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	TranscriptID	Exon	ChromChange	AAChange	COSMIC_Codon	COSMIC_Gene	Drug_Target
PSMD13	5719	broad.mit.edu	36	11	234118	234118	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_175932	exon2	c.T173C	p.I58T	.	.	.
OR5L1	219437	broad.mit.edu	36	11	55335817	55335817	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001004738	exon1	c.A299G	p.Q100R	.	.	.
MPEG1	219972	broad.mit.edu	36	11	58736218	58736218	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001039396	exon1	c.C697T	p.R233C	.	.	.
GRM5	2915	broad.mit.edu	36	11	87970061	87970061	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000842	exon6	c.C1502T	p.S501F	.	.	.
DNAH10	196385	broad.mit.edu	36	12	122833760	122833760	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_207437	exon7	c.C812T	p.P271L	.	.	.
TMEM132D	121256	broad.mit.edu	36	12	128388231	128388231	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_133448	exon4	c.G1200A	p.T400T	.	.	.
KRAS	3845	broad.mit.edu	36	12	25269829	25269829	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004985	exon4	c.G436A	p.A146T	 KRAS,large_intestine,NS,Substitution - Missense,0 	.	.
TIMELESS	8914	broad.mit.edu	36	12	55103754	55103754	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003920	exon17	c.G1971A	p.Q657Q	.	.	.
PCDH9	5101	broad.mit.edu	36	13	66699924	66699924	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020403	exon2	c.C650A	p.T217N	.	.	.
LTBP2	4053	broad.mit.edu	36	14	74039977	74039978	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000428	exon32	c.4668_4669insC	p.P1556fs	.	.	.
DIO2	1734	broad.mit.edu	36	14	79738967	79738967	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000793	exon3	c.C640T	p.R214C	.	.	.
AK7	122481	broad.mit.edu	36	14	96014681	96014681	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_152327	exon15	c.G1682A	p.R561Q	.	.	.
POTEB	339010	broad.mit.edu	36	15	19331030	19331030	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_207355	exon3	c.C730A	p.H244N	.	.	.
HERC2	8924	broad.mit.edu	36	15	26165608	26165608	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004667	exon22	c.T3266A	p.L1089Q	.	.	.
IGDCC3	9543	broad.mit.edu	36	15	63408891	63408891	+	De_novo_Start_OutOfFrame	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004884	exon13	c.C2095T	p.R699W	.	.	.
SPATA8	145946	broad.mit.edu	36	15	95128478	95128478	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_173499	exon2	c.T181C	p.W61R	.	.	.
LRRK1	79705	broad.mit.edu	36	15	99418919	99418919	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_024652	exon30	c.C4700A	p.T1567K	.	.	.
CMTM2	146225	broad.mit.edu	36	16	65171034	65171034	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001199317	exon1	c.G23A	p.G8E	.	.	.
ADAMTS18	170692	broad.mit.edu	36	16	75884492	75884492	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_199355	exon20	c.C3171T	p.V1057V	.	.	.
ATP2C2	9914	broad.mit.edu	36	16	83051813	83051813	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014861	exon24	c.G2386A	p.V796M	.	.	.
GRIN2A	2903	broad.mit.edu	36	16	9830960	9830960	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001134408	exon9	c.G1828A	p.G610S	.	.	.
TP53	7157	broad.mit.edu	36	17	7517819	7517819	+	Missense_Mutation	SNP	G	A	A	rs28934574	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001126114	exon8	c.C844T	p.R282W	 TP53,central_nervous_system,brain,Substitution - Missense,-2 	.	.
DNAH2	146754	broad.mit.edu	36	17	7631014	7631014	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020877	exon41	c.G6541A	p.V2181I	.	.	.
MC5R	4161	broad.mit.edu	36	18	13816480	13816480	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005913	exon1	c.C716T	p.T239I	.	.	.
COLEC12	81035	broad.mit.edu	36	18	347502	347502	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_130386	exon3	c.T79C	p.C27R	.	.	.
CATSPERG	57828	broad.mit.edu	36	19	43543115	43543115	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_021185	exon15	c.C1755T	p.S585S	.	.	.
TICAM1	148022	broad.mit.edu	36	19	4767756	4767756	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_182919	exon2	c.A1634G	p.D545G	.	.	.
CD177	57126	broad.mit.edu	36	19	48549932	48549932	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020406	exon2	c.C140T	p.T47I	.	.	.
GRIN2D	2906	broad.mit.edu	36	19	53636992	53636992	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000836	exon11	c.A2407G	p.I803V	.	.	.
ZNF578	147660	broad.mit.edu	36	19	57706617	57706617	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001099694	exon6	c.G1171T	p.A391S	.	.	.
