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
AADAC	13	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	3	151545693	151545693	+	Nonsense_Mutation	SNP	T	T	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	AADAC	NM_001086	exon5	c.T933G	p.Y311X	.	.	55	17	65	0	.	280
AASDH	132949	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	57204730	57204730	+	Silent	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	AASDH	NM_181806	exon15	c.G3135T	p.G1045G	.	.	222	54	201	0	.	94
ABCA13	154664	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	48318705	48318705	+	Silent	SNP	T	T	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ABCA13	NM_152701	exon18	c.T7914A	p.I2638I	.	.	74	19	65	0	.	521
ABCB1	5243	bcgsc.ca	37	7	87138693	87138693	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ABCB1	NM_000927	exon27	c.G3387A	p.E1129E	.	.	81	5	84	0	.	582
ABCB1	5243	bcgsc.ca	37	7	87144733	87144733	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ABCB1	NM_000927	exon26	c.A3096G	p.E1032E	.	.	64	4	73	0	.	582
ABCC8	6833	broad.mit.edu;mdanderson.org	37	11	17430046	17430046	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ABCC8	NM_000352	exon23	c.G2713T	p.G905C	.	.	47	6	28	1	.	91
ACAP2	23527	bcgsc.ca	37	3	195016583	195016583	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ACAP2	NM_012287	exon17	c.A1526G	p.E509G	.	.	176	6	206	0	.	136
ACOT12	134526	bcgsc.ca	37	5	80655813	80655813	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ACOT12	NM_130767	exon5	c.G405A	p.V135V	.	.	123	5	179	0	.	92
ACVR1B	91	broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	52374781	52374781	+	Silent	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ACVR1B	NM_020328	exon4	c.G609T	p.V203V	.	.	125	36	100	1	.	1015
ACVR1B	91	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	52374782	52374782	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ACVR1B	NM_020328	exon4	c.G610T	p.A204S	.	.	122	34	100	0	.	1015
AGAP7	653268	broad.mit.edu;bcgsc.ca;mdanderson.org	37	10	51464927	51464927	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_001077685	exon7	c.C1529T	p.S510L	.	.	251	40	220	1	.	.
AGPAT9	84803	bcgsc.ca	37	4	84518581	84518581	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	AGPAT9	NM_001256422	exon10	c.911-2A>G	.	.	.	339	9	576	1	.	91
AKAP1	8165	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	55187484	55187484	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	AKAP1	NM_001242902	exon4	c.G1813T	p.V605F	.	.	60	17	59	0	.	227
AKAP4	8852	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	49955717	49955717	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	AKAP4	NM_003886	exon6	c.T2451A	p.S817R	.	.	73	32	67	1	.	540
AKAP6	9472	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	33293092	33293092	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	AKAP6	NM_004274	exon13	c.A6073G	p.N2025D	.	.	36	7	32	0	.	733
AKAP7	9465	bcgsc.ca	37	6	131466498	131466498	+	Silent	SNP	T	T	C	rs113449995		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	AKAP7	NM_016377	exon2	c.T93C	p.T31T	.	.	53	4	111	0	T|0.500;C|0.500	228
AKAP9	10142	bcgsc.ca	37	7	91622352	91622352	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	AKAP9	NM_005751	exon5	c.A559G	p.T187A	.	.	160	7	200	1	.	755
ALAS1	211	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	52240032	52240032	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ALAS1	NM_000688	exon7	c.G978A	p.M326I	.	.	131	43	123	2	.	93
ALB	213	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	74270094	74270094	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ALB	NM_000477	exon1	c.A50G	p.Y17C	.	.	361	63	350	1	.	96
ALDH3A1	218	broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	19645392	19645392	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ALDH3A1	NM_001135168	exon4	c.C614G	p.T205S	.	.	124	29	90	1	.	228
ANK3	288	bcgsc.ca	37	10	61946603	61946603	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ANK3	NM_020987	exon17	c.A1955G	p.E652G	.	.	245	8	210	2	.	107
ANKRD30B	374860	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	14850260	14850260	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ANKRD30B	NM_001145029	exon35	c.T3086C	p.L1029S	.	.	348	80	406	0	.	24
ANKRD30BL	554226	bcgsc.ca	37	2	132919192	132919192	+	RNA	SNP	G	G	A	rs111295191		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	.	.	.	259	24	179	8	.	.
ANPEP	290	bcgsc.ca	37	15	90348667	90348667	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ANPEP	NM_001150	exon3	c.T642C	p.A214A	.	.	84	4	71	0	.	94
AP1AR	55435	bcgsc.ca	37	4	113186896	113186896	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	AP1AR	NM_018569	exon8	c.A447G	p.G149G	.	.	124	5	160	0	.	90
APOPT1	84334	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	14	104040498	104040498	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_032374	exon3	c.A415G	p.T139A	.	.	587	149	621	0	.	.
AQP9	366	bcgsc.ca	37	15	58430872	58430872	+	Silent	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	AQP9	NM_020980	exon1	c.G108A	p.L36L	.	.	69	4	98	0	.	91
ARCN1	372	bcgsc.ca	37	11	118454045	118454045	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ARCN1	NM_001655	exon3	c.A419G	p.E140G	.	.	69	4	56	0	.	90
ARID2	196528	bcgsc.ca	37	12	46298838	46298838	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ARID2	NM_152641	exon21	c.A5485G	p.K1829E	.	.	78	4	67	0	.	100
ARIH2OS	646450	bcgsc.ca	37	3	48956055	48956055	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_001123040	exon1	c.T528C	p.F176F	.	.	47	5	49	0	.	.
ASIC4	55515	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	2	220379823	220379823	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_182847	exon1	c.C758A	p.S253X	.	.	77	21	54	0	.	.
ASXL1	171023	broad.mit.edu;bcgsc.ca	37	20	31023639	31023639	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ASXL1	NM_015338	exon12	c.C3124T	p.P1042S	.	.	77	6	64	0	.	2057
ATP8B4	79895	bcgsc.ca	37	15	50339618	50339618	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ATP8B4	NM_024837	exon4	c.T131C	p.L44S	.	.	71	4	104	0	.	140
AZIN1	51582	ucsc.edu	37	8	103841636	103841636	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	AZIN1	NM_015878	exon12	c.A1099G	p.S367G	.	.	181	2	166	0	.	90
BCAP29	55973	bcgsc.ca	37	7	107253829	107253829	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	BCAP29	NM_018844	exon7	c.A642G	p.R214R	.	.	217	7	204	1	.	136
BCL7B	9275	bcgsc.ca	37	7	72957921	72957921	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	BCL7B	NM_001707	exon3	c.T222C	p.P74P	.	.	90	5	87	0	.	228
BIRC6	57448	bcgsc.ca	37	2	32640148	32640148	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	BIRC6	NM_016252	exon10	c.A1789G	p.T597A	.	.	86	4	88	0	.	233
BIRC6	57448	bcgsc.ca	37	2	32734831	32734831	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	BIRC6	NM_016252	exon52	c.A10007G	p.H3336R	.	.	92	4	78	0	.	233
BMP2	650	bcgsc.ca	37	20	6758930	6758930	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	BMP2	NM_001200	exon3	c.A385G	p.T129A	.	.	139	6	123	2	.	1044
BNC2	54796	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	16738381	16738381	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	BNC2	NM_017637	exon2	c.G106T	p.G36W	.	.	176	59	168	0	.	92
C10orf118	55088	bcgsc.ca	37	10	115905370	115905370	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	C10orf118	NM_018017	exon5	c.A1039G	p.T347A	.	.	163	6	239	1	.	92
C19orf77	284422	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	3474916	3474916	+	Silent	SNP	T	T	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_001136503	exon4	c.A318C	p.G106G	.	.	227	68	254	0	.	.
