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
DOCK1	1793	broad.mit.edu	36	10	129073144	129073144	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001380	exon38	c.A3845G	p.H1282R	.	.	.
GDF10	2662	broad.mit.edu	36	10	48048882	48048882	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004962	exon2	c.G1010A	p.R337H	.	.	.
CALML5	51806	broad.mit.edu	36	10	5531064	5531064	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_017422	exon1	c.C338T	p.P113L	.	.	.
BICC1	80114	broad.mit.edu	36	10	59943055	59943055	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001080512	exon1	c.A146G	p.E49G	.	.	.
STOX1	219736	broad.mit.edu	36	10	70315066	70315066	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_152709	exon3	c.G1508A	p.R503Q	.	.	.
DLG5	9231	broad.mit.edu	36	10	79246430	79246430	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004747	exon20	c.C3910T	p.Q1304X	.	.	.
KIF20B	9585	broad.mit.edu	36	10	91488328	91488328	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_016195	exon20	c.A3630G	p.E1210E	.	.	.
BMPR1A	657	broad.mit.edu	36	10	88639961	88639961	+	Frame_Shift_Del	DEL	T	-	-	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004329	exon4	c.230delT	p.I77fs	.	.	.
ATM	472	broad.mit.edu	36	11	107719197	107719197	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000051	exon57	c.G8307A	p.W2769X	.	.	.
OR6M1	390261	broad.mit.edu	36	11	123181892	123181892	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001005325	exon1	c.G376A	p.D126N	.	.	.
FAM118B	79607	broad.mit.edu	36	11	125629514	125629514	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_024556	exon6	c.C672T	p.N224N	.	.	.
OR10AG1	282770	broad.mit.edu	36	11	55492179	55492179	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001005491	exon1	c.C337T	p.R113C	.	.	.
PRG2	5553	broad.mit.edu	36	11	56913314	56913314	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002728	exon3	c.G111T	p.E37D	.	.	.
SLC43A1	8501	broad.mit.edu	36	11	57024895	57024895	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003627	exon5	c.C398T	p.P133L	.	.	.
TMEM216	51259	broad.mit.edu	36	11	60921958	60921958	+	Silent	SNP	C	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_016499	exon4	c.C183A	p.G61G	.	.	.
SMPD1	6609	broad.mit.edu	36	11	6369742	6369742	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001007593	exon2	c.C868A	p.R290S	.	.	.
ACTN3	89	broad.mit.edu	36	11	66075660	66075660	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001104	exon3	c.C348A	p.S116R	.	.	.
NOX4	50507	broad.mit.edu	36	11	88712884	88712884	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_016931	exon15	c.A1441G	p.N481D	.	.	.
ATM	472	broad.mit.edu	36	11	107710974	107710976	+	In_Frame_Del	DEL	AGG	-	-	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	AGG	AGG	AGG	-	AGG	AGG	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000051	exon55	c.8079_8081del	p.2693_2694del	.	.	.
CLEC7A	64581	broad.mit.edu	36	12	10162443	10162443	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_022570	exon5	c.A487G	p.T163A	.	.	.
TAS2R10	50839	broad.mit.edu	36	12	10869904	10869904	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_023921	exon1	c.G232A	p.G78S	.	.	.
DTX1	1840	broad.mit.edu	36	12	111999661	111999661	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004416	exon2	c.G309A	p.P103P	.	.	.
CLIP1	6249	broad.mit.edu	36	12	121387222	121387222	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_198240	exon10	c.G2340A	p.Q780Q	.	.	.
DNAH10	196385	broad.mit.edu	36	12	122969231	122969231	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_207437	exon64	c.G10934A	p.R3645Q	.	.	.
GPR19	2842	broad.mit.edu	36	12	12706312	12706312	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006143	exon4	c.T338C	p.L113P	.	.	.
SLC38A2	54407	broad.mit.edu	36	12	45042571	45042571	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018976	exon14	c.A1297G	p.T433A	.	.	.
GALNT8	26290	broad.mit.edu	36	12	4744900	4744900	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_017417	exon10	c.C1688T	p.A563V	.	.	.
KRT80	144501	broad.mit.edu	36	12	50871906	50871906	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_182507	exon1	c.T48C	p.C16C	.	.	.
