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	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	COSMIC_Gene_Freq
ABCA13	154664	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	48315045	48315045	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	ABCA13	NM_152701	exon17	c.G5782T	p.V1928F	CCGTTTGTCCCAC	.	222.0	106.0	280.0	0.0	.	521
ACTR6	64431	ucsc.edu;bcgsc.ca	37	12	100594696	100594696	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	ACTR6	NM_022496	exon1	c.T67C	p.S23P	AATGTGTCGTAAG	.	46.0	4.0	98.0	0.0	.	91
AEBP1	165	ucsc.edu;bcgsc.ca	37	7	44147093	44147093	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	AEBP1	NM_001129	exon3	c.A651G	p.A217A	GGAGGCACGGGAG	.	59.0	5.0	66.0	0.0	.	90
ANKFY1	51479	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	4082167	4082167	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	ANKFY1	NM_001257999	exon18	c.C2709T	p.S903S	AGCCCCGGACTCT	.	85.0	20.0	135.0	0.0	.	93
API5	8539	ucsc.edu;bcgsc.ca	37	11	43364048	43364048	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	API5	NM_001142930	exon14	c.A1563G	p.G521G	TCGGGGAAGACTC	.	36.0	5.0	59.0	1.0	.	136
ARID5B	84159	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	63817024	63817024	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	ARID5B	NM_032199	exon6	c.T995C	p.M332T	AATACATGAAAGA	.	72.0	52.0	166.0	0.0	.	94
BAP1	8314	hgsc.bcm.edu;bcgsc.ca	37	3	52440340	52440348	+	In_Frame_Del	DEL	TGCGGTCGG	TGCGGTCGG	-	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	TGCGGTCGG	TGCGGTCGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	BAP1	NM_004656	exon9	c.704_712del	p.235_238del	TGATCCTGCGGTC	.	37.0	16.0	112.0	0.0	.	1032
BMP15	9210	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	50653812	50653812	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	BMP15	NM_005448	exon1	c.T29G	p.L10R	GAATTCTTTTTCT	.	236.0	47.0	269.0	0.0	.	132
C14orf37	145407	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	58605153	58605153	+	Silent	SNP	A	A	T	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	C14orf37	NM_001001872	exon2	c.T924A	p.S308S	TAAGGCAGAGGCA	.	98.0	45.0	227.0	0.0	.	90
CXCR7	57007	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	2	237489915	237489915	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	CXCR7	NM_020311	exon2	c.C807T	p.H269H	CTACCACGTGGCG	.	111.0	23.0	141.0	0.0	.	1145
CYLC1	1538	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	X	83128315	83128316	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	CYLC1	NM_021118	exon4	c.599_600del	p.200_200del	AAGATAAGAAAGA	.	256.0	79.0	435.0	0.0	.	112
DIP2C	22982	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	10	460026	460026	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	DIP2C	NM_014974	exon8	c.884delC	p.P295fs	GGCTTTGGTTGGT	.	69.0	24.0	58.0	0.0	.	156
DMAP1	55929	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	44684030	44684030	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	DMAP1	NM_001034023	exon5	c.C441T	p.L147L	TTATCTCCACGAT	.	143.0	38.0	306.0	0.0	.	226
DMD	1756	broad.mit.edu;ucsc.edu;mdanderson.org	37	X	32486707	32486707	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	DMD	NM_004006	exon23	c.G3070T	p.E1024X	CAATTTCTTCAAA	.	577.0	89.0	794.0	2.0	.	265
DOK7	285489	ucsc.edu;bcgsc.ca	37	4	3494941	3494941	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	DOK7	NM_173660	exon7	c.A1228G	p.S410G	CCACGCAGCCTTT	.	45.0	4.0	32.0	0.0	.	91
DTX3L	151636	ucsc.edu;bcgsc.ca	37	3	122288722	122288722	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	DTX3L	NM_138287	exon3	c.T1786C	p.C596R	CCAATCTGTCCCA	.	43.0	4.0	93.0	0.0	.	587
DUSP9	1852	hgsc.bcm.edu;broad.mit.edu	37	X	152914788	152914788	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	DUSP9	NM_001395	exon3	c.G475A	p.V159M	GTGCCCGTGGTGG	.	100.0	12.0	117.0	0.0	.	660
ECE2	9718	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	184001717	184001717	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	ECE2	NM_014693	exon8	c.G1315A	p.D439N	CGGCGCGACGAGG	.	164.0	30.0	168.0	0.0	.	94
FRK	2444	ucsc.edu;bcgsc.ca	37	6	116381396	116381396	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	FRK	NM_002031	exon1	c.A79G	p.T27A	TCACGGTTGACTT	.	36.0	4.0	71.0	0.0	.	948
GALK2	2585	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	49531474	49531474	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	GALK2	NM_002044	exon5	c.C414T	p.I138I	AAATATCCCACCA	.	209.0	40.0	345.0	1.0	.	160