C1orf100	200159	bcgsc.ca	37	1	244538740	244538740	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	C1orf100	NM_001276348	exon3	c.T123C	p.H41H	.	.	76	4	62	0	.	90
C1orf226	400793	bcgsc.ca	37	1	162353244	162353244	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	C1orf226	NM_001135240	exon3	c.T719C	p.L240P	.	.	117	6	80	0	.	1
C1RL	51279	bcgsc.ca	37	12	7249557	7249557	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	C1RL	NM_016546	exon6	c.T894C	p.S298S	.	.	100	5	82	0	.	91
C2CD2L	9854	bcgsc.ca	37	11	118984422	118984422	+	Missense_Mutation	SNP	C	C	A	rs140896620	alternate_allele	TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	C2CD2L	NM_014807	exon11	c.C1489A	p.P497T	.	.	84	5	98	1	C|0.994;T|0.006	68
C3P1	388503	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	10166314	10166314	+	RNA	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	C3P1	.	.	.	.	.	.	223	67	152	0	.	90
C5orf42	65250	bcgsc.ca	37	5	37230999	37230999	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	C5orf42	NM_023073	exon9	c.T1091C	p.F364S	.	.	83	4	87	0	.	94
C7orf43	55262	bcgsc.ca	37	7	99755342	99755342	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	C7orf43	NM_018275	exon3	c.T551C	p.V184A	.	.	79	5	66	0	.	90
C7orf72	100130988	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	50135895	50135895	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	C7orf72	NM_001161834	exon1	c.C214T	p.P72S	.	.	285	61	267	0	.	23
C8B	732	bcgsc.ca	37	1	57431548	57431548	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	C8B	NM_000066	exon1	c.T74C	p.L25P	.	.	67	5	88	0	.	92
CACNG4	27092	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	65026740	65026740	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CACNG4	NM_014405	exon4	c.G604T	p.A202S	.	.	77	28	73	0	.	90
CALCRL	10203	ucsc.edu	37	2	188243695	188243695	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CALCRL	NM_001271751	exon7	c.A472G	p.I158V	.	.	39	5	50	0	.	523
CBS	875	bcgsc.ca	37	21	44488666	44488666	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CBS	NM_000071	exon4	c.T269C	p.V90A	.	.	82	4	113	0	.	90
CBWD5	220869	hgsc.bcm.edu;broad.mit.edu	37	9	70484455	70484455	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CBWD5	NM_001024916	exon3	c.258delA	p.K86fs	.	.	3148	257	3269	0	.	22
CCAR1	55749	ucsc.edu	37	10	70509411	70509411	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CCAR1	NM_018237	exon10	c.A1087G	p.T363A	.	.	48	5	33	0	.	159
CCDC141	285025	bcgsc.ca	37	2	179826200	179826200	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CCDC141	NM_173648	exon5	c.A537G	p.E179E	.	.	167	6	190	0	.	78
CCDC6	8030	ucsc.edu;bcgsc.ca;mdanderson.org	37	10	61592392	61592392	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CCDC6	NM_005436	exon3	c.A473T	p.E158V	.	.	308	77	266	2	.	686
CCDC73	493860	bcgsc.ca	37	11	32674757	32674757	+	Missense_Mutation	SNP	A	A	G	rs79980328	byfrequency	TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CCDC73	NM_001008391	exon12	c.T851C	p.V284A	.	.	120	5	117	1	A|0.992;G|0.008	91
CCP110	9738	bcgsc.ca	37	16	19562564	19562564	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CCP110	NM_014711	exon15	c.A2947G	p.N983D	.	.	182	6	195	1	.	90
CDC14B	8555	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	99285642	99285642	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CDC14B	NM_033331	exon11	c.G1146C	p.E382D	.	.	222	57	230	0	.	228
CDC42BPA	8476	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	227316906	227316908	+	In_Frame_Del	DEL	GCA	GCA	-	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	GCA	GCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CDC42BPA	NM_003607	exon11	c.1415_1417del	p.472_473del	.	.	426	107	584	0	.	549
CDH11	1009	broad.mit.edu;bcgsc.ca;mdanderson.org	37	16	65038672	65038672	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CDH11	NM_001797	exon3	c.C101T	p.S34F	.	.	54	12	37	1	.	852
CELSR1	9620	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	46829366	46829366	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CELSR1	NM_014246	exon5	c.C4535T	p.T1512M	.	.	33	9	33	0	.	525
CEP152	22995	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	49048388	49048388	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CEP152	NM_014985	exon20	c.T3057C	p.C1019C	.	.	201	54	174	1	.	70
CHL1	10752	bcgsc.ca	37	3	424176	424176	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CHL1	NM_001253388	exon16	c.A1998G	p.E666E	.	.	103	5	116	0	.	583
CHRNA9	55584	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	40351066	40351066	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CHRNA9	NM_017581	exon4	c.A533G	p.Y178C	.	.	197	50	197	1	.	96
CLCA2	9635	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	86916353	86916353	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CLCA2	NM_006536	exon12	c.A2092T	p.S698C	.	.	129	14	165	0	.	155
CLSPN	63967	bcgsc.ca	37	1	36205070	36205070	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CLSPN	NM_022111	exon19	c.A3204G	p.E1068E	.	.	191	6	186	1	.	293
CNGA3	1261	broad.mit.edu	37	2	99013400	99013400	+	Silent	SNP	C	C	G	rs137950660	byfrequency;alternate_allele	TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CNGA3	NM_001298	exon8	c.C1767G	p.T589T	.	.	24	5	23	0	C|0.999;T|0.001	96
CNKSR2	22866	ucsc.edu;bcgsc.ca	37	X	21624911	21624911	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CNKSR2	NM_014927	exon19	c.A2059G	p.S687G	.	.	48	5	33	0	.	625
CNTRL	11064	bcgsc.ca	37	9	123858718	123858718	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CNTRL	NM_007018	exon4	c.A498G	p.E166E	.	.	68	4	63	0	.	661
COBL	23242	bcgsc.ca	37	7	51096428	51096428	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	COBL	NM_015198	exon10	c.A2365G	p.R789G	.	.	90	6	80	1	.	95
COL16A1	1307	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	32151294	32151294	+	Silent	SNP	T	T	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	COL16A1	NM_001856	exon29	c.A1962C	p.P654P	.	.	162	36	107	0	.	98
COL17A1	1308	ucsc.edu	37	10	105792483	105792483	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	COL17A1	NM_000494	exon55	c.C4387A	p.H1463N	.	.	42	5	71	1	.	95
COL4A1	1282	ucsc.edu;bcgsc.ca	37	13	110828996	110828996	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	COL4A1	NM_001845	exon35	c.A2945G	p.Q982R	.	.	39	4	55	0	.	654
COL6A2	1292	bcgsc.ca	37	21	47545429	47545429	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	COL6A2	NM_058175	exon25	c.T1867C	p.S623P	.	.	52	5	83	0	.	515
CPEB1	64506	bcgsc.ca	37	15	83215238	83215238	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CPEB1	NM_030594	exon11	c.T1528C	p.C510R	.	.	144	5	142	0	.	136
CRY1	1407	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	107386611	107386611	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	CRY1	NM_004075	exon12	c.A1715C	p.D572A	.	.	102	38	132	1	.	93
CWC25	54883	bcgsc.ca	37	17	36958428	36958428	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_017748	exon10	c.T1195C	p.S399P	.	.	70	4	41	0	.	.
DDX23	9416	bcgsc.ca	37	12	49231406	49231406	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DDX23	NM_004818	exon7	c.G654A	p.R218R	.	.	150	6	161	1	.	539
DDX5	1655	bcgsc.ca	37	17	62500209	62500209	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DDX5	NM_004396	exon4	c.A333G	p.R111R	.	.	150	5	160	2	.	228
DECR1	1666	bcgsc.ca	37	8	91029441	91029441	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DECR1	NM_001359	exon2	c.A159G	p.P53P	.	.	85	5	86	0	.	90
DFNB59	494513	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	179325171	179325171	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DFNB59	NM_001042702	exon6	c.G764C	p.R255T	.	.	105	20	126	0	.	22
DGKG	1608	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	185993350	185993350	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DGKG	NM_001346	exon10	c.G896A	p.G299D	.	.	54	17	46	0	.	714
DHRS7	51635	bcgsc.ca	37	14	60619811	60619811	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DHRS7	NM_016029	exon4	c.A479G	p.E160G	.	.	135	5	124	0	.	91
DNAH17	8632	bcgsc.ca	37	17	76482173	76482173	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DNAH17	NM_173628	exon46	c.G7144A	p.E2382K	.	.	111	6	67	0	.	142
DNAJC17	55192	ucsc.edu	37	15	41072192	41072192	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DNAJC17	NM_018163	exon2	c.A82G	p.K28E	.	.	45	4	40	0	.	226
DOCK4	9732	bcgsc.ca	37	7	111422962	111422962	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DOCK4	NM_014705	exon34	c.A3516G	p.G1172G	.	.	65	5	79	0	.	26
DOPEY2	9980	bcgsc.ca	37	21	37618315	37618315	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DOPEY2	NM_005128	exon19	c.T4037C	p.V1346A	.	.	73	6	89	0	.	91
DPYSL4	10570	ucsc.edu	37	10	134016218	134016218	+	Silent	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DPYSL4	NM_006426	exon12	c.C1350A	p.G450G	.	.	40	4	41	2	.	514
DPYSL5	56896	broad.mit.edu	37	2	27121551	27121551	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DPYSL5	NM_001253724	exon2	c.G184A	p.G62S	.	.	189	5	160	1	.	92
DROSHA	29102	ucsc.edu;bcgsc.ca	37	5	31448654	31448654	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DROSHA	NM_013235	exon22	c.G2882A	p.R961K	.	.	45	4	40	0	.	227
DYNC1I2	1781	bcgsc.ca	37	2	172585298	172585298	+	Silent	SNP	T	T	C	rs78255103	byfrequency	TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	DYNC1I2	NM_001378	exon14	c.T1329C	p.D443D	.	.	413	21	400	11	T|0.333;C|0.667	91
EFR3A	23167	bcgsc.ca	37	8	132971897	132971897	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	EFR3A	NM_015137	exon8	c.T842C	p.M281T	.	.	176	6	253	0	.	139
EIF2B4	8890	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	27590024	27590024	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	EIF2B4	NM_172195	exon9	c.G990A	p.E330E	.	.	81	22	79	0	.	90
ELAVL1	1994	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	8038704	8038704	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ELAVL1	NM_001419	exon4	c.G335T	p.G112V	.	.	125	38	120	0	.	90
ELMSAN1	91748	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	74189521	74189521	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_194278	exon10	c.G2604A	p.V868V	.	.	116	36	87	0	.	.