SP1	6667	broad.mit.edu	36	12	52063536	52063536	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_138473	exon3	c.C1538T	p.A513V	.	.	.
GPR84	53831	broad.mit.edu	36	12	53043742	53043742	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020370	exon2	c.G161A	p.R54Q	.	.	.
OR6C76	390326	broad.mit.edu	36	12	54107010	54107010	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001005183	exon1	c.T706C	p.S236P	.	.	.
VWF	7450	broad.mit.edu	36	12	5965012	5965012	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000552	exon39	c.G6879A	p.T2293T	.	.	.
MSRB3	253827	broad.mit.edu	36	12	63988657	63988657	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001193461	exon2	c.A31T	p.T11S	.	.	.
TUBA3C	7278	broad.mit.edu	36	13	18650431	18650431	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006001	exon3	c.C330T	p.I110I	.	.	.
POSTN	10631	broad.mit.edu	36	13	37062595	37062595	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001135934	exon4	c.G355A	p.A119T	.	.	.
NHLRC3	387921	broad.mit.edu	36	13	38519992	38519992	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001017370	exon6	c.G772C	p.A258P	.	.	.
UTP14C	9724	broad.mit.edu	36	13	51501877	51501877	+	Silent	SNP	C	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_021645	exon2	c.C936A	p.A312A	.	.	.
TBC1D4	9882	broad.mit.edu	36	13	74834235	74834235	+	Silent	SNP	T	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014832	exon2	c.A1008G	p.R336R	.	.	.
AHNAK2	113146	broad.mit.edu	36	14	104483308	104483308	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_138420	exon7	c.C9525T	p.A3175A	.	.	.
OR4M1	441670	broad.mit.edu	36	14	19318932	19318932	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001005500	exon1	c.G611T	p.G204V	.	.	.
HEATR5A	25938	broad.mit.edu	36	14	30926191	30926191	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015473	exon2	c.C196T	p.R66C	.	.	.
SPTLC2	9517	broad.mit.edu	36	14	77048441	77048441	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004863	exon12	c.G1628T	p.R543L	.	.	.
C14orf102	55051	broad.mit.edu	36	14	89826682	89826682	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_017970	exon10	c.A1865G	p.Q622R	.	.	.
COX8C	341947	broad.mit.edu	36	14	92883440	92883440	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_182971	exon1	c.G73A	p.A25T	.	.	.
MAGEL2	54551	broad.mit.edu	36	15	21441891	21441891	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_019066	exon1	c.G2092A	p.G698R	.	.	.
UNC13C	440279	broad.mit.edu	36	15	52095297	52095297	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001080534	exon1	c.C2905T	p.R969C	.	.	.
NTRK3	4916	broad.mit.edu	36	15	86479593	86479593	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001007156	exon9	c.G947A	p.R316H	.	.	.
LASS3	204219	broad.mit.edu	36	15	98842359	98842359	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_178842	exon6	c.C326T	p.T109M	.	.	.
SBK1	388228	broad.mit.edu	36	16	28239033	28239033	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001024401	exon4	c.C565T	p.R189C	.	.	.
ZNF423	23090	broad.mit.edu	36	16	48227850	48227850	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015069	exon5	c.G2714A	p.R905Q	.	.	.
GPR97	222487	broad.mit.edu	36	16	56271941	56271941	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_170776	exon8	c.G792A	p.T264T	.	.	.
CDH8	1006	broad.mit.edu	36	16	60409002	60409002	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001796	exon7	c.G1159C	p.E387Q	.	.	.
CDH8	1006	broad.mit.edu	36	16	60412422	60412422	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001796	exon6	c.C932T	p.S311L	.	.	.
KCTD19	146212	broad.mit.edu	36	16	65883102	65883102	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001100915	exon13	c.G2358A	p.T786T	.	.	.
COX4I1	1327	broad.mit.edu	36	16	84396941	84396941	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001861	exon4	c.G343A	p.A115T	.	.	.
ANKRD11	29123	broad.mit.edu	36	16	87874034	87874034	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_013275	exon9	c.G6417A	p.P2139P	.	.	.
PROCA1	147011	broad.mit.edu	36	17	24054918	24054918	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_152465	exon4	c.G796A	p.E266K	.	.	.
C17orf97	400566	broad.mit.edu	36	17	263542	263542	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001013672	exon2	c.C592T	p.R198W	.	.	.