GALNT2	2590	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	230410235	230410235	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	GALNT2	NM_004481	exon15	c.G1485A	p.L495L	GGATTTGTGCCTT	.	88.0	8.0	120.0	1.0	.	92
GSTCD	79807	broad.mit.edu;bcgsc.ca	37	4	106766665	106766665	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	GSTCD	NM_001031720	exon12	c.T1833C	p.V611V	CTCCGTTCAAGTG	.	88.0	5.0	158.0	0.0	.	92
HIST2H3D	653604	broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	149784882	149784882	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	HIST2H3D	NM_001123375	exon1	c.A355G	p.T119A	TGATGGTCACGCG	.	208.0	61.0	276.0	1.0	.	22
HK2	3099	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	75104368	75104368	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	HK2	NM_000189	exon8	c.G951A	p.E317E	GGAGGAGCTGCTC	.	105.0	25.0	133.0	0.0	.	252
HTATSF1	27336	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	135593729	135593729	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	HTATSF1	NM_001163280	exon10	c.A1825C	p.K609Q	TCTGAAAAAGTGT	.	127.0	40.0	244.0	0.0	.	132
HTR7	3363	ucsc.edu;bcgsc.ca	37	10	92508599	92508599	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	HTR7	NM_019860	exon2	c.T1292C	p.V431A	TACAGCACAAACT	.	42.0	4.0	95.0	0.0	.	91
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	209113113	209113113	+	Missense_Mutation	SNP	G	G	A	rs121913499	bycluster	TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	IDH1,brain,glioma,+1	IDH1	NM_005896	exon4	c.C394T	p.R132C	CATGACGACCTAT	.	189.0	89.0	298.0	0.0	.	23522
IGF2R	3482	ucsc.edu;bcgsc.ca	37	6	160461609	160461609	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	IGF2R	NM_000876	exon11	c.A1333G	p.T445A	AAAGGAACTCCTG	.	37.0	4.0	109.0	0.0	.	118
MAP2K1	5604	ucsc.edu;bcgsc.ca	37	15	66777396	66777396	+	Silent	SNP	A	A	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	MAP2K1	NM_002755	exon7	c.A762C	p.V254V	TCTGGTAGAGATG	.	73.0	7.0	129.0	0.0	.	978
MLL	4297	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	118373507	118373507	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	MLL	NM_001197104	exon27	c.G6900A	p.V2300V	CTTGGTGTCCAAG	.	51.0	13.0	103.0	0.0	.	1255
MPRIP	23164	broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	17075144	17075144	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	MPRIP	NM_015134	exon16	c.G2276A	p.R759H	AAGACCGCCTCCT	.	93.0	11.0	114.0	0.0	.	90
MYH2	4620	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	17	10432777	10432777	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	MYH2	NM_017534	exon25	c.G3139T	p.E1047X	TCTTTTCTTGCTC	.	136.0	15.0	246.0	0.0	.	194
PHKA2	5256	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	18919622	18919622	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	PHKA2	NM_000292	exon27	c.T3008A	p.L1003Q	CTCCTCAGTCTGT	.	209.0	101.0	315.0	0.0	.	131
PKNOX1	5316	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	21	44450022	44450022	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	PKNOX1	NM_004571	exon11	c.G1122A	p.T374T	CACCACGCCCGTG	.	97.0	40.0	152.0	0.0	.	153
PML	5371	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	74290431	74290431	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	PML	NM_033250	exon2	c.T216G	p.C72W	GCCTTGTCTGCAC	.	85.0	16.0	82.0	1.0	.	1083
PRDM16	63976	ucsc.edu;bcgsc.ca	37	1	3328268	3328268	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	PRDM16	NM_022114	exon9	c.G1507T	p.A503S	TCCACGGCGCCTC	.	32.0	4.0	49.0	0.0	.	660
RAB24	53917	broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	176728924	176728924	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	RAB24	NM_001031677	exon8	c.547+2T>C	.	GCACACACCTGTC	.	79.0	10.0	110.0	0.0	.	159
RAF1	5894	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	12645687	12645687	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	RAF1	NM_002880	exon7	c.C782G	p.P261R	ACATTAGGTGTGG	.	126.0	57.0	173.0	0.0	.	1404
RANBP2	5903	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	109380447	109380447	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	RANBP2	NM_006267	exon20	c.A3452G	p.N1151S	CAGCAAACAAGAA	.	131.0	71.0	165.0	0.0	.	675
RBM20	282996	ucsc.edu;bcgsc.ca	37	10	112559555	112559555	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	.	NM_001134363	exon7	c.A1679G	p.E560G	TTTTAGAGATGGC	.	39.0	4.0	101.0	0.0	.	.
