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
ZRANB1	54764	broad.mit.edu	36	10	126621435	126621435	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_017580	exon1	c.G383C	p.R128T	.	.	.
ARMC3	219681	broad.mit.edu	36	10	23310551	23310551	+	Nonsense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_173081	exon10	c.T1091A	p.L364X	.	.	.
ZEB1	6935	broad.mit.edu	36	10	31850448	31850448	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001174093	exon6	c.C2119A	p.Q707K	.	.	.
C10orf27	219793	broad.mit.edu	36	10	72202286	72202286	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_152710	exon10	c.C960T	p.S320S	.	.	.
LDB3	11155	broad.mit.edu	36	10	88475944	88475944	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001171610	exon13	c.C2064T	p.I688I	.	.	.
NELL1	4745	broad.mit.edu	36	11	20897374	20897374	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006157	exon7	c.C677T	p.T226I	.	.	.
SLC1A2	6506	broad.mit.edu	36	11	35243829	35243829	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004171	exon10	c.A1474T	p.I492L	.	.	.
OR51V1	283111	broad.mit.edu	36	11	5178088	5178088	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001004760	exon1	c.G419A	p.R140H	.	.	.
OR52N1	79473	broad.mit.edu	36	11	5766439	5766439	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001001913	exon1	c.T184C	p.Y62H	.	.	.
NUMA1	4926	broad.mit.edu	36	11	71403249	71403249	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006185	exon15	c.G2948A	p.R983Q	.	.	.
ARAP1	116985	broad.mit.edu	36	11	72085279	72085279	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001040118	exon23	c.C3235T	p.R1079W	.	.	.
FOLR4	390243	broad.mit.edu	36	11	93680056	93680056	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001199206	exon3	c.C426T	p.D142D	.	.	.
KNTC1	9735	broad.mit.edu	36	12	121633351	121633351	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014708	exon34	c.G3129A	p.V1043V	.	.	.
KRAS	3845	broad.mit.edu	36	12	25289551	25289551	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004985	exon2	c.G35C	p.G12A	 KRAS,haematopoietic_and_lymphoid_tissue,NS,Substitution - Missense,0 	.	.
CHD4	1108	broad.mit.edu	36	12	6572907	6572907	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001273	exon16	c.G2450A	p.R817Q	.	.	.
ACSM4	341392	broad.mit.edu	36	12	7361138	7361138	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001080454	exon4	c.C759T	p.C253C	.	.	.
SLC17A8	246213	broad.mit.edu	36	12	99335992	99335992	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_139319	exon11	c.G1352T	p.G451V	.	.	.
COL4A2	1284	broad.mit.edu	36	13	109930729	109930729	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001846	exon31	c.G2749A	p.G917R	.	.	.
MYCBP2	23077	broad.mit.edu	36	13	76562370	76562370	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015057	exon60	c.A10397G	p.D3466G	.	.	.
SLITRK5	26050	broad.mit.edu	36	13	87127426	87127426	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015567	exon2	c.G1782A	p.A594A	.	.	.
SIPA1L1	26037	broad.mit.edu	36	14	71197856	71197857	+	Frame_Shift_Ins	INS	-	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	-	-	-	-	-	-	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015556	exon7	c.2174_2175insA	p.P725fs	.	.	.
AHNAK2	113146	broad.mit.edu	36	14	104485716	104485716	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_138420	exon7	c.G7117A	p.A2373T	.	.	.
OR10G3	26533	broad.mit.edu	36	14	21107974	21107974	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001005465	exon1	c.G742A	p.V248M	.	.	.
SYNJ2BP	55333	broad.mit.edu	36	14	69909522	69909522	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018373	exon4	c.C377T	p.P126L	.	.	.
SUPT16H	11198	broad.mit.edu	36	14	20897492	20897493	+	Frame_Shift_Del	DEL	AT	-	-	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	AT	AT					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_007192	exon19	c.2291_2292del	p.764_764del	.	.	.
RYR3	6263	broad.mit.edu	36	15	31741880	31741880	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001036	exon35	c.G4857A	p.K1619K	.	.	.
RNF111	54778	broad.mit.edu	36	15	57155550	57155550	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_017610	exon7	c.C1792T	p.R598X	.	.	.
TSPAN3	10099	broad.mit.edu	36	15	75135477	75135477	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005724	exon2	c.G239A	p.R80H	.	.	.
LRRK1	79705	broad.mit.edu	36	15	99410772	99410772	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	G	G	G	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_024652	exon25	c.G3812C	p.R1271P	.	.	.