LPO	4025	broad.mit.edu	36	17	53698597	53698597	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006151	exon11	c.G1604A	p.R535H	.	.	.
RAD51C	5889	broad.mit.edu	36	17	54156429	54156429	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_058216	exon7	c.C934T	p.R312W	.	.	.
KCNH6	81033	broad.mit.edu	36	17	58966962	58966962	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_030779	exon6	c.C1302T	p.I434I	.	.	.
SDK2	54549	broad.mit.edu	36	17	68926986	68926986	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001144952	exon16	c.C2100T	p.S700S	.	.	.
MARCH10	162333	broad.mit.edu	36	17	58191020	58191020	+	Frame_Shift_Del	DEL	G	-	-	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	-	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001100875	exon4	c.290delC	p.P97fs	.	.	.
PPP4R1	9989	broad.mit.edu	36	18	9539240	9539240	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001042388	exon19	c.C2644T	p.R882X	.	.	.
SLC44A2	57153	broad.mit.edu	36	19	10603577	10603577	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020428	exon9	c.C660T	p.L220L	.	.	.
ZNF682	91120	broad.mit.edu	36	19	19979011	19979011	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_033196	exon4	c.G300A	p.L100L	.	.	.
ZNF536	9745	broad.mit.edu	36	19	35626761	35626761	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014717	exon2	c.C452T	p.T151M	.	.	.
SLC7A10	56301	broad.mit.edu	36	19	38395621	38395621	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_019849	exon3	c.C484T	p.R162W	.	.	.
NPHS1	4868	broad.mit.edu	36	19	41030847	41030847	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004646	exon11	c.C1376A	p.T459N	.	.	.
DHX34	9704	broad.mit.edu	36	19	52568703	52568703	+	Silent	SNP	G	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014681	exon9	c.G2010C	p.R670R	.	.	.
HAS1	3036	broad.mit.edu	36	19	56911364	56911364	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001523	exon4	c.C1018T	p.R340W	.	.	.
LAIR1	3903	broad.mit.edu	36	19	59558713	59558713	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_021706	exon9	c.G789A	p.T263T	.	.	.
RFX2	5990	broad.mit.edu	36	19	5991251	5991251	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000635	exon5	c.C262T	p.R88X	.	.	.
ZFP28	140612	broad.mit.edu	36	19	61753285	61753285	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020828	exon6	c.G725A	p.R242H	.	.	.
ZNF135	7694	broad.mit.edu	36	19	63264769	63264769	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003436	exon3	c.A43G	p.T15A	.	.	.
RAB11B	9230	broad.mit.edu	36	19	8370842	8370842	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004218	exon2	c.G136A	p.V46M	.	.	.
COL5A3	50509	broad.mit.edu	36	19	9952774	9952774	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015719	exon33	c.G2495A	p.R832Q	.	.	.
TTC24	164118	broad.mit.edu	36	1	154819467	154819467	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001105669	exon4	c.G920A	p.G307E	.	.	.
VANGL2	57216	broad.mit.edu	36	1	158655985	158655985	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020335	exon4	c.C762T	p.T254T	.	.	.
BAT2L2	23215	broad.mit.edu	36	1	169768401	169768401	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015172	exon12	c.G1544A	p.R515H	.	.	.
ASTN1	460	broad.mit.edu	36	1	175184979	175184979	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004319	exon12	c.C2019T	p.D673D	.	.	.
FAM5C	339479	broad.mit.edu	36	1	188334737	188334737	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_199051	exon8	c.C1335T	p.D445D	.	.	.
G0S2	50486	broad.mit.edu	36	1	207915844	207915844	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015714	exon2	c.G192A	p.A64A	.	.	.
RD3	343035	broad.mit.edu	36	1	209719152	209719152	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001164688	exon3	c.C437T	p.P146L	.	.	.
KCNK2	3776	broad.mit.edu	36	1	213412146	213412146	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001017424	exon5	c.G808T	p.A270S	.	.	.
HSPG2	3339	broad.mit.edu	36	1	22078087	22078087	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005529	exon18	c.G2458A	p.D820N	.	.	.
NLRP3	114548	broad.mit.edu	36	1	245674681	245674681	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004895	exon8	c.C2946T	p.G982G	.	.	.