ENAM	10117	bcgsc.ca	37	4	71508604	71508604	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ENAM	NM_031889	exon9	c.T1461C	p.S487S	.	.	94	5	74	0	.	93
ENTPD4	9583	bcgsc.ca	37	8	23302089	23302089	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ENTPD4	NM_004901	exon5	c.A443G	p.K148R	.	.	117	5	75	0	.	92
EPG5	57724	bcgsc.ca	37	18	43493771	43493771	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	EPG5	NM_020964	exon21	c.T3716C	p.L1239P	.	.	72	4	66	0	.	580
EPHB1	2047	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	134920367	134920367	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	EPHB1	NM_004441	exon12	c.A2182T	p.I728F	.	.	153	32	133	0	.	1492
EXOC1	55763	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	56759928	56759928	+	Silent	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	EXOC1	NM_018261	exon15	c.G1935A	p.R645R	.	.	76	23	78	0	.	950
FAIM2	23017	bcgsc.ca	37	12	50291788	50291788	+	Silent	SNP	A	A	G	rs145592381		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	FAIM2,NS,carcinoma,-2	FAIM2	NM_012306	exon3	c.T297C	p.R99R	.	.	108	5	115	1	A|1.000;G|0.000	230
FAM135A	57579	bcgsc.ca	37	6	71234518	71234518	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FAM135A	NM_001162529	exon13	c.A1731G	p.P577P	.	.	80	4	80	0	.	90
FAM205A	259308	broad.mit.edu	37	9	34726728	34726728	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_001141917	exon4	c.C509T	p.P170L	.	.	108	4	80	0	.	.
FAM49B	51571	bcgsc.ca	37	8	130859118	130859118	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FAM49B	NM_016623	exon11	c.G843A	p.M281I	.	.	50	4	58	0	.	90
FAM98A	25940	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	33810097	33810097	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FAM98A	NM_015475	exon8	c.A1303G	p.S435G	.	.	116	32	108	0	.	91
FAS	355	bcgsc.ca	37	10	90774131	90774131	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FAS	NM_000043	exon9	c.A932G	p.Q311R	.	.	56	4	57	0	.	847
FBF1	85302	broad.mit.edu;bcgsc.ca	37	17	73919636	73919636	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FBF1	NM_001080542	exon13	c.C1010G	p.P337R	.	.	103	22	106	0	.	205
FBN2	2201	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	127727761	127727761	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FBN2	NM_001999	exon11	c.G1553C	p.R518P	.	.	136	24	171	0	.	146
FBXL3	26224	hgsc.bcm.edu	37	13	77581424	77581424	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FBXL3	NM_012158	exon5	c.G1143T	p.K381N	.	.	103	7	94	0	.	226
FBXL4	26235	bcgsc.ca	37	6	99374725	99374725	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FBXL4	NM_012160	exon3	c.T140C	p.L47P	.	.	124	5	100	0	.	227
FETUB	26998	bcgsc.ca	37	3	186358413	186358413	+	Missense_Mutation	SNP	A	A	G	rs143924813		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FETUB	NM_014375	exon1	c.A164G	p.D55G	.	.	87	5	91	1	A|1.000;G|0.000	92
FKBP15	23307	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	115948581	115948581	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FKBP15	NM_015258	exon15	c.G1446A	p.Q482Q	.	.	89	26	76	0	.	25
FMN1	342184	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	33359250	33359250	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FMN1	NM_001103184	exon1	c.G836T	p.G279V	.	.	125	25	109	0	.	23
FOXP1	27086	bcgsc.ca	37	3	71161759	71161759	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FOXP1	NM_001244815	exon2	c.T216C	p.L72L	.	.	71	4	187	3	.	415
FOXS1	2307	broad.mit.edu;bcgsc.ca;mdanderson.org	37	20	30432921	30432921	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FOXS1	NM_004118	exon1	c.G425C	p.G142A	.	.	33	12	19	0	.	69
FPR3	2359	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	19	52327451	52327451	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FPR3	NM_002030	exon2	c.G450C	p.W150C	.	.	162	11	141	0	.	501
FRG1	2483	bcgsc.ca	37	4	190878589	190878589	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FRG1	NM_004477	exon6	c.A469G	p.I157V	.	.	692	27	706	10	.	90
FRG1	2483	broad.mit.edu;bcgsc.ca	37	4	190876266	190876266	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FRG1	NM_004477	exon5	c.C392A	p.A131E	.	.	651	27	711	1	.	90
FRMPD4	9758	bcgsc.ca	37	X	12708339	12708339	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FRMPD4	NM_014728	exon8	c.A707G	p.K236R	.	.	75	4	77	0	.	263
FSD2	123722	bcgsc.ca	37	15	83428119	83428119	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	FSD2	NM_001007122	exon13	c.A2231G	p.K744R	.	.	59	5	50	0	.	90
GABRG1	2565	bcgsc.ca	37	4	46043242	46043242	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	GABRG1,NS,carcinoma,-1	GABRG1	NM_173536	exon9	c.T1161C	p.T387T	.	.	116	5	80	0	.	92
GDE1	51573	bcgsc.ca	37	16	19533164	19533164	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	GDE1	NM_016641	exon1	c.A123G	p.L41L	.	.	56	4	40	0	.	70
GFOD1	54438	broad.mit.edu;ucsc.edu	37	6	13470848	13470848	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	GFOD1	NM_001242629	exon2	c.A268G	p.R90G	.	.	42	5	47	0	.	92
GKAP1	80318	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	86403523	86403523	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	GKAP1	NM_025211	exon5	c.A431G	p.H144R	.	.	52	14	70	0	.	90
GLYAT	10249	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	58477428	58477428	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	GLYAT	NM_201648	exon6	c.G702C	p.L234F	.	.	101	20	79	0	.	90
GPATCH1	55094	bcgsc.ca	37	19	33585084	33585084	+	Silent	SNP	T	T	C	rs139857021		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	GPATCH1	NM_018025	exon5	c.T462C	p.S154S	.	.	78	4	82	0	T|1.000;C|0.000	91
GPC1	2817	bcgsc.ca	37	2	241401675	241401675	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	GPC1	NM_002081	exon3	c.A393G	p.G131G	.	.	68	6	64	3	.	153
GPR124	25960	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	8	37693203	37693203	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	GPR124	NM_032777	exon13	c.C1965G	p.H655Q	.	.	53	13	21	0	.	157
GRIK4	2900	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	120831700	120831700	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	GRIK4	NM_014619	exon15	c.A1957T	p.I653F	.	.	76	22	81	0	.	92
GSTA4	2941	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	52858985	52858985	+	Silent	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	GSTA4	NM_001512	exon2	c.G57T	p.V19V	.	.	55	15	42	0	.	90
GTF3C2	2976	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	27552031	27552031	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	GTF3C2	NM_001521	exon15	c.T1996G	p.C666G	.	.	97	25	65	0	.	92
GTPBP4	23560	ucsc.edu	37	10	1034457	1034457	+	Missense_Mutation	SNP	C	C	T	rs144664436	byfrequency	TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	GTPBP4	NM_012341	exon1	c.C38T	p.P13L	.	.	21	8	16	0	C|1.000;G|0.000;T|0.000	92
GUCY2C	2984	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	14774139	14774139	+	Silent	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	GUCY2C	NM_004963	exon23	c.C2613A	p.I871I	.	.	153	46	127	1	.	338
GUF1	60558	bcgsc.ca	37	4	44691387	44691387	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	GUF1	NM_021927	exon10	c.T1163C	p.V388A	.	.	77	5	69	0	.	91
HCCS	3052	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	X	11139892	11139892	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	HCCS	NM_001122608	exon7	c.G769C	p.D257H	.	.	32	15	33	0	.	226
HHIP	64399	broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	145579960	145579960	+	Missense_Mutation	SNP	C	C	T	rs149715142		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	HHIP	NM_022475	exon3	c.C491T	p.A164V	.	.	99	16	126	1	C|1.000;T|0.000	283
HIST1H3B	8358	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	6	26032209	26032209	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	HIST1H3B	NM_003537	exon1	c.G80A	p.R27H	.	.	29	10	22	0	.	92
HNRNPA1L2	144983	bcgsc.ca	37	13	53216662	53216662	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	HNRNPA1L2	NM_001011724	exon7	c.A35G	p.Q12R	.	.	118	5	90	0	.	90
HSFY1P1	27437	ucsc.edu;bcgsc.ca	37	22	17308771	17308771	+	RNA	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	.	.	.	54	5	54	1	.	.
