_004688	exon8	c.A851G	p.K284R	.	.	94	4	102	0	.	90
NMI	9111	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	152128184	152128184	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NMI	NM_004688	exon7	c.G697T	p.V233F	.	.	22	14	60	0	.	90
NOB1	28987	hgsc.bcm.edu	37	16	69783156	69783156	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NOB1	NM_014062	exon5	c.A485G	p.N162S	.	.	71	4	51	0	.	90
NOTCH3	4854	hgsc.bcm.edu	37	19	15302655	15302655	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NOTCH3	NM_000435	exon5	c.G703A	p.V235M	.	.	99	4	95	0	.	855
NRBP1	29959	hgsc.bcm.edu;bcgsc.ca	37	2	27656637	27656637	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NRBP1	NM_013392	exon3	c.A308G	p.E103G	.	.	81	4	74	0	.	334
NRD1	4898	hgsc.bcm.edu	37	1	52306057	52306057	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NRD1	NM_002525	exon2	c.T471A	p.D157E	.	.	263	11	220	0	.	90
NRD1	4898	hgsc.bcm.edu	37	1	52306079	52306079	+	Missense_Mutation	SNP	T	T	A	rs62648104		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NRD1	NM_002525	exon2	c.A449T	p.E150V	.	.	177	14	164	0	T|0.024;A|0.976	90
NSFL1C	55968	hgsc.bcm.edu;bcgsc.ca	37	20	1434946	1434946	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NSFL1C	NM_016143	exon5	c.T449C	p.F150S	.	.	79	5	56	0	.	90
NUDT22	84304	hgsc.bcm.edu	37	11	63994260	63994260	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	NUDT22	NM_001128613	exon2	c.G136A	p.E46K	.	.	93	4	78	0	.	90
OR14A16	284532	hgsc.bcm.edu	37	1	247978543	247978543	+	Silent	SNP	G	G	T	rs200138400		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	OR14A16	NM_001001966	exon1	c.C489A	p.S163S	.	.	74	6	55	0	.	46
OR1F1	4992	hgsc.bcm.edu	37	16	3254975	3254975	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	OR1F1	NM_012360	exon1	c.T729C	p.S243S	.	.	83	4	158	0	.	68
OR4K13	390433	broad.mit.edu	37	14	20502647	20502647	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	OR4K13	NM_001004714	exon1	c.A271G	p.T91A	.	.	177	4	120	2	.	70
OR51I2	390064	hgsc.bcm.edu	37	11	5475431	5475431	+	Missense_Mutation	SNP	T	T	A	rs199654892		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	OR51I2	NM_001004754	exon1	c.T713A	p.L238H	.	.	230	12	206	0	.	72
OR6C75	390323	broad.mit.edu;bcgsc.ca	37	12	55759298	55759298	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	OR6C75	NM_001005497	exon1	c.G404T	p.S135I	.	.	257	8	172	0	.	70
OTOGL	283310	hgsc.bcm.edu;bcgsc.ca	37	12	80747200	80747200	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_173591	exon45	c.T5476C	p.C1826R	.	.	131	6	89	0	.	.
OTOGL	283310	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	80714407	80714407	+	Silent	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_173591	exon33	c.A3981T	p.T1327T	.	.	86	52	68	0	.	.
PAK1	5058	hgsc.bcm.edu	37	11	77090324	77090324	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PAK1	NM_001128620	exon4	c.A401G	p.K134R	.	.	112	5	59	0	.	957
PAPL	0	hgsc.bcm.edu	37	19	39591791	39591791	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001004318	exon9	c.T917C	p.V306A	.	.	26	4	20	0	.	.
PAPOLB	56903	hgsc.bcm.edu	37	7	4899811	4899811	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PAPOLB	NM_020144	exon1	c.A1631G	p.K544R	.	.	77	4	69	0	.	493
PCDH11X	27328	broad.mit.edu	37	X	91133110	91133110	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PCDH11X	NM_001168363	exon2	c.T1871A	p.V624D	.	.	340	125	267	0	.	193
PCDH9	5101	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	66879031	66879031	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PCDH9	NM_203487	exon5	c.C3470T	p.P1157L	.	.	86	51	97	1	.	96
PCDHA4	56144	hgsc.bcm.edu	37	5	140187628	140187628	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	PCDHA4,NS,carcinoma,-1	PCDHA4	NM_031500	exon1	c.T856C	p.S286P	.	.	47	2	46	0	.	96
PCDHA8	56140	bcgsc.ca	37	5	140221487	140221487	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PCDHA8	NM_031856	exon1	c.T581C	p.L194P	.	.	78	4	66	0	.	92
PCDHGA11	56105	hgsc.bcm.edu;bcgsc.ca	37	5	140803211	140803211	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_032091	exon1	c.A2417G	p.D806G	.	.	84	5	98	0	.	.