TMC7	79905	broad.mit.edu	36	16	18935403	18935403	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001160364	exon3	c.G112A	p.D38N	.	.	.
PRKCB	5579	broad.mit.edu	36	16	24104286	24104286	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_212535	exon15	c.C1619A	p.P540H	.	.	.
KIAA0556	23247	broad.mit.edu	36	16	27618375	27618375	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015202	exon10	c.C1133A	p.A378E	.	.	.
ZNF423	23090	broad.mit.edu	36	16	48227780	48227780	+	Silent	SNP	G	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015069	exon5	c.C2784A	p.G928G	.	.	.
PPL	5493	broad.mit.edu	36	16	4874855	4874855	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002705	exon22	c.G3802A	p.E1268K	.	.	.
BRD7	29117	broad.mit.edu	36	16	48945884	48945884	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_013263	exon4	c.G399C	p.Q133H	.	.	.
CES3	23491	broad.mit.edu	36	16	65555825	65555825	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001185177	exon5	c.G625A	p.V209M	.	.	.
EXOC3L	283849	broad.mit.edu	36	16	65778663	65778663	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_178516	exon5	c.G1006A	p.A336T	.	.	.
NQO1	1728	broad.mit.edu	36	16	68302574	68302574	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000903	exon6	c.C631T	p.R211C	.	.	.
KARS	3735	broad.mit.edu	36	16	74227476	74227476	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001130089	exon6	c.A588T	p.E196D	.	.	.
USP10	9100	broad.mit.edu	36	16	83349874	83349874	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005153	exon5	c.G1244A	p.R415H	.	.	.
FOXL1	2300	broad.mit.edu	36	16	85170097	85170097	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005250	exon1	c.C267A	p.N89K	.	.	.
CNTNAP4	85445	broad.mit.edu	36	16	75129582	75129582	+	Frame_Shift_Del	DEL	A	-	-	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	A	A	A	-	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_033401	exon19	c.3063delA	p.V1021fs	.	.	.
SPECC1	92521	broad.mit.edu	36	17	20049658	20049658	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001033555	exon2	c.C1461T	p.A487A	.	.	.
FAM101B	359845	broad.mit.edu	36	17	293468	293468	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_182705	exon2	c.C151T	p.R51X	.	.	.
PIP4K2B	8396	broad.mit.edu	36	17	34180228	34180228	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003559	exon9	c.C1157T	p.T386M	.	.	.
MED1	5469	broad.mit.edu	36	17	34820408	34820408	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004774	exon17	c.C1592T	p.T531I	.	.	.
KRT25	147183	broad.mit.edu	36	17	36160316	36160316	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_181534	exon6	c.G1017A	p.A339A	.	.	.
SPHK1	8877	broad.mit.edu	36	17	71894542	71894542	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_021972	exon6	c.G477A	p.R159R	.	.	.
ZBTB7C	201501	broad.mit.edu	36	18	43821017	43821017	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001039360	exon2	c.G460A	p.E154K	.	.	.
CDH20	28316	broad.mit.edu	36	18	57317534	57317534	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_031891	exon2	c.G382T	p.A128S	.	.	.
PTPRM	5797	broad.mit.edu	36	18	8075801	8075801	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002845	exon10	c.A1684T	p.T562S	.	.	.
NWD1	284434	broad.mit.edu	36	19	16722197	16722197	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001007525	exon6	c.G1744A	p.V582M	.	.	.
ZNF404	342908	broad.mit.edu	36	19	49068843	49068843	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001033719	exon2	c.A1354T	p.I452F	.	.	.
TMEM143	55260	broad.mit.edu	36	19	53558447	53558447	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018273	exon2	c.C177T	p.N59N	.	.	.
ZFP28	140612	broad.mit.edu	36	19	61756887	61756887	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020828	exon8	c.C921T	p.T307T	.	.	.
PRAMEF4	400735	broad.mit.edu	36	1	12864394	12864394	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001009611	exon3	c.G743A	p.R248H	.	.	.
MRPL9	65005	broad.mit.edu	36	1	150002227	150002227	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_031420	exon2	c.G173A	p.R58H	.	.	.
ASH1L	55870	broad.mit.edu	36	1	153582855	153582855	+	Silent	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018489	exon21	c.G7833T	p.V2611V	.	.	.
TOR1AIP1	26092	broad.mit.edu	36	1	178153933	178153933	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015602	exon10	c.G1688A	p.R563H	.	.	.