IFLTD1	160492	bcgsc.ca	37	12	25656722	25656722	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	IFLTD1	NM_001145728	exon9	c.A1202G	p.K401R	.	.	120	5	146	0	.	92
IGSF3	3321	broad.mit.edu;bcgsc.ca	37	1	117158700	117158700	+	Splice_Site	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	IGSF3	NM_001542	exon4	c.421+2T>A	.	.	.	342	75	295	1	.	92
IL12A	3592	broad.mit.edu;bcgsc.ca	37	3	159713218	159713218	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	IL12A	NM_000882	exon7	c.C634T	p.P212S	.	.	148	6	176	1	.	90
IL12RB2	3595	bcgsc.ca	37	1	67838159	67838159	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	IL12RB2	NM_001559	exon11	c.T1500C	p.Y500Y	.	.	110	6	105	0	.	92
IMPG1	3617	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	76715138	76715138	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	IMPG1	NM_001563	exon10	c.A1001T	p.E334V	.	.	358	79	344	0	.	93
INPP1	3628	bcgsc.ca	37	2	191225014	191225014	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	INPP1	NM_002194	exon2	c.A186G	p.K62K	.	.	58	4	38	0	.	228
INPPL1	3636	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	11	71948271	71948271	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	INPPL1	NM_001567	exon26	c.C2983T	p.Q995X	.	.	35	10	30	0	.	660
INTS5	80789	ucsc.edu	37	11	62414647	62414647	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	INTS5	NM_030628	exon2	c.T2905C	p.F969L	.	.	47	4	25	0	.	92
IQGAP1	8826	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	91017734	91017734	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	IQGAP1	NM_003870	exon23	c.C2593T	p.P865S	.	.	101	28	92	0	.	950
ITSN1	6453	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	21	35172168	35172168	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ITSN1	NM_001001132	exon19	c.G2239A	p.A747T	.	.	31	8	44	0	.	94
JHDM1D	80853	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	139819020	139819020	+	Splice_Site	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	JHDM1D	NM_030647	exon10	c.1140-1G>T	.	.	.	81	23	110	0	.	91
JKAMP	51528	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	14	59965466	59965466	+	Nonsense_Mutation	SNP	T	T	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	JKAMP	NM_016475	exon5	c.T480G	p.Y160X	.	.	108	29	140	0	.	67
JMJD1C	221037	bcgsc.ca	37	10	64957266	64957266	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	JMJD1C	NM_032776	exon13	c.A5549G	p.E1850G	.	.	198	7	197	0	.	275
KATNA1	11104	bcgsc.ca	37	6	149944268	149944268	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KATNA1	NM_007044	exon4	c.A472G	p.K158E	.	.	146	6	182	0	.	91
KBTBD6	89890	broad.mit.edu	37	13	41705907	41705907	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KBTBD6	NM_152903	exon1	c.G741A	p.L247L	.	.	70	4	61	0	.	92
KCNJ15	3772	bcgsc.ca	37	21	39671557	39671557	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KCNJ15	NM_002243	exon4	c.C374G	p.S125C	.	.	56	5	60	0	.	157
KCNJ4	3761	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	38823337	38823337	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KCNJ4	NM_004981	exon2	c.G801T	p.E267D	.	.	62	24	39	0	.	90
KCTD16	57528	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	143586733	143586733	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KCTD16	NM_020768	exon3	c.C456T	p.P152P	.	.	77	21	72	0	.	137
KDR	3791	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	55955862	55955862	+	Silent	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KDR	NM_002253	exon24	c.C3300T	p.S1100S	.	.	120	28	139	0	.	2298
KIAA0146	23514	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	8	48508456	48508456	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KIAA0146	NM_001080394	exon9	c.C1181G	p.S394X	.	.	119	31	156	0	.	68
KIAA1033	23325	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	105509006	105509006	+	Silent	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KIAA1033	NM_015275	exon5	c.A366T	p.G122G	.	.	404	80	562	1	.	91
KIAA2018	205717	bcgsc.ca	37	3	113379907	113379907	+	Missense_Mutation	SNP	G	G	A	rs201244170		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KIAA2018	NM_001009899	exon7	c.C622T	p.P208S	.	.	57	4	72	0	.	93
KIF21B	23046	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	200973575	200973575	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KIF21B	NM_017596	exon7	c.G909T	p.L303F	.	.	95	23	59	0	.	96
KIF5A	3798	bcgsc.ca	37	12	57960917	57960917	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KIF5A	NM_004984	exon7	c.T510C	p.T170T	.	.	59	4	64	0	.	517
KLF6	1316	broad.mit.edu;ucsc.edu;mdanderson.org	37	10	3824157	3824157	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KLF6	NM_001160125	exon2	c.G352T	p.E118X	.	.	181	54	149	1	.	1134
KLHL29	114818	broad.mit.edu	37	2	23785124	23785124	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KLHL29	NM_052920	exon3	c.G58A	p.E20K	.	.	22	5	19	0	.	70
KRT72	140807	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	52979897	52979897	+	Missense_Mutation	SNP	C	C	A	rs34119325	byfrequency;alternate_allele	TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	KRT72	NM_001146225	exon9	c.G1405T	p.A469S	.	.	71	10	48	0	C|0.996;T|0.004	96
KRTAP7-1	337878	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	21	32201797	32201797	+	Silent	SNP	T	T	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_181606	exon2	c.A220C	p.R74R	.	.	98	25	69	0	.	.
L2HGDH	79944	bcgsc.ca	37	14	50734575	50734575	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	L2HGDH	NM_024884	exon8	c.T960C	p.D320D	.	.	100	5	84	0	.	92
LAMTOR3	8649	bcgsc.ca	37	4	100806771	100806771	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	LAMTOR3	NM_021970	exon5	c.T165C	p.L55L	.	.	206	6	250	0	.	658
LDHAL6B	92483	bcgsc.ca	37	15	59499542	59499542	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	LDHAL6B	NM_033195	exon1	c.A403G	p.T135A	.	.	134	5	130	0	.	226
LGALS9	3965	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	25967778	25967778	+	Silent	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	LGALS9	NM_009587	exon3	c.G312T	p.L104L	.	.	218	48	195	3	.	226
LGALS9B	284194	broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	20354888	20354888	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	LGALS9B	NM_001042685	exon10	c.C827G	p.A276G	.	.	297	83	234	0	.	23
LINC00238	440184	bcgsc.ca	37	14	66965149	66965149	+	RNA	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	.	.	.	121	6	126	0	.	.
LOC643733	0	broad.mit.edu	37	11	104776232	104776232	+	RNA	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	.	.	.	58	15	76	0	.	.
LRRC15	131578	broad.mit.edu	37	3	194081149	194081149	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	LRRC15	NM_001135057	exon3	c.G642A	p.R214R	.	.	140	4	106	0	.	71
LRRC8B	23507	bcgsc.ca	37	1	90049375	90049375	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	LRRC8B	NM_015350	exon5	c.C1166T	p.S389L	.	.	111	5	160	0	.	92
LRRIQ1	84125	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	85450424	85450424	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	LRRIQ1	NM_001079910	exon8	c.C1853T	p.S618L	.	.	169	32	218	1	.	95
LRRTM4	80059	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	77745674	77745674	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	LRRTM4	NM_024993	exon3	c.T1321C	p.L441L	.	.	158	55	141	1	.	94
LTN1	26046	bcgsc.ca	37	21	30304912	30304912	+	Silent	SNP	T	T	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	LTN1	NM_015565	exon28	c.A5088T	p.I1696I	.	.	79	2	83	0	.	530
LY75	4065	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	160665051	160665051	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	LY75	NM_002349	exon33	c.T4731A	p.D1577E	.	.	140	40	163	0	.	90
LYST	1130	bcgsc.ca	37	1	235929463	235929463	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	LYST	NM_000081	exon21	c.T6037C	p.F2013L	.	.	205	6	198	0	.	143
LZIC	84328	bcgsc.ca	37	1	9994861	9994861	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	LZIC	NM_032368	exon4	c.G295A	p.A99T	.	.	77	4	64	0	.	90
MAN2A1	4124	bcgsc.ca	37	5	109091063	109091063	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MAN2A1	NM_002372	exon5	c.A741G	p.T247T	.	.	195	8	200	2	.	92
MAN2B1	4125	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	12776599	12776599	+	Silent	SNP	C	C	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MAN2B1	NM_001173498	exon2	c.G180C	p.P60P	.	.	100	33	67	1	.	94
MAP2	4133	bcgsc.ca	37	2	210543294	210543294	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MAP2	NM_001039538	exon6	c.263-2A>G	.	.	.	136	5	100	0	.	591
MAP3K3	4215	bcgsc.ca	37	17	61735202	61735202	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MAP3K3	NM_203351	exon6	c.A409G	p.I137V	.	.	87	6	76	0	.	979
MARVELD2	153562	bcgsc.ca	37	5	68715438	68715438	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MARVELD2	NM_001244734	exon2	c.A226G	p.K76E	.	.	60	4	63	0	.	22
MBD1	4152	broad.mit.edu;ucsc.edu;mdanderson.org	37	18	47800056	47800056	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MBD1	NM_001204137	exon13	c.G1399T	p.E467X	.	.	95	26	83	1	.	228
MCCC2	64087	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	70936898	70936898	+	Silent	SNP	T	T	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MCCC2	NM_022132	exon11	c.T1068A	p.V356V	.	.	93	19	88	0	.	23
MCM4	4173	mdanderson.org	37	8	48883356	48883356	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MCM4	NM_182746	exon12	c.G1720T	p.D574Y	.	.	44	8	40	1	.	230
MED1	5469	bcgsc.ca	37	17	37599880	37599880	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MED1	NM_004774	exon3	c.A134G	p.E45G	.	.	152	7	149	0	.	620
MED24	9862	ucsc.edu;bcgsc.ca	37	17	38185195	38185195	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MED24	NM_014815	exon14	c.A1293G	p.S431S	.	.	43	5	53	1	.	187
MEIOB	254528	bcgsc.ca	37	16	1904128	1904128	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_001163560	exon7	c.A602G	p.E201G	.	.	145	7	144	0	.	.
METTL25	84190	broad.mit.edu	37	12	82792976	82792976	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_032230	exon4	c.T934C	p.F312L	.	.	341	8	410	2	.	.
MGAM	8972	bcgsc.ca	37	7	141708368	141708368	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MGAM	NM_004668	exon3	c.A190G	p.T64A	.	.	210	6	189	1	.	70
MIR450A2	574505	broad.mit.edu;ucsc.edu;mdanderson.org	37	X	133674546	133674546	+	RNA	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	.	.	.	219	117	319	0	.	.