PCDHGA3	56112	hgsc.bcm.edu	37	5	140724262	140724262	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PCDHGA3	NM_032011	exon1	c.T662C	p.V221A	.	.	95	4	74	0	.	68
PCF11	51585	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	82872485	82872485	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PCF11	NM_015885	exon2	c.G309A	p.V103V	.	.	87	5	66	0	.	23
PCLO	27445	hgsc.bcm.edu	37	7	82581488	82581488	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PCLO	NM_014510	exon5	c.A8781T	p.E2927D	.	.	50	0	38	0	.	29
PCNT	5116	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	21	47783761	47783761	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PCNT	NM_006031	exon14	c.C2521T	p.R841W	.	.	82	41	74	0	.	141
PDE4C	5143	hgsc.bcm.edu;bcgsc.ca	37	19	18333125	18333125	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PDE4C	NM_000923	exon3	c.T251C	p.L84P	.	.	66	4	38	0	.	94
PDZRN3	23024	hgsc.bcm.edu	37	3	73434932	73434932	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PDZRN3	NM_015009	exon9	c.A1523G	p.D508G	.	.	78	5	43	0	.	232
PER3	8863	hgsc.bcm.edu	37	1	7887204	7887204	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PER3	NM_016831	exon17	c.T2191C	p.S731P	.	.	95	4	60	0	.	93
PHF17	79960	hgsc.bcm.edu	37	4	129792723	129792723	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PHF17	NM_199320	exon11	c.T1835C	p.L612P	.	.	73	4	81	0	.	90
PHLPP1	23239	hgsc.bcm.edu;bcgsc.ca	37	18	60563017	60563017	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_194449	exon6	c.A2217G	p.L739L	.	.	56	4	63	0	.	.
PIWIL4	143689	hgsc.bcm.edu	37	11	94335097	94335097	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PIWIL4	NM_152431	exon12	c.T1517C	p.L506S	.	.	74	4	131	0	.	91
PKD1L1	168507	hgsc.bcm.edu;bcgsc.ca	37	7	47873952	47873952	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PKD1L1	NM_138295	exon40	c.A6159G	p.A2053A	.	.	73	4	77	0	.	145
PKHD1L1	93035	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	110457871	110457871	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PKHD1L1	NM_177531	exon38	c.A5773G	p.R1925G	.	.	84	30	52	0	.	145
PKN2	5586	hgsc.bcm.edu;bcgsc.ca	37	1	89299097	89299097	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PKN2	NM_006256	exon22	c.T2921C	p.F974S	.	.	70	4	69	0	.	522
PLA2G3	50487	hgsc.bcm.edu	37	22	31531911	31531911	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PLA2G3	NM_015715	exon7	c.A1328G	p.D443G	.	.	72	4	38	0	.	226
PLA2R1	22925	hgsc.bcm.edu;bcgsc.ca	37	2	160879270	160879270	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PLA2R1	NM_001195641	exon7	c.T1200C	p.H400H	.	.	81	4	133	0	.	93
PLAA	9373	hgsc.bcm.edu;bcgsc.ca	37	9	26905635	26905635	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PLAA	NM_001031689	exon14	c.T2262C	p.S754S	.	.	76	4	103	0	.	514
PLCB2	5330	hgsc.bcm.edu;bcgsc.ca	37	15	40584596	40584596	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PLCB2	NM_004573	exon22	c.T2375C	p.M792T	.	.	80	4	64	0	.	275
PLD1	5337	hgsc.bcm.edu;bcgsc.ca	37	3	171406587	171406587	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PLD1	NM_002662	exon14	c.C1418T	p.S473L	.	.	98	4	83	0	.	660
PLEKHG6	55200	hgsc.bcm.edu	37	12	6436467	6436467	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PLEKHG6	NM_001144856	exon15	c.A1718G	p.D573G	.	.	85	4	98	0	.	295
PLEKHG7	440107	hgsc.bcm.edu	37	12	93155594	93155594	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PLEKHG7	NM_001004330	exon9	c.A767G	p.K256R	.	.	77	4	34	0	.	23
PMPCA	23203	hgsc.bcm.edu	37	9	139306975	139306975	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PMPCA	NM_015160	exon3	c.A308G	p.K103R	.	.	94	4	82	0	.	90
POLQ	10721	hgsc.bcm.edu	37	3	121158914	121158914	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	POLQ	NM_199420	exon27	c.A7314G	p.G2438G	.	.	30	4	18	0	.	664
PPM1E	22843	hgsc.bcm.edu	37	17	56833454	56833454	+	Silent	SNP	G	G	A	rs77856248	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PPM1E	NM_014906	exon1	c.G96A	p.E32E	.	.	175	15	99	0	.	291
PPP1R42	286187	hgsc.bcm.edu	37	8	67900622	67900622	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001013626	exon6	c.A683G	p.Y228C	.	.	19	10	3	0	.	.
