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
CCDC88C	440193	broad.mit.edu	36	14	90809255	90809256	+	Frame_Shift_Ins	INS	-	G	G	novel		TCGA-AG-3878-01	TCGA-AG-3878-01							Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_001080414	exon30	c.5554_5555insC	p.S1852fs	.	.	.
TGIF1	7050	broad.mit.edu	36	18	3447365	3447366	+	Frame_Shift_Ins	INS	-	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01							Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_173208	exon4	c.246_247insT	p.V82fs	.	.	.
FGD3	89846	broad.mit.edu	36	9	94778720	94778721	+	Frame_Shift_Ins	INS	-	C	C	novel		TCGA-AG-3878-01	TCGA-AG-3878-01							Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_033086	exon3	c.361_362insC	p.T121fs	.	.	.
ADAM6	8755	broad.mit.edu	36	14	105425540	105425541	+	Splice_Site	INS	-	G	G	novel		TCGA-AG-3878-01	TCGA-AG-3878-01							Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	.	.	.	.	.	.	.
OR9A4	130075	broad.mit.edu	36	7	141266063	141266063	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_001001656	exon1	c.C919T	p.R307C	.	.	.
DAGLB	221955	broad.mit.edu	36	7	6442601	6442601	+	Silent	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_139179	exon3	c.C336T	p.A112A	.	.	.
GNAI1	2770	broad.mit.edu	36	7	79678320	79678320	+	Silent	SNP	C	T	T	rs71555062	unknown	TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_002069	exon6	c.C690T	p.Y230Y	.	.	.
ZKSCAN1	7586	broad.mit.edu	36	7	99468947	99468947	+	Missense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_003439	exon6	c.G883A	p.G295R	.	.	.
SULF2	55959	broad.mit.edu	36	20	45723944	45723944	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_198596	exon18	c.G2474A	p.R825Q	.	.	.
DYNC1H1	1778	broad.mit.edu	36	14	101531161	101531161	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_001376	exon14	c.C3419T	p.T1140M	.	.	.
KLC1	3831	broad.mit.edu	36	14	103206365	103206365	+	Nonsense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_001130107	exon7	c.C979T	p.R327X	.	.	.
KCNH5	27133	broad.mit.edu	36	14	62542844	62542844	+	Missense_Mutation	SNP	C	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_172376	exon3	c.G123T	p.K41N	.	.	.
SIN3B	23309	broad.mit.edu	36	19	16834225	16834225	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_015260	exon9	c.C1121T	p.A374V	.	.	.
KIAA1683	80726	broad.mit.edu	36	19	18238810	18238811	+	Missense_Mutation	DNP	GC	AT	AT	novel		TCGA-AG-3878-01	TCGA-AG-3878-01							Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_025249	exon3	c.539_540AT	.	.	.	.
CYP2F1	1572	broad.mit.edu	36	19	46325723	46325723	+	Missense_Mutation	SNP	T	G	G	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	T	T	T	T	T	T	Unknown	Wildtype	None	Phase_I	Unspecified	454			Illumina	NM_000774	exon10	c.T1372G	p.S458A	.	.	.
HRC	3270	broad.mit.edu	36	19	54349884	54349884	+	Missense_Mutation	SNP	G	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_002152	exon1	c.C423A	p.D141E	.	.	.
MYH14	79784	broad.mit.edu	36	19	55456605	55456605	+	Missense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_001077186	exon20	c.G2387A	p.R796Q	.	.	.
ABRA	137735	broad.mit.edu	36	8	107851344	107851344	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_139166	exon1	c.G251A	p.R84H	.	.	.
CSMD1	64478	broad.mit.edu	36	8	2810761	2810761	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_033225	exon59	c.G9224A	p.R3075H	.	.	.
CRISPLD1	83690	broad.mit.edu	36	8	76091443	76091443	+	Silent	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_031461	exon7	c.G816A	p.R272R	.	.	.
NIPAL2	79815	broad.mit.edu	36	8	99286553	99286553	+	Missense_Mutation	SNP	C	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_024759	exon7	c.G753T	p.M251I	.	.	.
C1orf43	25912	broad.mit.edu	36	1	152451451	152451451	+	Missense_Mutation	SNP	A	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	A	A					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_015449	exon5	c.T433A	p.Y145N	.	.	.
HMCN1	83872	broad.mit.edu	36	1	184358776	184358776	+	Missense_Mutation	SNP	T	G	G	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	T	T					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_031935	exon81	c.T12300G	p.C4100W	.	.	.