MME	4311	broad.mit.edu;bcgsc.ca	37	3	154832794	154832794	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MME	NM_007287	exon4	c.A208G	p.I70V	.	.	93	5	95	1	.	516
MMP9	4318	bcgsc.ca	37	20	44644934	44644934	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MMP9	NM_004994	exon13	c.C2051T	p.S684F	.	.	108	5	66	0	.	652
MOXD1	26002	bcgsc.ca	37	6	132693823	132693823	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MOXD1	NM_015529	exon4	c.T587C	p.I196T	.	.	132	6	145	0	.	515
MPHOSPH8	54737	bcgsc.ca	37	13	20221318	20221318	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MPHOSPH8	NM_017520	exon3	c.A1105G	p.S369G	.	.	142	7	140	0	.	68
MRAP	56246	ucsc.edu	37	21	33671371	33671371	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MRAP	NM_206898	exon3	c.A89G	p.K30R	.	.	45	4	36	0	.	90
MSN	4478	bcgsc.ca	37	X	64951779	64951779	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MSN	NM_002444	exon6	c.A631G	p.K211E	.	.	71	4	70	0	.	1086
MUC6	4588	bcgsc.ca	37	11	1026343	1026343	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MUC6	NM_005961	exon20	c.A2530G	p.T844A	.	.	43	4	36	0	.	23
MYO1E	4643	bcgsc.ca	37	15	59464209	59464209	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MYO1E	NM_004998	exon22	c.G2367A	p.K789K	.	.	62	4	55	0	.	514
MYO5A	4644	broad.mit.edu	37	15	52646201	52646201	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MYO5A	NM_000259	exon26	c.A3434G	p.E1145G	.	.	80	6	53	1	.	93
MYOM1	8736	hgsc.bcm.edu	37	18	3116449	3116450	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	MYOM1	NM_003803	exon21	c.3183_3184insC	p.P1061fs	.	.	90	10	77	0	.	94
NARS2	79731	bcgsc.ca	37	11	78154708	78154708	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	NARS2	NM_024678	exon12	c.A1261G	p.R421G	.	.	92	6	64	1	.	92
NDUFAF7	55471	bcgsc.ca	37	2	37468814	37468814	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_144736	exon5	c.A502G	p.T168A	.	.	86	4	114	1	.	.
NDUFC2	4718	bcgsc.ca	37	11	77780929	77780929	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	NDUFC2	NM_001204054	exon3	c.A257G	p.D86G	.	.	174	6	134	0	.	90
NELFCD	51497	bcgsc.ca	37	20	57565008	57565008	+	Silent	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_198976	exon7	c.G807A	p.R269R	.	.	30	4	24	0	.	.
NFATC2	4773	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	50092056	50092056	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	NFATC2	NM_012340	exon4	c.A1474C	p.I492L	.	.	329	83	308	0	.	92
NLRP1	22861	bcgsc.ca	37	17	5424237	5424237	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	NLRP1	NM_001033053	exon14	c.T3891C	p.S1297S	.	.	51	4	57	0	.	274
NLRP3	114548	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	1	247582364	247582364	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	NLRP3	NM_183395	exon1	c.G268T	p.D90Y	.	.	19	10	16	0	.	674
NOL10	79954	bcgsc.ca	37	2	10729745	10729745	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_024894	exon18	c.A1555G	p.K519E	.	.	153	5	167	0	.	.
NOL8	55035	bcgsc.ca	37	9	95072516	95072516	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	NOL8	NM_017948	exon10	c.A2623G	p.T875A	.	.	82	4	82	0	.	23
NOS1AP	9722	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	162337003	162337003	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	NOS1AP	NM_014697	exon10	c.G1267T	p.D423Y	.	.	43	12	41	0	.	228
NPHP1	4867	bcgsc.ca	37	2	110927426	110927426	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	NPHP1	NM_207181	exon5	c.T479C	p.V160A	.	.	141	6	142	0	.	92
NPHS2	7827	bcgsc.ca	37	1	179526297	179526297	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	NPHS2	NM_014625	exon5	c.T603C	p.S201S	.	.	205	6	187	0	.	90
NRDE2	55051	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	90764607	90764607	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_017970	exon8	c.C1663A	p.P555T	.	.	52	10	29	0	.	.
NRG2	9542	ucsc.edu;bcgsc.ca	37	5	139235271	139235271	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	NRG2	NM_013982	exon7	c.T1306C	p.C436R	.	.	57	5	50	0	.	526
NUDT18	79873	bcgsc.ca	37	8	21965802	21965802	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_024815	exon4	c.T218C	p.L73P	.	.	50	4	57	0	.	.
NUP188	23511	bcgsc.ca	37	9	131763939	131763939	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	NUP188	NM_015354	exon35	c.C3975T	p.R1325R	.	.	71	4	51	0	.	207
NVL	4931	bcgsc.ca	37	1	224473819	224473819	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	NVL	NM_002533	exon15	c.A1808G	p.N603S	.	.	106	6	81	0	.	92
OR1S2	219958	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	57970715	57970715	+	Silent	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	OR1S2	NM_001004459	exon1	c.C939T	p.A313A	.	.	101	27	115	0	.	69
OR51G1	79324	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	4944842	4944842	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	OR51G1	NM_001005237	exon1	c.G728T	p.C243F	.	.	119	22	118	0	.	70
OSGEPL1	64172	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	190617632	190617632	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_022353	exon6	c.G1037A	p.C346Y	.	.	271	60	312	0	.	.
OSGIN2	734	bcgsc.ca	37	8	90936766	90936766	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	OSGIN2	NM_001126111	exon6	c.T656C	p.I219T	.	.	139	5	167	0	.	68
OXSM	54995	bcgsc.ca	37	3	25835929	25835929	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	OXSM	NM_017897	exon3	c.A1324G	p.T442A	.	.	109	5	110	0	.	132
P2RY1	5028	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	152553878	152553878	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	P2RY1	NM_002563	exon1	c.A307C	p.T103P	.	.	156	39	110	1	.	500
PABPC1	26986	broad.mit.edu	37	8	101724606	101724606	+	Missense_Mutation	SNP	G	G	A	rs202060459		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PABPC1	NM_002568	exon7	c.C956T	p.T319I	.	.	363	9	388	1	.	68
PADI2	11240	broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	17402191	17402191	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PADI2	NM_007365	exon12	c.C1438T	p.P480S	.	.	46	15	28	1	.	208
PCDH9	5101	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	66878891	66878891	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PCDH9	NM_203487	exon5	c.C3610T	p.H1204Y	.	.	365	82	345	0	.	96
PCDH9	5101	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	67800949	67800949	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PCDH9	NM_203487	exon2	c.G1624A	p.V542I	.	.	141	39	164	0	.	96
PCDHA2	56146	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	140176834	140176834	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PCDHA2	NM_031495	exon1	c.A2285T	p.E762V	.	.	225	59	201	0	.	94
PCDHA6	56142	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	140208267	140208267	+	Silent	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PCDHA6	NM_018909	exon1	c.G591A	p.K197K	.	.	74	20	82	0	.	92
PDE4DIP	9659	ucsc.edu;bcgsc.ca;mdanderson.org	37	1	144946701	144946701	+	Missense_Mutation	SNP	C	C	T	rs77741848	byfrequency	TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PDE4DIP	NM_001198832	exon8	c.G758A	p.R253K	.	.	211	27	257	0	C|0.976;T|0.024	663
PDZD2	23037	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	31983740	31983740	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PDZD2	NM_178140	exon2	c.A956T	p.Q319L	.	.	156	45	164	0	.	563
PDZRN3	23024	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	73453362	73453362	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PDZRN3	NM_015009	exon4	c.T1103C	p.M368T	.	.	170	50	178	2	.	232
PER2	8864	bcgsc.ca	37	2	239180001	239180001	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PER2	NM_022817	exon6	c.T724C	p.F242L	.	.	55	4	46	0	.	154
PFKP	5214	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	3150974	3150974	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PFKP	NM_002627	exon9	c.G952A	p.D318N	.	.	123	31	91	1	.	253
PGLYRP3	114771	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	153279733	153279733	+	Silent	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PGLYRP3	NM_052891	exon2	c.C66T	p.T22T	.	.	45	18	39	0	.	94
PIK3R3	8503	bcgsc.ca	37	1	46509394	46509394	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PIK3R3	NM_001114172	exon11	c.T1337C	p.V446A	.	.	73	4	84	0	.	1309
PKHD1	5314	bcgsc.ca	37	6	51799063	51799063	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PKHD1	NM_170724	exon37	c.T5966C	p.L1989P	.	.	63	4	48	0	.	603
PKP2	5318	bcgsc.ca	37	12	33021863	33021863	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PKP2	NM_004572	exon4	c.A1168G	p.R390G	.	.	69	5	69	0	.	92
PLEKHA5	54477	bcgsc.ca	37	12	19436525	19436525	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PLEKHA5	NM_001256470	exon12	c.A1625G	p.Q542R	.	.	120	6	87	0	.	227
PMS1	5378	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	190718971	190718971	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PMS1	NM_001128144	exon9	c.G973A	p.V325I	.	.	133	28	159	0	.	1396
PNLIPRP1	5407	bcgsc.ca	37	10	118357356	118357356	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PNLIPRP1	NM_006229	exon7	c.A591G	p.E197E	.	.	172	6	240	0	.	154
PNLIPRP1	5407	bcgsc.ca	37	10	118368600	118368600	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PNLIPRP1	NM_006229	exon13	c.A1376G	p.D459G	.	.	50	4	52	0	.	154
POC1A	25886	bcgsc.ca	37	3	52172247	52172247	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	POC1A	NM_015426	exon7	c.T751C	p.S251P	.	.	88	5	71	0	.	90
POGZ	23126	bcgsc.ca	37	1	151377447	151377447	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	POGZ	NM_015100	exon19	c.A4064G	p.E1355G	.	.	217	7	231	2	.	93
POLI	11201	bcgsc.ca	37	18	51820173	51820173	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	POLI	NM_007195	exon10	c.T1559C	p.L520P	.	.	134	6	171	1	.	229
POLQ	10721	bcgsc.ca	37	3	121238847	121238847	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	POLQ	NM_199420	exon9	c.T1339C	p.S447P	.	.	131	5	124	1	.	664
POLRMT	5442	ucsc.edu;bcgsc.ca	37	19	621784	621784	+	Silent	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	POLRMT	NM_005035	exon10	c.G1914T	p.T638T	.	.	31	9	28	0	.	92
PON3	5446	bcgsc.ca	37	7	94993261	94993261	+	Silent	SNP	A	A	G	rs17880470	byfrequency	TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PON3	NM_000940	exon6	c.T609C	p.Y203Y	.	.	233	6	215	0	A|0.996;G|0.004	91
POTEA	340441	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	43152221	43152221	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	POTEA	NM_001005365	exon2	c.G358A	p.D120N	.	.	145	24	182	0	.	91
POTEJ	653781	bcgsc.ca	37	2	131414669	131414669	+	Missense_Mutation	SNP	G	G	A	rs4369872	bycluster	TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	.	.	.	77	30	64	18	A|1.000;|0.000	.