PPP2R3C	55012	hgsc.bcm.edu;bcgsc.ca	37	14	35585916	35585916	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PPP2R3C	NM_017917	exon2	c.A86G	p.D29G	.	.	55	4	39	0	.	227
PRDM15	63977	hgsc.bcm.edu	37	21	43223051	43223051	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PRDM15	NM_022115	exon30	c.G3862A	p.A1288T	.	.	58	4	29	0	.	90
PRDM2	7799	hgsc.bcm.edu	37	1	14105142	14105142	+	Missense_Mutation	SNP	T	T	A	rs151133690	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PRDM2	NM_015866	exon8	c.T852A	p.D284E	.	.	66	9	48	0	T|0.997;A|0.003	116
PRKX	5613	hgsc.bcm.edu	37	X	3631158	3631158	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PRKX	NM_005044	exon1	c.T137C	p.L46P	.	.	74	4	38	0	.	540
PRMT10	90826	hgsc.bcm.edu	37	4	148559746	148559746	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PRMT10	NM_138364	exon12	c.A2475G	p.G825G	.	.	100	4	129	0	.	91
PROL1	58503	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	71275489	71275489	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PROL1	NM_021225	exon3	c.C444T	p.T148T	.	.	134	91	174	0	.	135
PRR11	55771	hgsc.bcm.edu	37	17	57247212	57247212	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PRR11	NM_018304	exon2	c.A99G	p.T33T	.	.	129	6	122	0	.	92
PRR12	57479	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	50100971	50100971	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PRR12	NM_020719	exon4	c.A3379T	p.S1127C	.	.	109	43	58	0	.	70
PRRC1	133619	hgsc.bcm.edu	37	5	126859184	126859184	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PRRC1	NM_130809	exon2	c.A13G	p.S5G	.	.	67	4	67	0	.	68
PSD4	23550	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	113950141	113950141	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PSD4	NM_012455	exon6	c.G1813A	p.E605K	.	.	33	20	47	0	.	229
PSMC4	5704	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	40486011	40486011	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PSMC4	NM_006503	exon8	c.G876A	p.L292L	.	.	259	108	224	0	.	91
PSMG2	56984	hgsc.bcm.edu;bcgsc.ca	37	18	12718587	12718587	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PSMG2	NM_020232	exon4	c.T360C	p.V120V	.	.	84	4	75	0	.	68
PTEN	5728	hgsc.bcm.edu	37	10	89653817	89653817	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	PTEN,brain,glioma,0	PTEN	NM_000314	exon2	c.G115A	p.A39T	.	.	88	4	66	1	.	17735
PTPRA	5786	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	3007357	3007357	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PTPRA	NM_002836	exon22	c.A1639T	p.N547Y	.	.	107	49	68	0	.	227
PYGL	5836	broad.mit.edu	37	14	51379814	51379814	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	PYGL	NM_002863	exon13	c.A1553T	p.Q518L	.	.	59	3	54	0	.	91
RANBP17	64901	hgsc.bcm.edu	37	5	170610408	170610408	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RANBP17	NM_022897	exon18	c.T2012C	p.L671P	.	.	98	4	88	0	.	524
RASA1	5921	hgsc.bcm.edu;bcgsc.ca	37	5	86682657	86682657	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RASA1	NM_002890	exon23	c.A2862G	p.E954E	.	.	62	4	66	0	.	661
RAVER2	55225	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	65255125	65255125	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RAVER2	NM_018211	exon5	c.A1033G	p.K345E	.	.	80	27	82	0	.	135
RBBP7	5931	hgsc.bcm.edu	37	X	16876930	16876930	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RBBP7	NM_001198719	exon4	c.A482G	p.E161G	.	.	91	4	87	0	.	227
RBM12	10137	hgsc.bcm.edu	37	20	34240764	34240764	+	Silent	SNP	A	A	G	rs201125389		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RBM12	NM_001198840	exon2	c.T2481C	p.P827P	.	.	83	4	43	0	A|0.996;G|0.004	93
RCBTB2	1102	hgsc.bcm.edu;bcgsc.ca	37	13	49073817	49073817	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RCBTB2	NM_001268	exon13	c.C1324T	p.R442W	.	.	67	5	81	0	.	418
RFC1	5981	hgsc.bcm.edu;bcgsc.ca	37	4	39352986	39352986	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RFC1	NM_002913	exon2	c.A114G	p.K38K	.	.	70	4	73	0	.	230
RFX7	64864	bcgsc.ca	37	15	56386562	56386562	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RFX7	NM_022841	exon9	c.A3364G	p.T1122A	.	.	69	4	56	0	.	90
RGPD8	727851	broad.mit.edu	37	2	113174883	113174883	+	Silent	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001164463	exon6	c.T669A	p.S223S	.	.	10	4	15	0	.	.
RGR	5995	hgsc.bcm.edu	37	10	86018358	86018358	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RGR	NM_002921	exon7	c.T851C	p.L284P	.	.	117	5	65	0	.	91
RGS22	26166	broad.mit.edu	37	8	101059826	101059826	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RGS22	NM_015668	exon12	c.1690-2A>G	.	.	.	109	3	53	0	.	140
RGS7	6000	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	241262022	241262022	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RGS7	NM_002924	exon3	c.G119A	p.G40E	.	.	41	18	44	1	.	232
RICTOR	253260	broad.mit.edu	37	5	38962642	38962642	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RICTOR	NM_152756	exon18	c.T1613C	p.L538P	.	.	106	4	109	2	.	849
RIOK3	8780	hgsc.bcm.edu	37	18	21061218	21061218	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RIOK3	NM_003831	exon13	c.A1535G	p.D512G	.	.	65	4	49	0	.	335
RIPK2	8767	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	90801575	90801575	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RIPK2	NM_003821	exon10	c.A1150G	p.K384E	.	.	107	32	73	1	.	523
RLIM	51132	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	73814206	73814206	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RLIM	NM_183353	exon4	c.A188T	p.E63V	.	.	108	34	94	0	.	228
RMDN2	151393	hgsc.bcm.edu;bcgsc.ca	37	2	38218373	38218373	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_144713	exon7	c.A1412G	p.D471G	.	.	64	4	47	0	.	.