UBR4	23352	broad.mit.edu	36	1	19372037	19372037	+	Silent	SNP	A	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	A	A					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_020765	exon25	c.T3429A	p.A1143A	.	.	.
USP48	84196	broad.mit.edu	36	1	21894167	21894167	+	Silent	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_032236	exon23	c.G2862A	p.T954T	.	.	.
OR14C36	127066	broad.mit.edu	36	1	246579120	246579120	+	Nonsense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_001001918	exon1	c.C421T	p.Q141X	.	.	.
ARID1A	8289	broad.mit.edu	36	1	26960467	26960467	+	Nonsense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_006015	exon6	c.C2167T	p.Q723X	.	.	.
TRNAU1AP	54952	broad.mit.edu	36	1	28759827	28759827	+	Missense_Mutation	SNP	C	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_017846	exon3	c.C221A	p.T74K	.	.	.
PABPC4	8761	broad.mit.edu	36	1	39807104	39807104	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_001135653	exon6	c.G833A	p.R278Q	.	.	.
NTM	50863	broad.mit.edu	36	11	131682903	131682903	+	De_novo_Start_OutOfFrame	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_001144058	exon4	c.C637T	p.R213W	.	.	.
MS4A14	84689	broad.mit.edu	36	11	59939988	59939988	+	Missense_Mutation	SNP	C	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_032597	exon5	c.C971A	p.A324D	.	.	.
TMEM216	51259	broad.mit.edu	36	11	60918012	60918012	+	Missense_Mutation	SNP	C	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_016499	exon3	c.C34A	p.R12S	.	.	.
UTRN	7402	broad.mit.edu	36	6	144822168	144822168	+	Missense_Mutation	SNP	C	G	G	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_007124	exon20	c.C2692G	p.Q898E	.	.	.
PGBD1	84547	broad.mit.edu	36	6	28377487	28377487	+	Missense_Mutation	SNP	T	G	G	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	T	T					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_001184743	exon7	c.T1877G	p.F626C	.	.	.
PTK7	5754	broad.mit.edu	36	6	43219336	43219336	+	Missense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_152880	exon13	c.G2131A	p.G711S	.	.	.
HSPA13	6782	broad.mit.edu	36	21	14672523	14672523	+	Nonsense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_006948	exon3	c.C448T	p.R150X	.	.	.
TIAM1	7074	broad.mit.edu	36	21	31424430	31424430	+	Silent	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_003253	exon26	c.G4017A	p.A1339A	TIAM1,large_intestine,rectum,Substitution - Missense,-1	.	.
HLCS	3141	broad.mit.edu	36	21	37191163	37191163	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_000411	exon7	c.G1318A	p.V440M	.	.	.
PHKG2	5261	broad.mit.edu	36	16	30670085	30670085	+	Missense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_001172432	exon3	c.G253A	p.A85T	.	.	.
ZFHX3	463	broad.mit.edu	36	16	71388761	71388761	+	Missense_Mutation	SNP	G	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_006885	exon9	c.C5321A	p.P1774H	.	.	.
KIAA1609	57707	broad.mit.edu	36	16	83086807	83086807	+	Missense_Mutation	SNP	C	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_020947	exon3	c.G367T	p.A123S	.	.	.
MOCOS	55034	broad.mit.edu	36	18	32034273	32034273	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_017947	exon4	c.C929T	p.S310L	.	.	.
LMAN1	3998	broad.mit.edu	36	18	55164151	55164151	+	Missense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_005570	exon8	c.C935T	p.P312L	.	.	.
POLI	11201	broad.mit.edu	36	18	50049956	50049958	+	In_Frame_Del	DEL	CGA	-	-	novel		TCGA-AG-3878-01	TCGA-AG-3878-01							Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_007195	exon1	c.42_44del	p.14_15del	.	.	.
MYLK	4638	broad.mit.edu	36	3	124848777	124848777	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_053025	exon27	c.G4603A	p.V1535I	.	.	.
FGD5	152273	broad.mit.edu	36	3	14838043	14838043	+	Missense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G	G	G	G	G	Unknown	Wildtype	None	Phase_I	Unspecified	454			Illumina	NM_152536	exon1	c.G2461A	p.V821M	.	.	.
