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
SORCS3	22986	broad.mit.edu	36	10	106927880	106927880	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014978	exon14	c.C1968T	p.D656D	.	.	.
PNLIP	5406	broad.mit.edu	36	10	118296909	118296909	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000936	exon3	c.C160T	p.R54C	.	.	.
MRC1	4360	broad.mit.edu	36	10	17915768	17915768	+	Silent	SNP	G	A	A	rs2985837	bySubmitter	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001009567	exon4	c.G726A	p.Q242Q	.	.	.
DDX21	9188	broad.mit.edu	36	10	70395236	70395236	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004728	exon5	c.G884T	p.G295V	.	.	.
AGAP11	119385	broad.mit.edu	36	10	88759631	88759631	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_133447	exon12	c.G1642A	p.E548K	.	.	.
TRPC6	7225	broad.mit.edu	36	11	100828985	100828985	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004621	exon13	c.T2707C	p.S903P	.	.	.
BCL9L	283149	broad.mit.edu	36	11	118276541	118276541	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_182557	exon6	c.C3121T	p.Q1041X	.	.	.
MICALCL	84953	broad.mit.edu	36	11	12328046	12328046	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032867	exon7	c.G1815A	p.S605S	.	.	.
OR51A2	401667	broad.mit.edu	36	11	4933247	4933247	+	Silent	SNP	G	A	A	rs2595984	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001004748	exon1	c.C273T	p.A91A	.	.	.
OR5AS1	219447	broad.mit.edu	36	11	55554782	55554782	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001001921	exon1	c.C312T	p.F104F	.	.	.
C2CD3	26005	broad.mit.edu	36	11	73497782	73497782	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015531	exon12	c.G1907A	p.W636X	.	.	.
ASCL4	121549	broad.mit.edu	36	12	106693170	106693170	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_203436	exon1	c.G48A	p.S16S	.	.	.
TPCN1	53373	broad.mit.edu	36	12	112212388	112212388	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_017901	exon22	c.C1869T	p.G623G	.	.	.
KRAS	3845	broad.mit.edu	36	12	25289552	25289552	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004985	exon2	c.G34A	p.G12S	 KRAS,haematopoietic_and_lymphoid_tissue,NS,Substitution - Missense,+1 	.	.
TMTC1	83857	broad.mit.edu	36	12	29648472	29648472	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001193451	exon7	c.G1156A	p.G386S	.	.	.
AHNAK2	113146	broad.mit.edu	36	14	104481223	104481223	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_138420	exon7	c.A11610C	p.K3870N	.	.	.
NPAS3	64067	broad.mit.edu	36	14	33339281	33339281	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_022123	exon11	c.A1921C	p.I641L	.	.	.
RALGAPA1	253959	broad.mit.edu	36	14	35267443	35267443	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_194301	exon13	c.A1612G	p.I538V	.	.	.
SDCCAG1	9147	broad.mit.edu	36	14	49350499	49350499	+	Silent	SNP	A	C	C	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004713	exon18	c.T1701G	p.A567A	.	.	.
DISP2	85455	broad.mit.edu	36	15	38449668	38449668	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_033510	exon8	c.G4063A	p.A1355T	.	.	.
MGA	23269	broad.mit.edu	36	15	39839925	39839925	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001164273	exon20	c.G7304A	p.R2435Q	.	.	.
ISLR	3671	broad.mit.edu	36	15	72254698	72254698	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_201526	exon2	c.G446A	p.R149H	.	.	.
MYLK3	91807	broad.mit.edu	36	16	45312588	45312588	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_182493	exon9	c.G1933A	p.V645I	.	.	.
KCNG4	93107	broad.mit.edu	36	16	82828176	82828176	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_172347	exon2	c.C417T	p.C139C	.	.	.
ANKRD11	29123	broad.mit.edu	36	16	87873654	87873654	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_013275	exon9	c.C6797T	p.A2266V	.	.	.