CSMD2	114784	broad.mit.edu	36	1	34085156	34085156	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_052896	exon6	c.G829A	p.V277I	.	.	.
CLSPN	63967	broad.mit.edu	36	1	35989584	35989584	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001190481	exon9	c.T1690C	p.F564L	.	.	.
RSPO1	284654	broad.mit.edu	36	1	37867916	37867916	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001038633	exon4	c.G5A	p.R2Q	.	.	.
SMAP2	64744	broad.mit.edu	36	1	40646957	40646957	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001198979	exon3	c.G268A	p.A90T	.	.	.
HPDL	84842	broad.mit.edu	36	1	45565857	45565857	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032756	exon1	c.C450T	p.S150S	.	.	.
ZYG11B	79699	broad.mit.edu	36	1	53009534	53009534	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_024646	exon3	c.G451A	p.E151K	.	.	.
CCBL2	56267	broad.mit.edu	36	1	89226604	89226604	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001008661	exon2	c.G18A	p.R6R	.	.	.
XRN2	22803	broad.mit.edu	36	20	21262590	21262590	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_012255	exon12	c.C1083T	p.D361D	.	.	.
C20orf185	359710	broad.mit.edu	36	20	31116138	31116138	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_182658	exon8	c.C750T	p.I250I	.	.	.
C20orf71	128861	broad.mit.edu	36	20	31275418	31275418	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_178466	exon2	c.C268A	p.Q90K	.	.	.
TGM2	7052	broad.mit.edu	36	20	36208591	36208591	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_198951	exon6	c.C801T	p.H267H	.	.	.
NTSR1	4923	broad.mit.edu	36	20	60856570	60856570	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002531	exon2	c.G803A	p.R268H	.	.	.
EIF4ENIF1	56478	broad.mit.edu	36	22	30189896	30189896	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_019843	exon5	c.G356A	p.R119Q	.	.	.
PARVB	29780	broad.mit.edu	36	22	42860220	42860220	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001003828	exon7	c.C730T	p.R244W	.	.	.
CCDC138	165055	broad.mit.edu	36	2	108859080	108859080	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_144978	exon15	c.C1937T	p.S646L	.	.	.
MARCO	8685	broad.mit.edu	36	2	119467210	119467210	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006770	exon16	c.C1293A	p.N431K	.	.	.
KIF5C	3800	broad.mit.edu	36	2	149562031	149562031	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004522	exon17	c.G1959A	p.M653I	.	.	.
PTH2R	5746	broad.mit.edu	36	2	209016388	209016388	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005048	exon6	c.A580T	p.I194F	.	.	.
IGFBP2	3485	broad.mit.edu	36	2	217236965	217236965	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000597	exon4	c.G871A	p.G291R	.	.	.
CRIM1	51232	broad.mit.edu	36	2	36560219	36560219	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_016441	exon7	c.G1250A	p.R417Q	.	.	.
ATP6V1B1	525	broad.mit.edu	36	2	71043881	71043881	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001692	exon10	c.C991T	p.R331W	.	.	.
DCTN1	1639	broad.mit.edu	36	2	74447479	74447479	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_023019	exon16	c.G2003A	p.R668Q	.	.	.
CTNNA2	1496	broad.mit.edu	36	2	79990372	79990372	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004389	exon7	c.G997A	p.V333M	.	.	.
CBLB	868	broad.mit.edu	36	3	106895122	106895122	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_170662	exon13	c.G1960A	p.V654I	.	.	.
WNT7A	7476	broad.mit.edu	36	3	13891502	13891502	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004625	exon2	c.C241T	p.R81C	.	.	.
ATR	545	broad.mit.edu	36	3	143760198	143760198	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001184	exon8	c.G1843A	p.A615T	.	.	.
MCCC1	56922	broad.mit.edu	36	3	184239570	184239570	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020166	exon12	c.G1315A	p.V439M	.	.	.
CNTN4	152330	broad.mit.edu	36	3	3053980	3053980	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_175613	exon9	c.G1076A	p.R359H	.	.	.
SUSD5	26032	broad.mit.edu	36	3	33169399	33169399	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015551	exon5	c.G1729A	p.A577T	.	.	.
ITPR1	3708	broad.mit.edu	36	3	4678815	4678815	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001099952	exon15	c.C1301T	p.P434L	.	.	.