RNF19A	25897	hgsc.bcm.edu	37	8	101271049	101271049	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RNF19A	NM_015435	exon11	c.A2252G	p.H751R	.	.	99	4	70	0	.	229
RNF213	57674	bcgsc.ca	37	17	78263477	78263477	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RNF213	NM_001256071	exon6	c.A953G	p.K318R	.	.	84	4	78	1	.	577
RNF213	57674	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	78336932	78336932	+	Missense_Mutation	SNP	A	A	G	rs144458310	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RNF213	NM_001256071	exon40	c.A11386G	p.R3796G	.	.	74	23	63	0	A|1.000;G|0.000	577
RPP14	11102	hgsc.bcm.edu	37	3	58302285	58302285	+	Missense_Mutation	SNP	A	A	G	rs114601626	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RPP14	NM_007042	exon4	c.A206G	p.K69R	.	.	118	5	93	0	A|0.998;G|0.002	90
RPP14	11102	hgsc.bcm.edu;bcgsc.ca	37	3	58302307	58302307	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RPP14	NM_007042	exon4	c.A228G	p.R76R	.	.	103	5	83	0	.	90
RPS2	6187	broad.mit.edu	37	16	2014607	2014607	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RPS2	NM_002952	exon2	c.C20A	p.A7E	.	.	3	3	12	0	.	90
RTN4	57142	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	55254181	55254181	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RTN4	NM_020532	exon3	c.A1054G	p.K352E	.	.	66	30	84	0	.	155
RUFY3	22902	hgsc.bcm.edu	37	4	71588361	71588361	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RUFY3	NM_001037442	exon1	c.A71G	p.E24G	.	.	98	4	86	0	.	90
RXFP1	59350	hgsc.bcm.edu	37	4	159526291	159526291	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RXFP1	NM_001253727	exon5	c.T545C	p.L182P	.	.	89	5	133	0	.	91
RYR3	6263	hgsc.bcm.edu;bcgsc.ca	37	15	33993260	33993260	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	RYR3	NM_001243996	exon42	c.A6462G	p.L2154L	.	.	72	4	60	0	.	520
SARDH	1757	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	136578161	136578161	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SARDH	NM_007101	exon9	c.A1236G	p.A412A	.	.	41	15	26	0	.	90
SART1	9092	hgsc.bcm.edu	37	11	65745300	65745300	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SART1	NM_005146	exon17	c.A2102G	p.K701R	.	.	82	4	72	0	.	227
SCN7A	6332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	167297978	167297978	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SCN7A	NM_002976	exon14	c.C2085T	p.D695D	.	.	82	57	146	0	.	67
SCN9A	6335	hgsc.bcm.edu	37	2	167142891	167142891	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SCN9A	NM_002977	exon11	c.A1557G	p.E519E	.	.	92	4	127	0	.	181
SCRN3	79634	hgsc.bcm.edu	37	2	175292599	175292599	+	Missense_Mutation	SNP	T	T	G	rs74729826	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SCRN3	NM_024583	exon8	c.T1251G	p.N417K	.	.	83	27	135	0	T|0.842;G|0.157	91
SCYL1	57410	bcgsc.ca	37	11	65302800	65302800	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SCYL1	NM_020680	exon10	c.C1333T	p.R445C	.	.	128	5	119	0	.	333
SEPT3	55964	hgsc.bcm.edu	37	22	42392914	42392914	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SEPT3	NM_145733	exon11	c.C1020T	p.G340G	.	.	88	4	90	0	.	68
SERPINB12	89777	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	61232745	61232745	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SERPINB12	NM_080474	exon6	c.T713C	p.V238A	.	.	62	6	53	0	.	227
SERPIND1	3053	hgsc.bcm.edu	37	22	21138492	21138492	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SERPIND1	NM_000185	exon3	c.A1122G	p.T374T	.	.	78	4	57	0	.	414
SF3B3	23450	hgsc.bcm.edu	37	16	70588379	70588379	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SF3B3	NM_012426	exon12	c.T1433C	p.F478S	.	.	85	4	73	0	.	91
SI	6476	hgsc.bcm.edu;bcgsc.ca	37	3	164764772	164764772	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SI	NM_001041	exon16	c.A1744G	p.R582G	.	.	142	6	126	0	.	104
SIGLEC5	8778	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	52130941	52130941	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SIGLEC5	NM_003830	exon6	c.A1056G	p.R352R	.	.	34	13	29	0	.	92
SLC35A5	55032	hgsc.bcm.edu;bcgsc.ca	37	3	112299917	112299917	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SLC35A5	NM_017945	exon6	c.T953C	p.L318P	.	.	90	4	69	0	.	91
SLC41A3	54946	hgsc.bcm.edu	37	3	125725272	125725272	+	Nonsense_Mutation	SNP	A	A	T	rs200886927		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SLC41A3	NM_001008485	exon12	c.T1502A	p.L501X	.	.	85	4	70	0	A|0.999;C|0.001	90
SLC4A4	8671	hgsc.bcm.edu	37	4	72306489	72306489	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SLC4A4	NM_001098484	exon8	c.A964G	p.R322G	.	.	99	4	133	0	.	95
SLC9A9	285195	hgsc.bcm.edu;bcgsc.ca	37	3	143550901	143550901	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SLC9A9	NM_173653	exon2	c.A338G	p.H113R	.	.	68	4	46	0	.	229
SLCO1A2	6579	hgsc.bcm.edu;bcgsc.ca	37	12	21450445	21450445	+	Missense_Mutation	SNP	A	A	G	rs11568579	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SLCO1A2	NM_134431	exon10	c.T968C	p.L323P	.	.	29	4	53	0	A|1.000;G|0.000	157