KIAA0100	9703	broad.mit.edu	36	17	23989044	23989044	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014680	exon14	c.T1708A	p.L570I	.	.	.
SAT2	112483	broad.mit.edu	36	17	7470618	7470618	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_133491	exon6	c.G385A	p.V129I	.	.	.
TP53	7157	broad.mit.edu	36	17	7518937	7518937	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001126114	exon6	c.C637T	p.R213X	 TP53,central_nervous_system,brain,Substitution - Missense,+1 	.	.
FOXK2	3607	broad.mit.edu	36	17	78138295	78138295	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004514	exon8	c.G1644A	p.T548T	.	.	.
FAM38B	63895	broad.mit.edu	36	18	10686470	10686471	+	Missense_Mutation	DNP	CG	AA	AA	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	CG	CG					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_022068	exon42	c.6555_6556TT	.	.	.	.
TTR	7276	broad.mit.edu	36	18	27432560	27432560	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000371	exon4	c.G368A	p.R123H	.	.	.
NOL4	8715	broad.mit.edu	36	18	29963946	29963946	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001198546	exon2	c.C301T	p.R101W	.	.	.
C19orf66	55337	broad.mit.edu	36	19	10063907	10063907	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018381	exon8	c.C805T	p.L269L	.	.	.
CYP4F3	4051	broad.mit.edu	36	19	15631102	15631102	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001199209	exon13	c.C1470T	p.R490R	.	.	.
ZNF208	7757	broad.mit.edu	36	19	21946848	21946848	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_007153	exon4	c.A2828C	p.K943T	.	.	.
C19orf29	58509	broad.mit.edu	36	19	3563375	3563375	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_021231	exon10	c.G1823A	p.R608Q	.	.	.
PRKD2	25865	broad.mit.edu	36	19	51889171	51889171	+	Silent	SNP	C	T	T	rs61739905	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001079881	exon11	c.G1377A	p.P459P	.	.	.
MEIS3	56917	broad.mit.edu	36	19	52604241	52604241	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020160	exon8	c.G785A	p.R262Q	.	.	.
GRIN2D	2906	broad.mit.edu	36	19	53600244	53600244	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000836	exon3	c.G907A	p.G303R	.	.	.
SIGLEC11	114132	broad.mit.edu	36	19	55153546	55153546	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_052884	exon8	c.G1457A	p.R486H	.	.	.
OR7G1	125962	broad.mit.edu	36	19	9087075	9087075	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001005192	exon1	c.G365A	p.R122H	.	.	.
TDRKH	11022	broad.mit.edu	36	1	150018322	150018322	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001083965	exon5	c.C442T	p.R148C	.	.	.
CRTC2	200186	broad.mit.edu	36	1	152191504	152191504	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_181715	exon9	c.G745A	p.G249R	.	.	.
PKLR	5313	broad.mit.edu	36	1	153529693	153529693	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000298	exon9	c.G1335A	p.A445A	.	.	.
RGS13	6003	broad.mit.edu	36	1	190895100	190895100	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_144766	exon6	c.G304A	p.D102N	.	.	.
ATP6V1G3	127124	broad.mit.edu	36	1	196759174	196759174	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_133262	exon4	c.A327T	p.E109D	.	.	.
PPFIA4	8497	broad.mit.edu	36	1	201299654	201299654	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015053	exon12	c.C1432T	p.R478C	.	.	.
NFASC	23114	broad.mit.edu	36	1	203215199	203215199	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001160331	exon17	c.G2098A	p.V700I	.	.	.
HEATR1	55127	broad.mit.edu	36	1	234789652	234789652	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018072	exon34	c.C4755T	p.Y1585Y	.	.	.
PTPRU	10076	broad.mit.edu	36	1	29522501	29522501	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005704	exon28	c.G3890A	p.R1297Q	.	.	.
TGM6	343641	broad.mit.edu	36	20	2345899	2345899	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_198994	exon10	c.T1358G	p.V453G	.	.	.
C20orf160	140706	broad.mit.edu	36	20	30069542	30069542	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_080625	exon4	c.C382G	p.L128V	.	.	.