SMARCC1	6599	broad.mit.edu	36	3	47626743	47626743	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003074	exon26	c.G2860A	p.A954T	.	.	.
CXXC4	80319	broad.mit.edu	36	4	105631544	105631544	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_025212	exon1	c.T358G	p.S120A	.	.	.
ENPEP	2028	broad.mit.edu	36	4	111693981	111693981	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001977	exon18	c.C2563T	p.R855X	.	.	.
TUBB4Q	56604	broad.mit.edu	36	4	191140990	191140990	+	Silent	SNP	C	T	T	rs4277823	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020040	exon4	c.G985A	p.D329N	.	.	.
UGDH	7358	broad.mit.edu	36	4	39188744	39188744	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001184701	exon3	c.C106T	p.P36S	.	.	.
EPHA5	2044	broad.mit.edu	36	4	65872493	65872493	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004439	exon18	c.G3048A	p.Q1016Q	.	.	.
HERC5	51191	broad.mit.edu	36	4	89644460	89644460	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_016323	exon21	c.G2637A	p.A879A	.	.	.
BMPR1B	658	broad.mit.edu	36	4	96244674	96244674	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001203	exon4	c.C76T	p.R26C	.	.	.
PIK3R1	5295	broad.mit.edu	36	5	67558530	67558531	+	Frame_Shift_Ins	INS	-	CA	CA	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	-	-	-	CA	-	-	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_181523	exon1	c.271_272insCA	p.P91fs	.	.	.
AQPEP	206338	broad.mit.edu	36	5	115348226	115348226	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_173800	exon3	c.C899T	p.T300M	.	.	.
RAD50	10111	broad.mit.edu	36	5	131952396	131952396	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005732	exon8	c.A1170G	p.E390E	.	.	.
KIF3A	11127	broad.mit.edu	36	5	132079468	132079468	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_007054	exon8	c.C1009T	p.R337W	.	.	.
PCDHGA9	56107	broad.mit.edu	36	5	140763355	140763355	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018921	exon1	c.G652A	p.G218S	.	.	.
AGXT2L2	85007	broad.mit.edu	36	5	177584979	177584979	+	De_novo_Start_OutOfFrame	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_153373	exon4	c.C396T	p.D132D	.	.	.
ADAMTS12	81792	broad.mit.edu	36	5	33611990	33611990	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_030955	exon19	c.C3898A	p.L1300I	.	.	.
C5orf42	65250	broad.mit.edu	36	5	37216032	37216032	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_023073	exon28	c.A5581G	p.T1861A	.	.	.
NAIP	4671	broad.mit.edu	36	5	70344159	70344159	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004536	exon4	c.A340G	p.I114V	.	.	.
RASA1	5921	broad.mit.edu	36	5	86600315	86600338	+	In_Frame_Del	DEL	TGCTGCTGCTGGCGTGGCCGGTGC	-	-	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	TGCTGCTGCTGGCGTGGCCGGTGC	TGCTGCTGCTGGCGTGGCCGGTGC	TGCTGCTGCTGGCGTGGCCGGTGC	-	TGCTGCTGCTGGCGTGGCCGGTGC	TGCTGCTGCTGGCGTGGCCGGTGC	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002890	exon1	c.291_314del	p.97_105del	.	.	.
TBC1D7	51256	broad.mit.edu	36	6	13414708	13414708	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001143965	exon7	c.T696C	p.C232C	.	.	.
TCF21	6943	broad.mit.edu	36	6	134252414	134252414	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_198392	exon1	c.G186A	p.A62A	.	.	.
HIVEP2	3097	broad.mit.edu	36	6	143133201	143133201	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006734	exon5	c.G4368T	p.Q1456H	.	.	.
SYNE1	23345	broad.mit.edu	36	6	152771934	152771934	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_033071	exon44	c.A6523G	p.K2175E	.	.	.
HFE	3077	broad.mit.edu	36	6	26199288	26199288	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_139004	exon2	c.T317G	p.M106R	.	.	.
DHX16	8449	broad.mit.edu	36	6	30732174	30732174	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003587	exon15	c.C2403T	p.A801A	.	.	.
ABCC10	89845	broad.mit.edu	36	6	43508965	43508965	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001198934	exon3	c.C1269T	p.F423F	.	.	.