SLFN12L	100506736	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	33807038	33807038	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SLFN12L	NM_001195790	exon2	c.G191T	p.R64L	.	.	163	71	144	0	.	23
SLITRK6	84189	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	13	86369191	86369191	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SLITRK6	NM_032229	exon2	c.1453delA	p.T485fs	.	.	64	53	60	0	.	137
SLURP1	57152	hgsc.bcm.edu	37	8	143823269	143823269	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SLURP1	NM_020427	exon2	c.A130G	p.K44E	.	.	100	4	43	0	.	90
SMC2	10592	bcgsc.ca	37	9	106858510	106858510	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SMC2	NM_006444	exon3	c.G250A	p.D84N	.	.	51	4	33	0	.	210
SMC3	9126	hgsc.bcm.edu;bcgsc.ca	37	10	112338437	112338437	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SMC3	NM_005445	exon7	c.T402C	p.N134N	.	.	55	4	51	0	.	92
SMCHD1	23347	hgsc.bcm.edu	37	18	2738452	2738452	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SMCHD1	NM_015295	exon26	c.G3334A	p.V1112M	.	.	82	4	88	0	.	46
SMTN	6525	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	31485773	31485773	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SMTN	NM_001207018	exon6	c.T728G	p.V243G	.	.	91	31	64	1	.	154
SNRK	54861	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	43388906	43388906	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SNRK	NM_017719	exon7	c.G1155A	p.A385A	.	.	47	19	22	0	.	815
SOX13	9580	hgsc.bcm.edu	37	1	204092852	204092852	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SOX13	NM_005686	exon12	c.T1295C	p.M432T	.	.	74	4	44	0	.	514
SOX9	6662	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	70120374	70120374	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SOX9	NM_000346	exon3	c.G1376T	p.G459V	.	.	77	33	67	0	.	514
SP8	221833	hgsc.bcm.edu	37	7	20824956	20824956	+	Silent	SNP	C	C	G	rs201180283		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SP8	NM_182700	exon2	c.G480C	p.G160G	.	.	10	6	2	0	.	91
SPARCL1	8404	hgsc.bcm.edu	37	4	88411956	88411956	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SPARCL1	NM_004684	exon6	c.T1366C	p.C456R	.	.	98	4	155	0	.	91
SPEF2	79925	hgsc.bcm.edu	37	5	35628606	35628606	+	Nonsense_Mutation	SNP	G	G	T	rs78964548		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SPEF2	NM_024867	exon2	c.G103T	p.G35X	.	.	92	4	94	0	.	26
SPEF2	79925	hgsc.bcm.edu	37	5	35792503	35792503	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SPEF2	NM_024867	exon31	c.C4509T	p.G1503G	.	.	89	4	70	0	.	26
SPEN	23013	hgsc.bcm.edu	37	1	16174601	16174601	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SPEN	NM_015001	exon1	c.A39G	p.L13L	.	.	97	4	100	0	.	298
SPSB3	90864	hgsc.bcm.edu	37	16	1827105	1827105	+	Missense_Mutation	SNP	C	C	T	rs148030477		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SPSB3	NM_080861	exon7	c.G1061A	p.R354Q	.	.	70	4	82	0	C|1.000;T|0.000	226
SPTB	6710	hgsc.bcm.edu	37	14	65249105	65249105	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SPTB	NM_001024858	exon19	c.A4169G	p.D1390G	.	.	94	4	100	0	.	100
SPTBN5	51332	hgsc.bcm.edu	37	15	42173320	42173320	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SPTBN5	NM_016642	exon13	c.A2465G	p.E822G	.	.	100	4	98	0	.	91
SRRD	402055	broad.mit.edu;ucsc.edu;mdanderson.org	37	22	26887637	26887637	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SRRD	NM_001013694	exon7	c.G1019A	p.X340X	.	.	15	11	13	0	.	22
SRRM2	23524	ucsc.edu;bcgsc.ca	37	16	2811772	2811772	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SRRM2	NM_016333	exon11	c.T1243C	p.S415P	.	.	41	6	74	0	.	93
SRRM4	84530	hgsc.bcm.edu	37	12	119568550	119568550	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SRRM4	NM_194286	exon8	c.A682G	p.T228A	.	.	43	3	16	0	.	2
SSPO	23145	hgsc.bcm.edu	37	7	149476672	149476672	+	Silent	SNP	G	G	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_198455	exon10	c.G1122T	p.L374L	.	.	278	27	146	0	.	.
SSPO	23145	hgsc.bcm.edu	37	7	149489269	149489269	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_198455	exon36	c.A5514G	p.P1838P	.	.	99	4	42	0	.	.
STAG1	10274	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	136085882	136085882	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	STAG1	NM_005862	exon25	c.A2588G	p.H863R	.	.	149	61	121	0	.	228
STAG3L4	64940	broad.mit.edu;bcgsc.ca	37	7	66785160	66785160	+	RNA	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	STAG3L4	.	.	.	.	.	.	77	31	71	0	.	68
STAT3	6774	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	40500452	40500452	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	STAT3	NM_003150	exon2	c.T83A	p.M28K	.	.	110	50	106	0	.	1271
STAT6	6778	hgsc.bcm.edu	37	12	57499264	57499264	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	STAT6	NM_001178079	exon8	c.A799G	p.T267A	.	.	77	4	42	0	.	849
STT3A	3703	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	125474114	125474114	+	Silent	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	STT3A	NM_152713	exon6	c.A480T	p.R160R	.	.	92	68	144	1	.	90
SYT13	57586	hgsc.bcm.edu	37	11	45307751	45307751	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	SYT13	NM_020826	exon1	c.T8C	p.L3P	.	.	61	4	24	0	.	91