PTPRT	11122	broad.mit.edu	36	20	40147801	40147801	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_133170	exon29	c.G4010A	p.R1337H	.	.	.
PCNA	5111	broad.mit.edu	36	20	5046192	5046192	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002592	exon5	c.T506G	p.F169C	.	.	.
DIDO1	11083	broad.mit.edu	36	20	60982105	60982105	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001193369	exon16	c.G5648T	p.G1883V	.	.	.
TRPM2	7226	broad.mit.edu	36	21	44635806	44635806	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003307	exon11	c.G1664A	p.R555H	.	.	.
PI4KA	5297	broad.mit.edu	36	22	19449206	19449206	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_058004	exon22	c.C2433G	p.I811M	.	.	.
PI4KA	5297	broad.mit.edu	36	22	19449493	19449493	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_058004	exon21	c.C2295T	p.V765V	.	.	.
VPREB3	29802	broad.mit.edu	36	22	22425278	22425278	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_013378	exon2	c.G157A	p.G53S	.	.	.
ZNF142	7701	broad.mit.edu	36	2	219223465	219223466	+	Frame_Shift_Ins	INS	-	TC	TC	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	-	-	-	TC	-	-	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001105537	exon5	c.309_310insGA	p.E103fs	.	.	.
ABCA12	26154	broad.mit.edu	36	2	215592397	215592397	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_173076	exon13	c.A1565G	p.Q522R	.	.	.
TP53I3	9540	broad.mit.edu	36	2	24157210	24157210	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_147184	exon4	c.C602T	p.T201M	.	.	.
PUS10	150962	broad.mit.edu	36	2	61046103	61046103	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_144709	exon7	c.G636A	p.V212V	.	.	.
ADRA2B	151	broad.mit.edu	36	2	96144725	96144726	+	Missense_Mutation	DNP	AG	CT	CT	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	AG	AG					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000682	exon1	c.890_891AG	.	.	.	.
TMEM131	23505	broad.mit.edu	36	2	97758753	97758753	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015348	exon32	c.A4305C	p.E1435D	.	.	.
TF	7018	broad.mit.edu	36	3	134960721	134960721	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001063	exon9	c.C1061T	p.P354L	.	.	.
C3orf20	84077	broad.mit.edu	36	3	14700829	14700829	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001184958	exon4	c.G195A	p.M65I	.	.	.
BSN	8927	broad.mit.edu	36	3	49665308	49665308	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003458	exon5	c.G3315A	p.P1105P	.	.	.
CC2D2A	57545	broad.mit.edu	36	4	15125521	15125521	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001080522	exon10	c.G811T	p.D271Y	.	.	.
ADAM29	11086	broad.mit.edu	36	4	176134084	176134084	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001130705	exon3	c.C833T	p.T278M	.	.	.
JAKMIP1	152789	broad.mit.edu	36	4	6158316	6158316	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_144720	exon3	c.C409T	p.R137C	.	.	.
APC	324	broad.mit.edu	36	5	112144422	112144422	+	Nonsense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001127511	exon5	c.G598T	p.E200X	.	.	.
TRIM41	90933	broad.mit.edu	36	5	180584162	180584162	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_033549	exon1	c.G557A	p.C186Y	.	.	.
POPDC3	64208	broad.mit.edu	36	6	105713048	105713048	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_022361	exon4	c.G866A	p.C289Y	.	.	.
OPRM1	4988	broad.mit.edu	36	6	154453915	154453915	+	Missense_Mutation	SNP	G	A	A	rs1799974	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000914	exon3	c.G779A	p.R260H	.	.	.
EHMT2	10919	broad.mit.edu	36	6	31968182	31968182	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_025256	exon7	c.G845A	p.R282H	.	.	.
LEMD2	221496	broad.mit.edu	36	6	33848458	33848458	+	Silent	SNP	G	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001143944	exon8	c.C531A	p.S177S	.	.	.