TAS1R2	80834	broad.mit.edu	36	1	19053510	19053510	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_152232	exon3	c.G1041A	p.P347P	.	.	.
TRIM67	440730	broad.mit.edu	36	1	229409083	229409083	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001004342	exon7	c.C1743T	p.Y581Y	.	.	.
OR2G6	391211	broad.mit.edu	36	1	246752024	246752024	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001013355	exon1	c.G454A	p.G152S	.	.	.
BAI2	576	broad.mit.edu	36	1	31969040	31969040	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001703	exon29	c.G4328A	p.R1443Q	.	.	.
ZSCAN20	7579	broad.mit.edu	36	1	33732888	33732888	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_145238	exon8	c.G2357T	p.R786I	.	.	.
GRIK3	2899	broad.mit.edu	36	1	37040098	37040098	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000831	exon16	c.C2701T	p.R901W	.	.	.
USP33	23032	broad.mit.edu	36	1	77974413	77974413	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015017	exon7	c.A463G	p.N155D	.	.	.
SH3GLB1	51100	broad.mit.edu	36	1	86980556	86980556	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_016009	exon8	c.G839A	p.G280D	.	.	.
GBP1	2633	broad.mit.edu	36	1	89295233	89295233	+	Silent	SNP	G	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002053	exon7	c.C1047A	p.T349T	.	.	.
LRRC8D	55144	broad.mit.edu	36	1	90172622	90172622	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001134479	exon3	c.G1407A	p.Q469Q	.	.	.
GZF1	64412	broad.mit.edu	36	20	23294300	23294300	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_022482	exon1	c.G1280A	p.R427H	.	.	.
EDEM2	55741	broad.mit.edu	36	20	33167258	33167258	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018217	exon11	c.C1376A	p.T459N	.	.	.
SLC32A1	140679	broad.mit.edu	36	20	36787162	36787162	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_080552	exon1	c.C381T	p.N127N	.	.	.
DSCAM	1826	broad.mit.edu	36	21	40647533	40647533	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001389	exon5	c.G663A	p.A221A	.	.	.
C22orf40	150383	broad.mit.edu	36	22	45022749	45022750	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_207327	exon2	c.97_98insC	p.N33fs	.	.	.
UBE2L3	7332	broad.mit.edu	36	22	20295165	20295165	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003347	exon3	c.A143C	p.K48T	.	.	.
NIPSNAP1	8508	broad.mit.edu	36	22	28286799	28286799	+	Nonsense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003634	exon8	c.C630A	p.Y210X	.	.	.
DDX17	10521	broad.mit.edu	36	22	37225351	37225351	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001098504	exon3	c.C538T	p.Q180X	.	.	.
FBLN7	129804	broad.mit.edu	36	2	112659310	112659310	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_153214	exon7	c.C870T	p.T290T	.	.	.
PSMD14	10213	broad.mit.edu	36	2	161950328	161950328	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005805	exon8	c.G570A	p.Q190Q	.	.	.
PXDN	7837	broad.mit.edu	36	2	1632219	1632219	+	Silent	SNP	G	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_012293	exon17	c.C2340A	p.G780G	.	.	.
CSRNP3	80034	broad.mit.edu	36	2	166159831	166159831	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001172173	exon4	c.A10G	p.I4V	.	.	.
MAP2	4133	broad.mit.edu	36	2	210267735	210267735	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002374	exon7	c.G2596T	p.D866Y	.	.	.
FN1	2335	broad.mit.edu	36	2	215945341	215945341	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_212476	exon38	c.G5707A	p.E1903K	.	.	.
RUFY4	285180	broad.mit.edu	36	2	218648365	218648365	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_198483	exon9	c.C905A	p.A302D	.	.	.
SPEG	10290	broad.mit.edu	36	2	220041951	220041951	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005876	exon12	c.G3428A	p.G1143D	.	.	.
HDLBP	3069	broad.mit.edu	36	2	241850981	241850981	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005336	exon5	c.A268G	p.K90E	.	.	.
SUPT7L	9913	broad.mit.edu	36	2	27733747	27733747	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014860	exon4	c.G713A	p.R238H	.	.	.
VIT	5212	broad.mit.edu	36	2	36867896	36867896	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	G	G	G	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001177969	exon11	c.G986T	p.G329V	.	.	.
UGP2	7360	broad.mit.edu	36	2	63966510	63966510	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001001521	exon6	c.C826T	p.R276C	.	.	.