TFAP2D	83741	broad.mit.edu	36	6	50794766	50794766	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_172238	exon3	c.C542A	p.S181Y	.	.	.
NDUFAF4	29078	broad.mit.edu	36	6	97445937	97445937	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014165	exon3	c.G292A	p.D98N	.	.	.
VARS2	57176	broad.mit.edu	36	6	31000115	31000115	+	Frame_Shift_Del	DEL	T	-	-	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T	T	-	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001167733	exon25	c.2052delT	p.A684fs	.	.	.
CUX1	1523	broad.mit.edu	36	7	101632041	101632041	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_181552	exon18	c.C2744T	p.P915L	.	.	.
RELN	5649	broad.mit.edu	36	7	102994036	102994036	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005045	exon33	c.C4807A	p.Q1603K	.	.	.
PLXNA4	91584	broad.mit.edu	36	7	131465784	131465784	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020911	exon32	c.C5679A	p.D1893E	.	.	.
BRAF	673	broad.mit.edu	36	7	140099605	140099605	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004333	exon15	c.T1799A	p.V600E	 BRAF,pituitary,NS,Substitution - Missense,0 	.	.
HDAC9	9734	broad.mit.edu	36	7	18982021	18982021	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_178423	exon25	c.G3081T	p.L1027F	.	.	.
GRM3	2913	broad.mit.edu	36	7	86253812	86253812	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000840	exon3	c.C768T	p.Y256Y	.	.	.
CCDC132	55610	broad.mit.edu	36	7	92721130	92721130	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_024553	exon4	c.T247A	p.L83M	.	.	.
LRP12	29967	broad.mit.edu	36	8	105579306	105579306	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_013437	exon5	c.A650C	p.Y217S	.	.	.
MYOM2	9172	broad.mit.edu	36	8	2029300	2029300	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003970	exon17	c.C2100T	p.D700D	.	.	.
NEFM	4741	broad.mit.edu	36	8	24831403	24831403	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001105541	exon3	c.G1002T	p.K334N	.	.	.
CSMD1	64478	broad.mit.edu	36	8	2955133	2955133	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_033225	exon43	c.T6563G	p.L2188R	.	.	.
TOX	9760	broad.mit.edu	36	8	59913385	59913385	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014729	exon5	c.A733G	p.K245E	.	.	.
SPAG11B	10407	broad.mit.edu	36	8	7307657	7307657	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_058200	exon2	c.C196T	p.R66C	.	.	.
RUNX1T1	862	broad.mit.edu	36	8	93057346	93057346	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001198626	exon11	c.G1311A	p.A437A	.	.	.
MTERFD1	51001	broad.mit.edu	36	8	97327268	97327268	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015942	exon6	c.T893A	p.M298K	.	.	.
COL15A1	1306	broad.mit.edu	36	9	100825532	100825532	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001855	exon14	c.G1834A	p.G612S	.	.	.
DBC1	1620	broad.mit.edu	36	9	120969830	120969830	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014618	exon8	c.C1639T	p.R547C	.	.	.
SARDH	1757	broad.mit.edu	36	9	135563258	135563258	+	Missense_Mutation	SNP	C	T	T	rs35699831	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_007101	exon11	c.G1442A	p.R481H	.	.	.
CNTLN	54875	broad.mit.edu	36	9	17454498	17454498	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_017738	exon21	c.A3408G	p.I1136M	.	.	.
GNE	10020	broad.mit.edu	36	9	36239330	36239330	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001128227	exon2	c.G116A	p.R39Q	.	.	.
C9orf150	286343	broad.mit.edu	36	9	12765862	12765870	+	In_Frame_Del	DEL	GGCGGCGGC	-	-	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	GGCGGCGGC	GGCGGCGGC	GGCGGCGGC	-	GGCGGCGGC	GGCGGCGGC	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_203403	exon1	c.148_156del	p.50_52del	.	.	.
CHRDL1	91851	broad.mit.edu	36	X	109889617	109889617	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001143981	exon4	c.C229T	p.R77X	.	.	.
MXRA5	25878	broad.mit.edu	36	X	3258773	3258773	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3664-01A-01W-0900-09	TCGA-AA-3664-10A-01W-0900-09	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015419	exon3	c.G230C	p.G77A	.	.	.