GPR115	221393	broad.mit.edu	36	6	47789949	47789950	+	Missense_Mutation	DNP	GA	TC	TC	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	GA	GA					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_153838	exon6	c.1009_1010TC	.	.	.	.
COL12A1	1303	broad.mit.edu	36	6	75855606	75855606	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004370	exon64	c.G8946T	p.L2982F	.	.	.
NUP205	23165	broad.mit.edu	36	7	134951274	134951274	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015135	exon24	c.C3381T	p.T1127T	.	.	.
NPC1L1	29881	broad.mit.edu	36	7	44545104	44545104	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_013389	exon2	c.G1417A	p.A473T	.	.	.
POM121	9883	broad.mit.edu	36	7	72051359	72051359	+	Missense_Mutation	SNP	C	T	T	rs71554686	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_172020	exon13	c.C2096T	p.P699L	.	.	.
PCLO	27445	broad.mit.edu	36	7	82421508	82421508	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_033026	exon5	c.C6697T	p.P2233S	.	.	.
PCLO	27445	broad.mit.edu	36	7	82421605	82421605	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_033026	exon5	c.T6600G	p.I2200M	.	.	.
UBR5	51366	broad.mit.edu	36	8	103368882	103368882	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015902	exon37	c.G4912A	p.G1638R	.	.	.
C8orf80	389643	broad.mit.edu	36	8	27954579	27954579	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001010906	exon13	c.G1519A	p.A507T	.	.	.
PLEKHA2	59339	broad.mit.edu	36	8	38945340	38945340	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_021623	exon11	c.C911T	p.P304L	.	.	.
TRPA1	8989	broad.mit.edu	36	8	73137728	73137728	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_007332	exon6	c.G667C	p.E223Q	.	.	.
ZFHX4	79776	broad.mit.edu	36	8	77780941	77780941	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_024721	exon2	c.G2063A	p.R688Q	.	.	.
C8orf47	203111	broad.mit.edu	36	8	99171359	99171359	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_173549	exon2	c.G938A	p.R313Q	.	.	.
KCNS2	3788	broad.mit.edu	36	8	99510497	99510497	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020697	exon2	c.A1114G	p.M372V	.	.	.
PALM2-AKAP2	445815	broad.mit.edu	36	9	111939128	111939128	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_147150	exon8	c.A1483C	p.K495Q	.	.	.
NTNG2	84628	broad.mit.edu	36	9	134063464	134063464	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032536	exon3	c.C504T	p.A168A	.	.	.
BAG1	573	broad.mit.edu	36	9	33254430	33254430	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004323	exon1	c.C243T	p.T81T	.	.	.
WASH5P	375690	broad.mit.edu	36	9	4816	4816	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_182905	exon11	c.G1389C	p.W463C	.	.	.
HSD17B3	3293	broad.mit.edu	36	9	98054951	98054951	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000197	exon4	c.G340A	p.E114K	.	.	.
GRIA3	2892	broad.mit.edu	36	X	122426487	122426487	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_007325	exon13	c.G2167A	p.A723T	.	.	.
SLC25A14	9016	broad.mit.edu	36	X	129334578	129334578	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003951	exon10	c.C951T	p.Y317Y	.	.	.
CSF2RA	1438	broad.mit.edu	36	X	1367724	1367724	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_172245	exon6	c.C416T	p.A139V	.	.	.
SYTL5	94122	broad.mit.edu	36	X	37816287	37816287	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_138780	exon4	c.G373A	p.A125T	.	.	.
RBM10	8241	broad.mit.edu	36	X	46913734	46913734	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005676	exon3	c.C94T	p.R32X	.	.	.
CACNA1F	778	broad.mit.edu	36	X	48973778	48973778	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005183	exon6	c.G665T	p.S222I	.	.	.
AKAP4	8852	broad.mit.edu	36	X	49845218	49845218	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AG-3999-01A-01W-1073-09	TCGA-AG-3999-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003886	exon5	c.G886T	p.G296C	.	.	.