MXD1	4084	broad.mit.edu	36	2	70002385	70002385	+	Nonsense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002357	exon3	c.G187T	p.E63X	.	.	.
SLC6A11	6538	broad.mit.edu	36	3	10946011	10946011	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014229	exon10	c.G1357A	p.V453M	.	.	.
TM4SF4	7104	broad.mit.edu	36	3	150676313	150676313	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004617	exon2	c.C188T	p.A63V	.	.	.
PIK3CA	5290	broad.mit.edu	36	3	180399548	180399548	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006218	exon2	c.G241A	p.E81K	 PIK3CA,large_intestine,right,Substitution - Missense,0 	.	.
PIK3CA	5290	broad.mit.edu	36	3	180399623	180399623	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006218	exon2	c.G316C	p.G106R	 PIK3CA,large_intestine,NS,Substitution - Missense,-1 	.	.
PIK3CA	5290	broad.mit.edu	36	3	180418785	180418785	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006218	exon10	c.G1633C	p.E545Q	 PIK3CA,urinary_tract,bladder,Substitution - Missense,0 	.	.
ABCF3	55324	broad.mit.edu	36	3	185388745	185388745	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018358	exon7	c.C692A	p.P231Q	.	.	.
ROBO2	6092	broad.mit.edu	36	3	77711849	77711849	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002942	exon16	c.G2390A	p.R797Q	.	.	.
ROBO1	6091	broad.mit.edu	36	3	78783598	78783598	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002941	exon19	c.C2786A	p.T929N	.	.	.
ANK2	287	broad.mit.edu	36	4	114482369	114482369	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020977	exon33	c.G3970A	p.V1324I	.	.	.
NDST4	64579	broad.mit.edu	36	4	116216783	116216783	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_022569	exon2	c.G859T	p.A287S	.	.	.
FBXW7	55294	broad.mit.edu	36	4	153468834	153468834	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018315	exon8	c.G1154A	p.R385H	 FBXW7,large_intestine,NS,Substitution - Missense,0 	.	.
NEK1	4750	broad.mit.edu	36	4	170558081	170558081	+	Silent	SNP	A	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001199400	exon32	c.T3501A	p.A1167A	.	.	.
FAM149A	25854	broad.mit.edu	36	4	187325238	187325238	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001006655	exon11	c.G1287A	p.T429T	.	.	.
CENPC1	1060	broad.mit.edu	36	4	68057395	68057395	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001812	exon10	c.G1636T	p.V546L	.	.	.
PPIP5K2	23262	broad.mit.edu	36	5	102548320	102548320	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015216	exon25	c.G3145A	p.E1049K	.	.	.
AQPEP	206338	broad.mit.edu	36	5	115326757	115326757	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_173800	exon1	c.G544A	p.A182T	.	.	.
TRPC7	57113	broad.mit.edu	36	5	135720895	135720895	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020389	exon2	c.G80A	p.R27Q	.	.	.
PCDHB12	56124	broad.mit.edu	36	5	140569200	140569200	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018932	exon1	c.C537T	p.H179H	.	.	.
PCDHB15	56121	broad.mit.edu	36	5	140607010	140607010	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018935	exon1	c.C1680T	p.F560F	.	.	.
ODZ2	57451	broad.mit.edu	36	5	167578323	167578323	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001122679	exon23	c.T4822A	p.F1608I	.	.	.
ITGA2	3673	broad.mit.edu	36	5	52321109	52321109	+	Silent	SNP	G	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002203	exon1	c.G54T	p.A18A	.	.	.
MED10	84246	broad.mit.edu	36	5	6425670	6425670	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032286	exon4	c.G354A	p.P118P	.	.	.
MARVELD2	153562	broad.mit.edu	36	5	68751206	68751206	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001038603	exon2	c.C238T	p.R80C	.	.	.
GPR98	84059	broad.mit.edu	36	5	90108047	90108047	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_032119	exon61	c.G12425A	p.R4142Q	.	.	.
APC	324	broad.mit.edu	36	5	112203452	112203452	+	Frame_Shift_Del	DEL	G	-	-	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001127511	exon14	c.4208delG	p.S1403fs	 APC,large_intestine,NS,Substitution - Missense,-2 	.	.
PLEKHG1	57480	broad.mit.edu	36	6	151195028	151195028	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001029884	exon16	c.G3088A	p.A1030T	.	.	.
SYNE1	23345	broad.mit.edu	36	6	152725009	152725009	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_033071	exon64	c.G10309A	p.G3437R	.	.	.