CAPZA1	829	broad.mit.edu	36	1	112998650	112998650	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006135	exon5	c.T260G	p.F87C	.	.	.
KISS1	3814	broad.mit.edu	36	1	202426446	202426446	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002256	exon3	c.C206A	p.T69N	.	.	.
KCNK1	3775	broad.mit.edu	36	1	231869044	231869044	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002245	exon2	c.C436G	p.L146V	.	.	.
HEATR1	55127	broad.mit.edu	36	1	234788389	234788389	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018072	exon36	c.G4975A	p.G1659R	.	.	.
RYR2	6262	broad.mit.edu	36	1	235844438	235844438	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001035	exon37	c.C5387A	p.T1796K	.	.	.
OR2T8	343172	broad.mit.edu	36	1	246151093	246151093	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001005522	exon1	c.C151G	p.H51D	.	.	.
DIO1	1733	broad.mit.edu	36	1	54144546	54144546	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001039715	exon2	c.C528T	p.I176I	.	.	.
DPYD	1806	broad.mit.edu	36	1	97317169	97317169	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000110	exon23	c.C3029A	p.P1010H	.	.	.
MMP9	4318	broad.mit.edu	36	20	44075367	44075367	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004994	exon9	c.C1397T	p.T466M	.	.	.
ARFRP1	10139	broad.mit.edu	36	20	61808517	61808517	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001134758	exon3	c.G111A	p.S37S	.	.	.
TIAM1	7074	broad.mit.edu	36	21	31446924	31446924	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003253	exon20	c.G3267A	p.T1089T	.	.	.
PCDP1	200373	broad.mit.edu	36	2	120085739	120085739	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001029996	exon14	c.G404A	p.R135Q	.	.	.
LRP1B	53353	broad.mit.edu	36	2	141523223	141523223	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018557	exon11	c.C1591T	p.R531C	.	.	.
COBLL1	22837	broad.mit.edu	36	2	165292806	165292806	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014900	exon4	c.C580G	p.Q194E	.	.	.
CHRNA1	1134	broad.mit.edu	36	2	175332327	175332327	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000079	exon3	c.C212A	p.T71K	.	.	.
TTN	7273	broad.mit.edu	36	2	179148777	179148777	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003319	exon154	c.G43132A	p.G14378S	.	.	.
TTN	7273	broad.mit.edu	36	2	179181365	179181365	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003319	exon103	c.A25295G	p.N8432S	.	.	.
TTN	7273	broad.mit.edu	36	2	179194950	179194950	+	Nonsense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003319	exon72	c.A17749T	p.K5917X	.	.	.
ABCA12	26154	broad.mit.edu	36	2	215584483	215584483	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_173076	exon17	c.C2257A	p.H753N	.	.	.
NRXN1	9378	broad.mit.edu	36	2	50002862	50002862	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_138735	exon6	c.G1053A	p.P351P	.	.	.
NRXN1	9378	broad.mit.edu	36	2	50700782	50700782	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001135659	exon9	c.C1322T	p.T441M	.	.	.
SLC4A5	57835	broad.mit.edu	36	2	74336566	74336566	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_021196	exon8	c.G869A	p.R290Q	.	.	.
GPAT2	150763	broad.mit.edu	36	2	96052656	96052656	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_207328	exon19	c.C2074T	p.R692C	.	.	.
GUCA1C	9626	broad.mit.edu	36	3	110155272	110155272	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005459	exon1	c.G28A	p.D10N	.	.	.
ARHGAP31	57514	broad.mit.edu	36	3	120603780	120603780	+	Silent	SNP	C	T	T	rs61747387	by1000genomes	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020754	exon10	c.C1491T	p.R497R	.	.	.
FBXO40	51725	broad.mit.edu	36	3	122822989	122822989	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_016298	exon3	c.C23T	p.P8L	.	.	.
CAND2	23066	broad.mit.edu	36	3	12833310	12833310	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001162499	exon10	c.C1879T	p.R627W	.	.	.
MCF2L2	23101	broad.mit.edu	36	3	184628384	184628384	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015078	exon1	c.G76A	p.D26N	.	.	.
ABCC5	10057	broad.mit.edu	36	3	185153599	185153599	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005688	exon18	c.G2636A	p.W879X	.	.	.
SGOL1	151648	broad.mit.edu	36	3	20187295	20187295	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001012409	exon8	c.G1489A	p.D497N	.	.	.
COL7A1	1294	broad.mit.edu	36	3	48596945	48596945	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000094	exon35	c.C4096T	p.R1366W	 COL7A1,breast,NS,Substitution - Missense,0 	.	.