TAF1L	138474	broad.mit.edu	37	9	32633337	32633337	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TAF1L	NM_153809	exon1	c.T2241C	p.S747S	.	.	156	4	240	1	.	870
TAF7L	54457	hgsc.bcm.edu	37	X	100531419	100531419	+	Silent	SNP	C	C	T	rs147505183	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TAF7L	NM_024885	exon10	c.G1047A	p.E349E	.	.	150	10	98	0	C|0.997;T|0.003	130
TAF7L	54457	hgsc.bcm.edu	37	X	100531437	100531437	+	Silent	SNP	C	C	T	rs148266047	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TAF7L	NM_024885	exon10	c.G1029A	p.E343E	.	.	156	10	101	0	C|0.996;T|0.004	130
TBP	6908	broad.mit.edu;mdanderson.org	37	6	170871004	170871004	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TBP	NM_003194	exon3	c.G180A	p.Q60Q	.	.	61	10	67	1	.	91
TBP	6908	hgsc.bcm.edu	37	6	170871013	170871013	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TBP	NM_003194	exon3	c.A189G	p.Q63Q	.	.	52	9	61	0	.	91
TBPL1	9519	hgsc.bcm.edu;broad.mit.edu	37	6	134305776	134305776	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TBPL1	NM_004865	exon6	c.C448T	p.Q150X	.	.	84	4	159	0	.	90
TCF20	6942	hgsc.bcm.edu	37	22	42610352	42610352	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TCF20	NM_181492	exon1	c.A960G	p.Q320Q	.	.	193	9	128	0	.	95
TCTN2	79867	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	124158356	124158356	+	Silent	SNP	A	A	T	rs111689585	alternate_allele	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TCTN2	NM_024809	exon4	c.A462T	p.S154S	.	.	216	118	143	0	A|0.500;G|0.500	91
TDRD7	23424	hgsc.bcm.edu	37	9	100222509	100222509	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TDRD7	NM_014290	exon7	c.A905G	p.K302R	.	.	96	4	100	0	.	93
TECPR1	25851	hgsc.bcm.edu;bcgsc.ca	37	7	97873966	97873966	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TECPR1	NM_015395	exon5	c.A448G	p.K150E	.	.	75	4	56	0	.	91
TEP1	7011	hgsc.bcm.edu	37	14	20840992	20840992	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TEP1	NM_007110	exon49	c.A6976G	p.I2326V	.	.	98	5	69	0	.	95
THAP11	57215	hgsc.bcm.edu	37	16	67876823	67876823	+	Silent	SNP	A	A	G	rs28647874	bycluster;byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	THAP11	NM_020457	exon1	c.A366G	p.Q122Q	.	.	32	4	23	0	A|0.985;G|0.015	90
THAP11	57215	hgsc.bcm.edu	37	16	67876826	67876826	+	Silent	SNP	G	G	A	rs63117363	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	THAP11	NM_020457	exon1	c.G369A	p.Q123Q	.	.	30	6	23	0	G|0.986;A|0.014	90
THAP7	80764	hgsc.bcm.edu	37	22	21354195	21354195	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	THAP7	NM_030573	exon4	c.A904G	p.M302V	.	.	88	4	67	0	.	278
TICAM1	148022	hgsc.bcm.edu	37	19	4817286	4817286	+	Silent	SNP	T	T	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TICAM1	NM_182919	exon2	c.A1104T	p.S368S	.	.	193	10	166	0	.	153
TM7SF3	51768	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	27128524	27128524	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TM7SF3	NM_016551	exon11	c.C1355T	p.S452F	.	.	101	73	127	0	.	92
TMEM126A	84233	hgsc.bcm.edu	37	11	85365266	85365266	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TMEM126A	NM_032273	exon3	c.T246C	p.T82T	.	.	61	4	64	0	.	92
TMEM130	222865	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	98460878	98460878	+	Silent	SNP	G	G	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TMEM130	NM_152913	exon2	c.C231A	p.T77T	.	.	94	39	74	0	.	91
TMEM132B	114795	hgsc.bcm.edu	37	12	126138907	126138907	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TMEM132B	NM_052907	exon9	c.T2888C	p.L963P	.	.	86	4	83	0	.	185
TMEM150B	284417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	55832397	55832397	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TMEM150B	NM_001085488	exon3	c.G8T	p.G3V	.	.	163	78	126	0	.	68
TMEM168	64418	hgsc.bcm.edu	37	7	112423763	112423763	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TMEM168	NM_022484	exon2	c.T1118C	p.V373A	.	.	75	4	33	0	.	91
TMEM54	113452	broad.mit.edu	37	1	33360464	33360464	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TMEM54	NM_033504	exon6	c.A611G	p.E204G	.	.	328	8	203	2	.	227
TMPRSS13	84000	hgsc.bcm.edu	37	11	117789314	117789314	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TMPRSS13	NM_001206790	exon2	c.C261T	p.A87A	.	.	66	9	88	0	.	91
TNRC18	84629	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	5355649	5355649	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TNRC18	NM_001080495	exon25	c.G6800C	p.G2267A	.	.	66	27	65	0	.	46
TOP2B	7155	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	25670532	25670532	+	Silent	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TOP2B	NM_001068	exon14	c.T1779A	p.I593I	.	.	46	23	40	0	.	273
TPSAB1	7177	bcgsc.ca	37	16	1291269	1291269	+	Silent	SNP	C	C	T	rs71384642		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TPSAB1	NM_003294	exon3	c.C177T	p.C59C	.	.	152	14	188	4	T|1.000;|0.000	22
TREML2	79865	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	41162310	41162310	+	Missense_Mutation	SNP	G	G	A	rs147159415		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TREML2	NM_024807	exon3	c.C638T	p.A213V	.	.	225	59	128	2	G|1.000;A|0.000	91