PPP1R21	129285	broad.mit.edu;bcgsc.ca	37	2	48685342	48685342	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_152994	exon4	c.A351G	p.E117E	.	.	240	7	254	0	.	.
PPP2R1A	5518	bcgsc.ca	37	19	52728990	52728990	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PPP2R1A	NM_014225	exon14	c.A1682G	p.K561R	.	.	76	5	72	0	.	1666
PPP2R5B	5526	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	64695804	64695804	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PPP2R5B	NM_006244	exon6	c.G629A	p.R210H	.	.	89	19	75	0	.	660
PRH1-PRR4	0	ucsc.edu	37	12	11001040	11001040	+	RNA	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	.	.	.	69	14	46	0	.	.
PRH2	5555	broad.mit.edu	37	12	11083284	11083284	+	Missense_Mutation	SNP	A	A	C	rs2923234	byfrequency;bysubmitter	TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PRH2	NM_001110213	exon3	c.A124C	p.I42L	.	.	173	9	170	1	A|0.543;C|0.457	90
PROCA1	147011	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	27038628	27038628	+	Silent	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PROCA1	NM_152465	exon1	c.C51A	p.T17T	.	.	82	18	64	0	.	91
PRPF40A	55660	bcgsc.ca	37	2	153515872	153515872	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PRPF40A	NM_017892	exon23	c.2323-2A>G	.	.	.	144	5	181	0	.	68
PRPS2	5634	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	12838904	12838904	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PRPS2	NM_001039091	exon6	c.A855G	p.K285K	.	.	42	23	35	0	.	130
PRR12	57479	bcgsc.ca	37	19	50103057	50103057	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PRR12	NM_020719	exon5	c.T4207C	p.S1403P	.	.	52	5	37	1	.	70
PSD3	23362	bcgsc.ca	37	8	18623030	18623030	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PSD3	NM_015310	exon9	c.A2101G	p.T701A	.	.	54	4	75	0	.	93
PSMB1	5689	bcgsc.ca	37	6	170852729	170852729	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PSMB1	NM_002793	exon4	c.A393G	p.P131P	.	.	111	5	120	0	.	91
PTCHD3	374308	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	27702131	27702131	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PTCHD3	NM_001034842	exon1	c.T1049C	p.F350S	.	.	129	37	109	0	.	94
PTPN22	26191	broad.mit.edu	37	1	114397659	114397659	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PTPN22	NM_015967	exon8	c.A553G	p.I185V	.	.	102	5	81	0	.	227
PTPN4	5775	bcgsc.ca	37	2	120723215	120723215	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PTPN4	NM_002830	exon25	c.A2552G	p.H851R	.	.	139	6	132	0	.	228
PTPRH	5794	bcgsc.ca	37	19	55702905	55702905	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PTPRH	NM_002842	exon12	c.A2348G	p.K783R	.	.	155	5	150	0	.	138
PTX3	5806	bcgsc.ca	37	3	157154782	157154782	+	Silent	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PTX3	NM_002852	exon1	c.G60T	p.S20S	.	.	157	6	156	0	.	514
PXMP4	11264	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	20	32298387	32298387	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	PXMP4	NM_007238	exon3	c.G349T	p.G117X	.	.	163	40	161	0	.	90
R3HCC1L	27291	bcgsc.ca	37	10	99968064	99968064	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_001256620	exon4	c.A193G	p.K65E	.	.	73	4	86	0	.	.
RAB3IP	117177	bcgsc.ca	37	12	70178592	70178592	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RAB3IP	NM_175623	exon4	c.T651C	p.F217F	.	.	133	5	115	0	.	227
RAD9B	144715	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	110959986	110959986	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RAD9B	NM_152442	exon10	c.G895A	p.D299N	.	.	141	33	126	0	.	228
RALGAPA2	57186	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	20571891	20571891	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RALGAPA2	NM_020343	exon17	c.G2271A	p.Q757Q	.	.	74	19	74	1	.	24
RASA3	22821	bcgsc.ca	37	13	114748766	114748766	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RASA3	NM_007368	exon24	c.T2497C	p.S833P	.	.	73	5	69	1	.	658
RASSF6	166824	bcgsc.ca	37	4	74464399	74464399	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RASSF6	NM_201431	exon3	c.T198C	p.I66I	.	.	47	4	68	0	.	319
RASSF6	166824	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	74451010	74451010	+	Silent	SNP	T	T	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RASSF6	NM_201431	exon6	c.A550C	p.R184R	.	.	249	77	259	0	.	319
RBM34	23029	ucsc.edu;bcgsc.ca	37	1	235324541	235324541	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RBM34	NM_001161533	exon1	c.A1G	p.M1V	.	.	46	4	42	0	.	46
RBM46	166863	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	155719022	155719022	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RBM46	NM_144979	exon3	c.G211C	p.D71H	.	.	135	36	161	0	.	69
RBMS3	27303	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	29781252	29781252	+	Silent	SNP	C	C	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RBMS3	NM_001003793	exon5	c.C441G	p.L147L	.	.	98	19	124	0	.	90
RCC2	55920	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	17740138	17740138	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RCC2	NM_001136204	exon8	c.A1102G	p.K368E	.	.	143	39	131	3	.	90
RELL2	285613	broad.mit.edu;mdanderson.org	37	5	141019591	141019591	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RELL2	NM_173828	exon5	c.G608T	p.G203V	.	.	44	13	31	0	.	90
REXO1	57455	ucsc.edu	37	19	1818507	1818507	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	REXO1	NM_020695	exon10	c.A2990G	p.H997R	.	.	48	4	41	0	.	90
RICTOR	253260	bcgsc.ca	37	5	38966823	38966823	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RICTOR	NM_152756	exon15	c.G1219T	p.G407C	.	.	136	6	151	0	.	849
RILPL1	353116	ucsc.edu;bcgsc.ca	37	12	123970231	123970231	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_178314	exon5	c.A923G	p.E308G	.	.	36	4	43	0	.	.
RIMS1	22999	bcgsc.ca	37	6	72889290	72889290	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RIMS1	NM_014989	exon5	c.T484C	p.C162R	.	.	110	5	113	0	.	144
RNF103	7844	bcgsc.ca	37	2	86839296	86839296	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RNF103	NM_005667	exon3	c.T468C	p.C156C	.	.	131	5	124	0	.	226
RNF133	168433	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	122338762	122338763	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RNF133	NM_139175	exon1	c.210_211del	p.70_71del	.	.	85	28	90	0	.	227
ROBO3	64221	ucsc.edu;bcgsc.ca	37	11	124749788	124749788	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ROBO3	NM_022370	exon26	c.A3902G	p.E1301G	.	.	33	4	42	1	.	113
RP1L1	94137	mdanderson.org	37	8	10464507	10464507	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RP1L1	NM_178857	exon4	c.T7101A	p.S2367R	.	.	63	12	48	0	.	139
RPP30	10556	ucsc.edu;bcgsc.ca	37	10	92660343	92660343	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RPP30	NM_006413	exon11	c.T714C	p.A238A	.	.	42	4	77	0	.	226
RUNDC3B	154661	bcgsc.ca	37	7	87459234	87459234	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RUNDC3B	NM_138290	exon12	c.T1311C	p.C437C	.	.	98	5	107	0	.	69
RUNX3	864	ucsc.edu;bcgsc.ca	37	1	25228849	25228849	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RUNX3	NM_001031680	exon6	c.T1054C	p.S352P	.	.	46	4	41	0	.	414
RYR2	6262	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	237923107	237923107	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	RYR2	NM_001035	exon83	c.A11357C	p.D3786A	.	.	166	43	144	0	.	158
SACM1L	22908	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	45748365	45748365	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SACM1L	NM_014016	exon4	c.A299G	p.Y100C	.	.	188	52	240	0	.	91
SAFB	6294	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	5653399	5653399	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SAFB	NM_002967	exon11	c.C1494T	p.D498D	.	.	189	53	142	0	.	228
SCN11A	11280	bcgsc.ca	37	3	38921578	38921578	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SCN11A	NM_014139	exon19	c.A3256G	p.I1086V	.	.	59	4	78	0	.	99
SCN11A	11280	broad.mit.edu	37	3	38888413	38888413	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SCN11A	NM_014139	exon26	c.T5148C	p.P1716P	.	.	312	7	269	1	.	99
SCN5A	6331	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	38645329	38645329	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SCN5A	NM_001160160	exon12	c.T1764C	p.H588H	.	.	92	31	83	1	.	98
SCYL2	55681	bcgsc.ca	37	12	100717373	100717373	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SCYL2	NM_017988	exon11	c.T1466C	p.I489T	.	.	60	4	118	0	.	336
SELO	0	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	50655246	50655246	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	.	.	.	43	17	26	2	.	.