TCP10	6953	broad.mit.edu	36	6	167706647	167706647	+	Nonstop_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004610	exon8	c.A981G	p.X327W	.	.	.
LRFN2	57497	broad.mit.edu	36	6	40468095	40468095	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020737	exon3	c.C1935T	p.S645S	.	.	.
TTBK1	84630	broad.mit.edu	36	6	43330829	43330829	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_032538	exon7	c.G641A	p.R214Q	.	.	.
CYB5R4	51167	broad.mit.edu	36	6	84684500	84684501	+	Missense_Mutation	DNP	CA	AC	AC	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	CA	CA					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_016230	exon6	c.503_504AC	.	.	.	.
PM20D2	135293	broad.mit.edu	36	6	89919591	89919591	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001010853	exon3	c.G725C	p.R242T	.	.	.
PPP1R3A	5506	broad.mit.edu	36	7	113305796	113305796	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002711	exon4	c.G2587T	p.D863Y	.	.	.
TRYX3	136541	broad.mit.edu	36	7	141601444	141601444	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001001317	exon4	c.A344G	p.D115G	.	.	.
LOC155060	155060	broad.mit.edu	36	7	148606433	148606433	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001195220	exon5	c.G684A	p.P228P	.	.	.
ABCB5	340273	broad.mit.edu	36	7	20734537	20734537	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_178559	exon14	c.C1466T	p.A489V	.	.	.
BBS9	27241	broad.mit.edu	36	7	33263388	33263388	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001033605	exon6	c.G458A	p.C153Y	.	.	.
GTF2IRD1	9569	broad.mit.edu	36	7	73599506	73599506	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005685	exon17	c.C1870T	p.R624W	.	.	.
ADAM22	53616	broad.mit.edu	36	7	87633122	87633122	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_021722	exon24	c.T2116C	p.W706R	.	.	.
MGC26647	219557	broad.mit.edu	36	7	88261856	88261856	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_152706	exon2	c.G337T	p.D113Y	.	.	.
ZNF804B	219578	broad.mit.edu	36	7	88801415	88801415	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_181646	exon4	c.C1183A	p.Q395K	.	.	.
ARC	23237	broad.mit.edu	36	8	143691943	143691943	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015193	exon1	c.T692G	p.V231G	.	.	.
CSMD1	64478	broad.mit.edu	36	8	2811538	2811538	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_033225	exon58	c.G9062T	p.S3021I	.	.	.
YTHDF3	253943	broad.mit.edu	36	8	64261692	64261692	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_152758	exon4	c.G568A	p.A190T	.	.	.
CYP7B1	9420	broad.mit.edu	36	8	65679879	65679879	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004820	exon5	c.G1147A	p.G383R	.	.	.
ARFGEF1	10565	broad.mit.edu	36	8	68313153	68313153	+	Nonsense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006421	exon22	c.G3268T	p.E1090X	.	.	.
GDF6	392255	broad.mit.edu	36	8	97241824	97241824	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001001557	exon1	c.C273T	p.R91R	.	.	.
ABCA1	19	broad.mit.edu	36	9	106602051	106602051	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005502	exon36	c.T4813G	p.F1605V	.	.	.
ABCA1	19	broad.mit.edu	36	9	106685252	106685252	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005502	exon5	c.C310T	p.R104C	.	.	.
FNBP1	23048	broad.mit.edu	36	9	131705034	131705034	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015033	exon13	c.G1363T	p.D455Y	.	.	.
TLE1	7088	broad.mit.edu	36	9	83395690	83395690	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005077	exon16	c.C1679T	p.A560V	.	.	.
F9	2158	broad.mit.edu	36	X	138471391	138471391	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000133	exon8	c.G881A	p.R294Q	.	.	.
MAP3K15	389840	broad.mit.edu	36	X	19302536	19302536	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001001671	exon20	c.G2753A	p.R918Q	.	.	.
NR0B1	190	broad.mit.edu	36	X	30232855	30232855	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000475	exon2	c.C1175T	p.P392L	.	.	.
GAGE12J	729396	broad.mit.edu	36	X	49066661	49066661	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001098406	exon2	c.A45G	p.R15R	.	.	.
ITIH5L	347365	broad.mit.edu	36	X	54796824	54796824	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3852-01A-01W-0900-09	TCGA-AA-3852-10A-01W-0900-09	C	C	C	C	C	C	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_198510	exon11	c.G3337A	p.E1113K	.	.	.