TRERF1	55809	broad.mit.edu;bcgsc.ca	37	6	42227244	42227244	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TRERF1	NM_033502	exon9	c.C2102A	p.P701H	.	.	158	59	60	1	.	230
TRERF1	55809	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	6	42227243	42227243	+	Silent	SNP	G	G	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TRERF1	NM_033502	exon9	c.C2103A	p.P701P	.	.	158	60	61	0	.	230
TRIM28	10155	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	59061183	59061183	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TRIM28	NM_005762	exon14	c.G2062T	p.D688Y	.	.	39	33	75	0	.	870
TRIM62	55223	hgsc.bcm.edu	37	1	33646996	33646996	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TRIM62	NM_018207	exon1	c.T38C	p.I13T	.	.	43	4	24	0	.	226
TRPM1	4308	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	31355371	31355371	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TRPM1	NM_001252020	exon7	c.A966G	p.G322G	.	.	94	36	61	0	.	94
TRPS1	7227	hgsc.bcm.edu;bcgsc.ca	37	8	116430680	116430680	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TRPS1	NM_014112	exon6	c.A2701G	p.R901G	.	.	114	5	104	0	.	229
TRRAP	8295	bcgsc.ca	37	7	98528389	98528389	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TRRAP	NM_001244580	exon25	c.T3527C	p.V1176A	.	.	126	5	111	0	.	923
TSC2	7249	broad.mit.edu;bcgsc.ca	37	16	2136835	2136854	+	Frame_Shift_Del	DEL	ATGACTCCGGTGAGGACTTC	ATGACTCCGGTGAGGACTTC	-	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	ATGACTCCGGTGAGGACTTC	ATGACTCCGGTGAGGACTTC	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	TSC2_ENST00000219476,NS,carcinoid-endocrine_tumour,0	TSC2	NM_000548	exon38	c.4952_4971del	p.1651_1657del	.	.	24	8	65	0	.	1908
TSNAXIP1	55815	hgsc.bcm.edu	37	16	67861436	67861436	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TSNAXIP1	NM_018430	exon15	c.A1690G	p.K564E	.	.	85	4	67	0	.	90
TTC18	118491	hgsc.bcm.edu	37	10	75058853	75058853	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TTC18	NM_145170	exon15	c.A1534G	p.S512G	.	.	85	4	55	0	.	92
TTLL4	9654	broad.mit.edu	37	2	219603103	219603103	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TTLL4	NM_014640	exon3	c.C704T	p.T235I	.	.	40	3	37	0	.	93
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	179577610	179577610	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TTN	NM_001267550	exon94	c.T27142A	p.F9048I	.	.	95	35	78	0	.	636
TXNDC5	81567	hgsc.bcm.edu	37	6	7884705	7884705	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TXNDC5	NM_030810	exon9	c.A1063G	p.T355A	.	.	82	4	49	0	.	90
TYMP	1890	hgsc.bcm.edu	37	22	50967939	50967939	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	TYMP	NM_001257989	exon2	c.A200G	p.Q67R	.	.	96	4	103	0	.	23
UBE2L3	7332	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	22	21922044	21922044	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	UBE2L3	NM_003347	exon1	c.G11T	p.S4I	.	.	153	57	141	0	.	414
UBR5	51366	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	103300480	103300480	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	UBR5	NM_015902	exon36	c.G4728A	p.E1576E	.	.	141	35	75	0	.	761
UPK3BL	100134938	broad.mit.edu	37	7	102279616	102279616	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_001114403	exon4	c.A516G	p.G172G	.	.	701	11	413	1	.	.
URI1	8725	mdanderson.org	37	19	30500143	30500143	+	Silent	SNP	T	T	C	rs1127493	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	NM_003796	exon8	c.T918C	p.D306D	.	.	58	14	42	0	T|0.979;C|0.021	.
USP25	29761	hgsc.bcm.edu;broad.mit.edu	37	21	17163836	17163836	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	USP25	NM_013396	exon5	c.C408T	p.S136S	.	.	60	4	62	0	.	663
USP31	57478	hgsc.bcm.edu;bcgsc.ca	37	16	23117594	23117594	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	USP31	NM_020718	exon4	c.A893G	p.Q298R	.	.	113	5	92	0	.	663
USP40	55230	bcgsc.ca	37	2	234398115	234398115	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	USP40	NM_018218	exon26	c.T3060C	p.P1020P	.	.	76	4	83	0	.	455
VEZF1	7716	hgsc.bcm.edu	37	17	56056598	56056598	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	VEZF1	NM_007146	exon5	c.A1053G	p.Q351Q	.	.	142	9	123	0	.	136
VEZF1	7716	hgsc.bcm.edu	37	17	56056601	56056601	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	VEZF1	NM_007146	exon5	c.A1050G	p.Q350Q	.	.	142	10	118	0	.	136
VEZF1	7716	hgsc.bcm.edu	37	17	56056604	56056604	+	Silent	SNP	T	T	C	rs138088904	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	VEZF1	NM_007146	exon5	c.A1047G	p.Q349Q	.	.	142	19	114	0	T|0.999;C|0.001	136
VN1R2	317701	hgsc.bcm.edu	37	19	53762214	53762214	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	VN1R2	NM_173856	exon1	c.T586C	p.S196P	.	.	111	5	66	0	.	90
VPS36	51028	hgsc.bcm.edu	37	13	52992177	52992177	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	VPS36	NM_016075	exon11	c.A855G	p.E285E	.	.	41	4	55	0	.	91
VPS53	55275	hgsc.bcm.edu	37	17	465918	465918	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	VPS53	NM_001128159	exon14	c.A1381G	p.T461A	.	.	80	4	81	0	.	90