PROS1	5627	broad.mit.edu	36	3	95100057	95100057	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000313	exon8	c.T774C	p.N258N	.	.	.
BANK1	55024	broad.mit.edu	36	4	103165638	103165638	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_017935	exon9	c.C1543T	p.R515X	.	.	.
TRIML2	205860	broad.mit.edu	36	4	189249776	189249776	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_173553	exon7	c.G909C	p.W303C	.	.	.
DRD5	1816	broad.mit.edu	36	4	9393586	9393586	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000798	exon1	c.G835A	p.A279T	.	.	.
WDR36	134430	broad.mit.edu	36	5	110455945	110455945	+	Silent	SNP	G	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_139281	exon1	c.G60T	p.V20V	.	.	.
APC	324	broad.mit.edu	36	5	112206482	112206482	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001127511	exon14	c.G7238A	p.R2413K	.	.	.
TRPC7	57113	broad.mit.edu	36	5	135720651	135720651	+	De_novo_Start_OutOfFrame	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020389	exon2	c.C324T	p.D108D	.	.	.
PCDHA2	56146	broad.mit.edu	36	5	140156099	140156099	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018905	exon1	c.G1366A	p.A456T	.	.	.
FAT2	2196	broad.mit.edu	36	5	150913096	150913096	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001447	exon5	c.C3991T	p.R1331W	.	.	.
FAT2	2196	broad.mit.edu	36	5	150926917	150926917	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001447	exon1	c.A1769G	p.D590G	.	.	.
MYO10	4651	broad.mit.edu	36	5	16733134	16733134	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_012334	exon33	c.G4464T	p.W1488C	.	.	.
PAPD4	167153	broad.mit.edu	36	5	78974462	78974462	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001114394	exon7	c.G724A	p.V242I	.	.	.
APC	324	broad.mit.edu	36	5	112201679	112201679	+	Frame_Shift_Del	DEL	T	-	-	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	T	T	T	-	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001127511	exon14	c.2435delT	p.V812fs	.	.	.
APC	324	broad.mit.edu	36	5	112203067	112203068	+	Frame_Shift_Del	DEL	AC	-	-	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	AC	AC					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001127511	exon14	c.3823_3824del	p.1275_1275del	.	.	.
PRIM2	5558	broad.mit.edu	36	6	57621099	57621100	+	Splice_Site	INS	-	AACA	AACA	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	.	.	.	.	.	.	.
SCAND3	114821	broad.mit.edu	36	6	28649578	28649578	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_052923	exon4	c.G2067A	p.A689A	.	.	.
PTCRA	171558	broad.mit.edu	36	6	42998824	42998824	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_138296	exon2	c.G140T	p.C47F	.	.	.
CUL7	9820	broad.mit.edu	36	6	43121346	43121346	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014780	exon14	c.G2819A	p.R940H	.	.	.
OR2A14	135941	broad.mit.edu	36	7	143457804	143457804	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001001659	exon1	c.C666T	p.A222A	.	.	.
ADCY1	107	broad.mit.edu	36	7	45714505	45714505	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_021116	exon18	c.C2849T	p.T950M	.	.	.
SEMA3E	9723	broad.mit.edu	36	7	82874381	82874381	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_012431	exon7	c.G781A	p.A261T	.	.	.
DENND3	22898	broad.mit.edu	36	8	142247359	142247359	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014957	exon13	c.G1588A	p.V530M	.	.	.
MCM4	4173	broad.mit.edu	36	8	49049963	49049963	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_182746	exon15	c.C2253T	p.N751N	.	.	.
PXDNL	137902	broad.mit.edu	36	8	52558795	52558795	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_144651	exon6	c.C485T	p.P162L	.	.	.
C9orf79	286234	broad.mit.edu	36	9	89693376	89693376	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_178828	exon4	c.G4154A	p.G1385D	.	.	.
HCCS	3052	broad.mit.edu	36	X	11049781	11049781	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005333	exon7	c.G737A	p.R246H	.	.	.
DCAF12L2	340578	broad.mit.edu	36	X	125126740	125126740	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001013628	exon1	c.C849T	p.D283D	.	.	.
DMD	1756	broad.mit.edu	36	X	32777789	32777789	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004006	exon3	c.G163A	p.E55K	.	.	.
TEX11	56159	broad.mit.edu	36	X	69665741	69665741	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001003811	exon31	c.C2752A	p.L918I	.	.	.
KIAA2022	340533	broad.mit.edu	36	X	73877099	73877099	+	Missense_Mutation	SNP	G	T	T	rs35225038	unknown	TCGA-AG-3909-01A-01W-1073-09	TCGA-AG-3909-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001008537	exon3	c.C4018A	p.P1340T	.	.	.