SERPINA6	866	bcgsc.ca	37	14	94770929	94770929	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SERPINA6	NM_001756	exon5	c.A1044G	p.K348K	.	.	124	6	104	0	.	653
SF3A1	10291	ucsc.edu;bcgsc.ca	37	22	30742471	30742471	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SF3A1	NM_001005409	exon3	c.G223A	p.E75K	.	.	251	64	209	2	.	157
SFMBT2	57713	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	10	7423775	7423775	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SFMBT2	NM_001029880	exon2	c.G86A	p.G29E	.	.	92	24	86	0	.	141
SGSH	6448	ucsc.edu	37	17	78184664	78184664	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	SGSH,brain,glioma,+2	SGSH	NM_000199	exon8	c.A1096T	p.S366C	.	.	29	4	25	0	.	91
SKP1P2	728622	bcgsc.ca	37	12	17144509	17144509	+	RNA	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	.	.	.	56	19	43	0	.	.
SLC10A2	6555	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	103701772	103701772	+	Silent	SNP	C	C	T	rs201412654		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC10A2	NM_000452	exon5	c.G786A	p.T262T	.	.	106	28	90	0	.	94
SLC17A1	6568	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	25811931	25811931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC17A1	NM_005074	exon9	c.C965T	p.S322L	.	.	76	17	79	0	.	94
SLC22A16	85413	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	110763664	110763664	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC22A16	NM_033125	exon4	c.G966A	p.L322L	.	.	76	17	66	0	.	91
SLC22A17	51310	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	23816360	23816360	+	Silent	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC22A17	NM_020372	exon8	c.C1278T	p.A426A	.	.	71	24	70	0	.	226
SLC22A2	6582	bcgsc.ca	37	6	160679697	160679697	+	Silent	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC22A2	NM_003058	exon1	c.T93A	p.A31A	.	.	16	4	23	0	.	154
SLC25A14	9016	bcgsc.ca	37	X	129484643	129484643	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC25A14	NM_003951	exon5	c.A436G	p.I146V	.	.	39	4	39	0	.	131
SLC25A19	60386	bcgsc.ca	37	17	73282461	73282461	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC25A19	NM_001126122	exon3	c.A212G	p.Q71R	.	.	56	4	46	0	.	91
SLC27A3	11000	bcgsc.ca	37	1	153749125	153749125	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC27A3	NM_024330	exon2	c.G940A	p.G314R	.	.	96	5	70	0	.	91
SLC35G3	146861	bcgsc.ca	37	17	33520470	33520470	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_152462	exon1	c.T857C	p.L286P	.	.	228	8	187	0	.	.
SLC36A1	206358	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	150843185	150843185	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC36A1	NM_078483	exon3	c.T215A	p.V72E	.	.	109	24	113	0	.	91
SLC39A8	64116	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	103228652	103228652	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC39A8	NM_022154	exon3	c.T493G	p.F165V	.	.	294	80	364	0	.	90
SLC40A1	30061	bcgsc.ca	37	2	190426881	190426881	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC40A1	NM_014585	exon8	c.T1439C	p.L480P	.	.	110	6	110	0	.	91
SLC6A16	28968	bcgsc.ca	37	19	49793951	49793951	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC6A16	NM_014037	exon11	c.T1852C	p.C618R	.	.	75	4	81	0	.	94
SLC6A4	6532	bcgsc.ca	37	17	28537544	28537544	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC6A4	NM_001045	exon11	c.A1438G	p.T480A	.	.	37	4	30	0	.	94
SLC8A1	6546	ucsc.edu;bcgsc.ca;mdanderson.org	37	2	40656603	40656603	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC8A1	NM_001252624	exon1	c.G818T	p.G273V	.	.	107	32	111	2	.	93
SLC8A2	6543	bcgsc.ca	37	19	47951432	47951432	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC8A2	NM_015063	exon4	c.T1397C	p.I466T	.	.	53	5	51	0	.	94
SLC9A7	84679	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	46541903	46541903	+	Silent	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLC9A7	NM_001257291	exon2	c.C393T	p.S131S	.	.	49	26	51	0	.	132
SLC9C2	284525	bcgsc.ca	37	1	173556851	173556851	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_178527	exon5	c.T476C	p.L159P	.	.	102	6	134	0	.	.
SLFN11	91607	ucsc.edu	37	17	33680154	33680154	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLFN11	NM_152270	exon5	c.A1927G	p.R643G	.	.	58	3	62	1	.	159
SLIT3	6586	bcgsc.ca	37	5	168620524	168620524	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLIT3	NM_001271946	exon4	c.T372C	p.L124L	.	.	186	7	135	0	.	95
SLIT3	6586	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	168244433	168244433	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SLIT3	NM_001271946	exon8	c.A665T	p.H222L	.	.	70	22	39	0	.	95
SMG9	56006	bcgsc.ca	37	19	44237017	44237017	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SMG9	NM_019108	exon13	c.A1477G	p.K493E	.	.	56	5	52	0	.	91
SMYD2	56950	bcgsc.ca	37	1	214504343	214504343	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SMYD2	NM_020197	exon9	c.A867G	p.E289E	.	.	50	4	70	0	.	227
SPAM1	6677	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	123594252	123594252	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SPAM1	NM_153189	exon3	c.C628T	p.L210F	.	.	115	31	142	0	.	94
SPEN	23013	bcgsc.ca	37	1	16199619	16199619	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SPEN	NM_015001	exon2	c.G392T	p.R131L	.	.	68	5	63	0	.	298
SREBF1	6720	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	17	17719659	17719659	+	Silent	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SREBF1	NM_001005291	exon12	c.C2166T	p.A722A	.	.	20	11	15	0	.	91
SSPO	23145	bcgsc.ca	37	7	149526058	149526058	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_198455	exon107	c.T15112C	p.C5038R	.	.	53	4	65	0	.	.
ST6GALNAC3	256435	bcgsc.ca	37	1	76877986	76877986	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ST6GALNAC3	NM_001160011	exon3	c.T507C	p.V169V	.	.	124	5	93	0	.	95
STK32C	282974	bcgsc.ca	37	10	134041580	134041580	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	STK32C	NM_173575	exon3	c.T371C	p.M124T	.	.	77	5	93	0	.	1083
SUPT4H1	6827	ucsc.edu	37	17	56423594	56423594	+	RNA	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SUPT4H1	.	.	.	.	.	.	113	18	104	0	.	182
SUSD1	64420	bcgsc.ca	37	9	114820915	114820915	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SUSD1	NM_022486	exon14	c.T1902C	p.C634C	.	.	90	5	94	1	.	90
SUV39H2	79723	hgsc.bcm.edu;bcgsc.ca;mdanderson.org	37	10	14938885	14938885	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SUV39H2	NM_001193426	exon3	c.A218C	p.D73A	.	.	61	12	68	0	.	290
SYNPO2	171024	ucsc.edu	37	4	119948583	119948583	+	Silent	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	SYNPO2	NM_001128934	exon3	c.G1059A	p.A353A	.	.	41	4	23	0	.	92
TACC3	10460	bcgsc.ca	37	4	1725288	1725288	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TACC3	NM_006342	exon2	c.A140G	p.K47R	.	.	89	5	92	1	.	91
TAOK2	9344	ucsc.edu	37	16	30002166	30002166	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TAOK2	NM_004783	exon18	c.A2507G	p.E836G	.	.	44	6	18	1	.	521
TAS2R40	259286	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	142919945	142919945	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TAS2R40	NM_176882	exon1	c.C774T	p.F258F	.	.	162	29	157	2	.	23
TAT	6898	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	71606499	71606499	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TAT	NM_000353	exon5	c.T501C	p.P167P	.	.	109	24	122	0	.	92
TCTN2	79867	bcgsc.ca	37	12	124179522	124179522	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TCTN2	NM_024809	exon10	c.A1233G	p.K411K	.	.	98	4	88	0	.	91
TEX38	374973	broad.mit.edu	37	1	47138560	47138560	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_001145474	exon2	c.A53G	p.Y18C	.	.	210	4	130	0	.	.