VPS8	23355	hgsc.bcm.edu;bcgsc.ca	37	3	184646287	184646287	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	VPS8	NM_001009921	exon31	c.A2680G	p.S894G	.	.	92	4	61	0	.	91
VWA3B	200403	broad.mit.edu	37	2	98797626	98797626	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	VWA3B	NM_144992	exon9	c.T1262C	p.V421A	.	.	209	5	159	1	.	139
WDHD1	11169	hgsc.bcm.edu;bcgsc.ca	37	14	55408356	55408356	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	WDHD1	NM_007086	exon26	c.A3242G	p.K1081R	.	.	82	4	138	0	.	91
WDR20	91833	hgsc.bcm.edu;bcgsc.ca	37	14	102676047	102676047	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	WDR20	NM_001242417	exon4	c.T1633C	p.C545R	.	.	61	4	103	0	.	90
WDR90	197335	hgsc.bcm.edu;bcgsc.ca	37	16	699822	699822	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	WDR90	NM_145294	exon2	c.T70C	p.S24P	.	.	37	4	33	0	.	92
WEE1	7465	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	9597791	9597791	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	WEE1	NM_003390	exon3	c.A797G	p.D266G	.	.	49	5	55	1	.	1404
WFDC13	164237	hgsc.bcm.edu	37	20	44334544	44334544	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	WFDC13	NM_172005	exon3	c.A282G	p.X94W	.	.	96	4	58	0	.	90
WNT7A	7476	hgsc.bcm.edu;bcgsc.ca	37	3	13896149	13896149	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	WNT7A	NM_004625	exon3	c.T450C	p.G150G	.	.	63	5	49	0	.	948
WWC1	23286	hgsc.bcm.edu	37	5	167871522	167871522	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	WWC1	NM_015238	exon17	c.A2457G	p.E819E	.	.	96	4	89	0	.	157
YLPM1	56252	hgsc.bcm.edu	37	14	75230847	75230847	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	YLPM1	NM_019589	exon1	c.A655G	p.S219G	.	.	91	4	129	0	.	71
YTHDC2	64848	hgsc.bcm.edu;bcgsc.ca	37	5	112874844	112874844	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	YTHDC2	NM_022828	exon8	c.A1176G	p.K392K	.	.	63	4	55	0	.	92
YY2	404281	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	21875262	21875262	+	Silent	SNP	T	T	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	YY2	NM_206923	exon1	c.T660A	p.P220P	.	.	110	46	87	0	.	193
ZBP1	81030	broad.mit.edu	37	20	56186807	56186807	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ZBP1	NM_030776	exon6	c.C850A	p.H284N	.	.	131	5	76	1	.	228
ZBTB16	7704	hgsc.bcm.edu	37	11	114112895	114112895	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ZBTB16	NM_006006	exon5	c.A1460G	p.D487G	.	.	54	4	61	0	.	659
ZDBF2	57683	hgsc.bcm.edu;bcgsc.ca	37	2	207174473	207174473	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ZDBF2	NM_020923	exon5	c.T5221C	p.C1741R	.	.	72	4	91	0	.	3
ZFYVE19	84936	mdanderson.org	37	15	41099910	41099910	+	Silent	SNP	A	A	G	rs62018606		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ZFYVE19	NM_001077268	exon1	c.A123G	p.A41A	.	.	120	42	50	1	.	91
ZIC1	7545	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	147128660	147128660	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ZIC1	NM_003412	exon1	c.C761A	p.T254K	.	.	181	69	103	0	.	91
ZNF117	51351	hgsc.bcm.edu	37	7	64439846	64439846	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ZNF117	NM_015852	exon4	c.A103G	p.T35A	.	.	60	4	68	0	.	91
ZNF446	55663	hgsc.bcm.edu	37	19	58991708	58991708	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ZNF446	NM_017908	exon7	c.A968G	p.E323G	.	.	58	4	80	0	.	91
ZNF566	84924	hgsc.bcm.edu	37	19	36940828	36940828	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ZNF566	NM_001145343	exon5	c.A311G	p.E104G	.	.	96	4	120	0	.	90
ZNF639	51193	broad.mit.edu;bcgsc.ca	37	3	179051081	179051081	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ZNF639	NM_016331	exon7	c.G329A	p.C110Y	.	.	124	5	104	2	.	90
ZNF646	9726	hgsc.bcm.edu	37	16	31088548	31088548	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ZNF646	NM_014699	exon2	c.T903C	p.R301R	.	.	87	4	58	0	.	153
ZNF709	163051	hgsc.bcm.edu	37	19	12575010	12575010	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ZNF709	NM_152601	exon4	c.C1726T	p.R576X	.	.	72	4	57	0	.	90
ZNF816	125893	hgsc.bcm.edu	37	19	53454475	53454475	+	Missense_Mutation	SNP	C	C	T	rs79186164	byfrequency	TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ZNF816	NM_001202457	exon4	c.G553A	p.G185S	.	.	62	1	70	0	C|0.993;T|0.007	68
ZWILCH	55055	bcgsc.ca	37	15	66812952	66812952	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	ZWILCH	NM_017975	exon6	c.T545C	p.L182P	.	.	225	7	146	0	.	91
OR5L1	219437	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	55579735	55579736	+	Missense_Mutation	DNP	GG	GG	TT	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	.	.	.	p.G265F	.	.	.	.	.	.	.	
MPO	4353	hgsc.bcm.edu	37	17	56350840	56350841	+	Missense_Mutation	DNP	AT	AT	GG	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	.	.	.	p.M551P	.	.	.	.	.	.	.	
SERINC2	347735	hgsc.bcm.edu	37	1	31905905	31905906	+	Missense_Mutation	DNP	GT	GT	CA	novel		TCGA-BC-A3KF-01A-11D-A20W-10	TCGA-BC-A3KF-10A-01D-A20W-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	5df8ad51-b7d4-46a0-a522-f6c9a38067ff	90e68f39-b72a-45ea-85ff-92e633f5c29c	.	.	.	.	.	p.V378Q	.	.	.	.	.	.	.	