RSRC2	65117	broad.mit.edu;bcgsc.ca	37	12	122991425	122991425	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	RSRC2	NM_023012	exon9	c.A1081G	p.N361D	CCTTGTTTCCAAA	.	120.0	7.0	230.0	0.0	.	91
RYR1	6261	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	39010081	39010081	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	RYR1	NM_001042723	exon67	c.G10246A	p.V3416M	CGCTACGTGGACA	.	46.0	17.0	62.0	0.0	.	100
SGMS1	259230	ucsc.edu;bcgsc.ca	37	10	52103374	52103374	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	SGMS1	NM_147156	exon7	c.T501C	p.P167P	TAGTGGAGGCTGC	.	48.0	4.0	118.0	0.0	.	227
SLC35A3	23443	ucsc.edu;bcgsc.ca;mdanderson.org	37	1	100483326	100483326	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	SLC35A3	NM_001271685	exon7	c.C968T	p.S323L	TATTATCAACATT	.	495.0	74.0	913.0	2.0	.	90
SNX19	399979	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	130785772	130785772	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	SNX19	NM_014758	exon1	c.T63C	p.N21N	CAGGTTATTGAGG	.	53.0	11.0	108.0	0.0	.	229
SRSF12	135295	ucsc.edu;bcgsc.ca	37	6	89816912	89816912	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	SRSF12	NM_080743	exon2	c.A131G	p.D44G	TAGAAGTCAAGTG	.	42.0	4.0	130.0	0.0	.	90
STEAP4	79689	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	87912274	87912274	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	STEAP4	NM_001205315	exon4	c.C666G	p.D222E	GATTACGTCTCTT	.	103.0	43.0	189.0	0.0	.	90
TARM1	441864	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	54573362	54573362	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	.	NM_001135686	exon5	c.G711A	p.L237L	CAGACCCAGTCGT	.	67.0	8.0	73.0	0.0	.	.
TMEM151B	441151	ucsc.edu;bcgsc.ca	37	6	44243417	44243417	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	.	NM_001137560	exon3	c.T854C	p.V285A	TCATGGTGGCCTT	.	29.0	4.0	27.0	0.0	.	.
TNPO1	3842	hgsc.bcm.edu;bcgsc.ca	37	5	72144303	72144303	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	TNPO1	NM_002270	exon2	c.107delC	p.T36fs	ACACCACCATCCA	.	68.0	30.0	46.0	0.0	.	228
TPM4	7171	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	16186928	16186928	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	TPM4	NM_001145160	exon2	c.G186C	p.E62D	TTCCGAGGACCTG	.	179.0	95.0	194.0	0.0	.	316
TPST1	8460	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	65705902	65705902	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	TPST1	NM_003596	exon2	c.C490G	p.L164V	TTTGCCCTGAAAT	.	82.0	32.0	126.0	0.0	.	90
TRPV3	162514	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	3417232	3417232	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	TRPV3	NM_001258205	exon18	c.A2355G	p.E785E	CGGGAATTCCTCG	.	217.0	71.0	314.0	1.0	.	94
TTN	7273	broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	179532037	179532037	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	TTN	NM_001267550	exon162	c.C35723T	p.T11908I	CTGGTTGTATCAG	.	160.0	42.0	280.0	1.0	.	636
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	179412302	179412302	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	TTN	NM_001267550	exon339	c.T94051C	p.S31351P	TACCCGATTCACG	.	166.0	31.0	246.0	0.0	.	636
U2AF2	11338	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	56185355	56185355	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	U2AF2	NM_007279	exon12	c.C1349T	p.T450M	GCCTGACGGGCCG	.	106.0	22.0	123.0	0.0	.	91
USP28	57646	broad.mit.edu;bcgsc.ca	37	11	113699932	113699932	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	USP28	NM_020886	exon10	c.A1046G	p.K349R	CCATACTTCACCG	.	70.0	6.0	164.0	0.0	.	706
WDR26	80232	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	224585919	224585919	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	WDR26	NM_025160	exon12	c.T1654A	p.L552I	CCCATAAATGAAC	.	95.0	30.0	156.0	0.0	.	90
ZAN	7455	ucsc.edu;bcgsc.ca	37	7	100392945	100392945	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	ZAN	.	.	.	.	GCCACCTCCCAGA	.	40.0	6.0	52.0	1.0	.	142
ZMYND8	23613	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	45920579	45920579	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	ZMYND8	NM_183047	exon6	c.A621G	p.E207E	GATGTATTCCGCA	.	82.0	31.0	144.0	0.0	.	252
ZNF578	147660	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	53014251	53014251	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10Q-01A-11D-A12Z-10	TCGA-BC-A10Q-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f7e9eed5-7a0b-4b2d-bea3-fd8c42a3b90e	454f62ca-7688-48e6-8a59-0149d11f1fe3	.	.	NM_001099694	exon6	c.A617C	p.N206T	CTCCTAATAACTA	.	233.0	14.0	398.0	0.0	.	.