TG	7038	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	133941375	133941375	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TG	NM_003235	exon23	c.C4754T	p.A1585V	.	.	177	52	144	0	.	145
THSD1	55901	bcgsc.ca	37	13	52952696	52952696	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	THSD1	NM_018676	exon5	c.A1409G	p.E470G	.	.	78	7	63	1	.	94
TLL1	7092	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	166999180	166999180	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TLL1	NM_012464	exon18	c.T2440A	p.L814I	.	.	91	25	64	1	.	158
TMEM184B	25829	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	38643832	38643832	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TMEM184B	NM_001195071	exon2	c.G136T	p.A46S	.	.	43	10	32	1	.	68
TMPRSS11F	389208	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	68934361	68934361	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TMPRSS11F	NM_207407	exon7	c.C730A	p.L244I	.	.	148	44	93	0	.	91
TNFSF14	8740	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	6670048	6670048	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TNFSF14	NM_003807	exon2	c.T33C	p.F11F	.	.	86	25	93	0	.	228
TNXB	7148	bcgsc.ca	37	6	32029491	32029491	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TNXB	NM_019105	exon21	c.A7175G	p.E2392G	.	.	89	5	72	0	.	90
TOP2B	7155	bcgsc.ca	37	3	25646261	25646261	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TOP2B	NM_001068	exon33	c.T4464C	p.A1488A	.	.	84	4	104	0	.	273
TP53INP1	94241	bcgsc.ca	37	8	95952323	95952323	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TP53INP1	NM_001135733	exon3	c.A238G	p.S80G	.	.	179	6	155	0	.	226
TPX2	22974	bcgsc.ca	37	20	30385236	30385236	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TPX2	NM_012112	exon16	c.A1863G	p.E621E	.	.	114	5	107	0	.	290
TRAPPC8	22878	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	29470774	29470774	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TRAPPC8	NM_014939	exon12	c.A1652G	p.N551S	.	.	109	28	151	0	.	159
TRIO	7204	bcgsc.ca	37	5	14405984	14405984	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TRIO	NM_007118	exon32	c.T4744C	p.W1582R	.	.	64	5	74	0	.	562
TRPA1	8989	bcgsc.ca	37	8	72983978	72983978	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TRPA1	NM_007332	exon2	c.T236C	p.M79T	.	.	221	7	227	0	.	230
TRPA1	8989	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	72975034	72975034	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TRPA1	NM_007332	exon6	c.G807T	p.E269D	.	.	243	61	260	0	.	230
TRPT1	83707	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	63992051	63992051	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TRPT1	NM_001160389	exon5	c.G472T	p.A158S	.	.	69	12	39	0	.	90
TSEN2	80746	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	12544973	12544973	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TSEN2	NM_001145395	exon5	c.A521T	p.N174I	.	.	139	43	129	1	.	90
TTN	7273	bcgsc.ca	37	2	179457731	179457731	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TTN	NM_001267550	exon300	c.T59115C	p.R19705R	.	.	207	7	264	1	.	636
TTN	7273	bcgsc.ca	37	2	179588671	179588671	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TTN	NM_001267550	exon73	c.T21315C	p.S7105S	.	.	136	5	205	0	.	636
TUBD1	51174	broad.mit.edu;bcgsc.ca	37	17	57937714	57937714	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	TUBD1	NM_016261	exon9	c.A1331G	p.E444G	.	.	198	9	174	2	.	227
UBE2J2	118424	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	1190842	1190842	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	UBE2J2	NM_194315	exon8	c.A569T	p.Q190L	.	.	258	68	243	0	.	90
UBR5	51366	bcgsc.ca	37	8	103335644	103335644	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	UBR5	NM_015902	exon14	c.T1679C	p.V560A	.	.	147	6	169	1	.	761
UHRF1BP1L	23074	bcgsc.ca	37	12	100451460	100451460	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	UHRF1BP1L	NM_015054	exon15	c.A3313G	p.K1105E	.	.	111	5	86	0	.	24
USH2A	7399	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	215916665	215916665	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	USH2A	NM_206933	exon59	c.C11402T	p.P3801L	.	.	37	8	25	0	.	115
USH2A	7399	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	216062251	216062251	+	Silent	SNP	T	T	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	USH2A	NM_206933	exon41	c.A7740T	p.G2580G	.	.	108	29	91	0	.	115
USP29	57663	bcgsc.ca	37	19	57642443	57642443	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	USP29	NM_020903	exon4	c.A2400G	p.A800A	.	.	119	6	102	0	.	661
UTP15	84135	bcgsc.ca	37	5	72864303	72864303	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	UTP15	NM_032175	exon4	c.A242G	p.D81G	.	.	184	6	180	1	.	90
VAC14	55697	bcgsc.ca	37	16	70816986	70816986	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	VAC14	NM_018052	exon7	c.T761C	p.V254A	.	.	89	5	86	0	.	227
VCX	26609	bcgsc.ca	37	X	7811810	7811810	+	Missense_Mutation	SNP	G	G	C	rs149395826	byfrequency	TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	VCX	NM_013452	exon3	c.G374C	p.S125T	.	.	160	9	114	2	G|0.944;C|0.056	22
VIPR1	7433	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	3	42577594	42577594	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	VIPR1	NM_004624	exon13	c.C1195T	p.L399L	.	.	56	12	55	0	.	91
VPS33A	65082	bcgsc.ca	37	12	122729143	122729143	+	Silent	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	VPS33A	NM_022916	exon7	c.A942G	p.K314K	.	.	159	6	161	1	.	91
VPS9D1	9605	bcgsc.ca	37	16	89783194	89783194	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_004913	exon3	c.T212C	p.M71T	.	.	28	4	31	0	.	.
VTCN1	79679	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	117699311	117699311	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	VTCN1	NM_024626	exon3	c.T330C	p.V110V	.	.	132	38	115	0	.	90
VWA3A	146177	broad.mit.edu;ucsc.edu;mdanderson.org	37	16	22149760	22149760	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	VWA3A	NM_173615	exon22	c.A2219G	p.K740R	.	.	32	15	17	1	.	1
WAPAL	23063	broad.mit.edu;bcgsc.ca	37	10	88259809	88259809	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	WAPAL	NM_015045	exon3	c.T1191C	p.R397R	.	.	79	6	96	1	.	91
WASH3P	374666	broad.mit.edu	37	15	102506258	102506258	+	RNA	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	.	.	.	59	9	20	1	.	.
YBEY	54059	hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	21	47711386	47711386	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	YBEY	NM_001006114	exon3	c.G349C	p.D117H	.	.	147	50	164	0	.	92
YWHAB	7529	broad.mit.edu	37	20	43530339	43530339	+	Silent	SNP	C	C	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	YWHAB	NM_003404	exon3	c.C165G	p.G55G	.	.	59	10	54	4	.	660
ZBTB39	9880	bcgsc.ca	37	12	57398482	57398482	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ZBTB39	NM_014830	exon2	c.T220C	p.F74L	.	.	82	4	58	0	.	135
ZBTB41	360023	bcgsc.ca	37	1	197169339	197169339	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ZBTB41	NM_194314	exon1	c.G265A	p.D89N	.	.	50	4	48	0	.	92
ZC3H11A	9877	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	203816541	203816541	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ZC3H11A	NM_014827	exon15	c.A1272C	p.K424N	.	.	172	37	167	0	.	515
ZCCHC16	340595	bcgsc.ca	37	X	111698348	111698348	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ZCCHC16	NM_001004308	exon3	c.A392G	p.E131G	.	.	87	5	97	0	.	91
ZMIZ2	83637	broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	44795852	44795852	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ZMIZ2	NM_174929	exon1	c.A4T	p.N2Y	.	.	99	17	77	0	.	137
ZNF20	7568	bcgsc.ca	37	19	12244396	12244396	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ZNF20	NM_021143	exon4	c.A605C	p.K202T	.	.	175	6	186	1	.	22
ZNF28	7576	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	53304147	53304147	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ZNF28	NM_006969	exon4	c.T951A	p.H317Q	.	.	116	27	112	0	.	91
ZNF333	84449	bcgsc.ca	37	19	14829667	14829667	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ZNF333	NM_032433	exon12	c.C1528A	p.Q510K	.	.	87	4	58	0	.	92
ZNF408	79797	broad.mit.edu;ucsc.edu;mdanderson.org	37	11	46726585	46726585	+	Silent	SNP	C	C	T	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ZNF408	NM_024741	exon5	c.C1335T	p.A445A	.	.	25	7	22	1	.	90
ZNF41	7592	bcgsc.ca	37	X	47307537	47307537	+	Silent	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ZNF41	NM_007130	exon5	c.T1632C	p.T544T	.	.	62	4	47	0	.	133
ZNF469	84627	broad.mit.edu	37	16	88500166	88500166	+	Silent	SNP	G	G	A	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_001127464	exon2	c.G6204A	p.L2068L	.	.	23	9	23	0	.	.
ZNF518A	9849	broad.mit.edu;ucsc.edu;mdanderson.org	37	10	97917556	97917556	+	RNA	SNP	G	G	A	rs41291602	alternate_allele	TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ZNF518A	.	.	.	.	.	.	78	27	95	0	G|0.999;C|0.001	23
ZNF540	163255	bcgsc.ca	37	19	38103472	38103472	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ZNF540	NM_152606	exon5	c.A1291G	p.R431G	.	.	76	4	77	0	.	153
ZNF812	729648	broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	9801514	9801514	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	ZNF812	NM_001199814	exon6	c.A665G	p.K222R	.	.	84	23	98	0	.	1
ZNF814	730051	mdanderson.org	37	19	58385762	58385762	+	Silent	SNP	C	C	G	rs199732634		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	NM_001144989	exon3	c.G996C	p.S332S	.	.	381	122	286	5	.	.
JMJD1C	221037	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	64967201	64967202	+	Missense_Mutation	DNP	TG	TG	CT	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	p.S1410G	.	.	.	.	.	.	.	
MUC2	4583	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	1078363	1078364	+	Missense_Mutation	DNP	CC	CC	AT	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	p.S217Y	.	.	.	.	.	.	.	
THSD7B	80731	broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	137928399	137928400	+	Missense_Mutation	DNP	GG	GG	TT	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	GG	GG	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	p.ED538DY	.	.	.	.	.	.	.	
KDM3B	51780	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	137759953	137759954	+	Missense_Mutation	DNP	GG	GG	TT	novel		TCGA-BC-4073-01B-02D-A12Z-10	TCGA-BC-4073-10A-01D-A12Z-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fcc3deff-4d29-489d-834f-f2c98fd750d8	4af05379-ed6d-488f-932c-43921f43e40b	.	.	.	.	.	p.G1388L	.	.	.	.	.	.	.	