CP	1356	broad.mit.edu	36	3	150376779	150376779	+	Silent	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_000096	exon18	c.C3129T	p.T1043T	.	.	.
PIK3CA	5290	broad.mit.edu	36	3	180418786	180418786	+	Missense_Mutation	SNP	A	G	G	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	A	A					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_006218	exon10	c.A1634G	p.E545G	PIK3CA,urinary_tract,bladder,Substitution - Missense,+1	.	.
TTC21A	199223	broad.mit.edu	36	3	39137540	39137540	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_001105513	exon8	c.C826T	p.R276C	.	.	.
VPRBP	9730	broad.mit.edu	36	3	51425503	51425503	+	Missense_Mutation	SNP	T	C	C	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_001171904	exon20	c.A3932G	p.Y1311C	.	.	.
LRP6	4040	broad.mit.edu	36	12	12288683	12288683	+	Nonsense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_002336	exon2	c.C229T	p.R77X	.	.	.
KRAS	3845	broad.mit.edu	36	12	25289551	25289551	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_004985	exon2	c.G35A	p.G12D	KRAS,haematopoietic_and_lymphoid_tissue,NS,Substitution - Missense,0	.	.
SRSF2IP	9169	broad.mit.edu	36	12	44602211	44602211	+	Missense_Mutation	SNP	T	C	C	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	T	T					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_004719	exon15	c.A4279G	p.T1427A	.	.	.
KRT85	3891	broad.mit.edu	36	12	51040929	51040929	+	Missense_Mutation	SNP	C	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_002283	exon9	c.G1499T	p.S500I	.	.	.
KRT84	3890	broad.mit.edu	36	12	51061443	51061443	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_033045	exon5	c.G1046A	p.R349Q	.	.	.
KRT74	121391	broad.mit.edu	36	12	51253687	51253687	+	Missense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_175053	exon1	c.C142T	p.R48W	.	.	.
SRGAP1	57522	broad.mit.edu	36	12	62669992	62669992	+	Nonsense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_020762	exon3	c.G299A	p.W100X	.	.	.
C15orf2	23742	broad.mit.edu	36	15	22472629	22472629	+	Silent	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_018958	exon1	c.C522T	p.D174D	.	.	.
DMXL2	23312	broad.mit.edu	36	15	49626856	49626856	+	Nonsense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_015263	exon7	c.G609A	p.W203X	.	.	.
ANPEP	290	broad.mit.edu	36	15	88145719	88145719	+	Missense_Mutation	SNP	G	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_001150	exon11	c.C1693A	p.H565N	.	.	.
ADH1A	124	broad.mit.edu	36	4	100427745	100427745	+	Missense_Mutation	SNP	T	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	T	T					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_000667	exon2	c.A119T	p.K40M	.	.	.
TET2	54790	broad.mit.edu	36	4	106376939	106376939	+	Silent	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_017628	exon3	c.C2391T	p.F797F	.	.	.
SEC24B	10427	broad.mit.edu	36	4	110604238	110604238	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_006323	exon2	c.C866T	p.P289L	.	.	.
AP1AR	55435	broad.mit.edu	36	4	113406361	113406361	+	Missense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_018569	exon8	c.G463A	p.E155K	.	.	.
FAT4	79633	broad.mit.edu	36	4	126630964	126630964	+	Missense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_024582	exon17	c.G13537A	p.A4513T	.	.	.
LYAR	55646	broad.mit.edu	36	4	4336263	4336263	+	Silent	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_001145725	exon3	c.C108T	p.C36C	.	.	.
CEP135	9662	broad.mit.edu	36	4	56525212	56525212	+	Nonsense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_025009	exon7	c.C715T	p.R239X	.	.	.
ENAM	10117	broad.mit.edu	36	4	71727125	71727125	+	Missense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_031889	exon9	c.G1118A	p.R373H	.	.	.
PJA1	64219	broad.mit.edu	36	X	68298973	68298973	+	Missense_Mutation	SNP	A	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	A	A	A	A	A	A	Unknown	Wildtype	None	Phase_I	Unspecified	454			Illumina	NM_001032396	exon2	c.T669A	p.D223E	.	.	.
BCOR	54880	broad.mit.edu	36	X	39817153	39817154	+	Frame_Shift_Del	DEL	AC	-	-	novel		TCGA-AG-3878-01	TCGA-AG-3878-01			AC	-	AC	AC	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_001123383	exon4	c.2389_2390del	p.797_797del	.	.	.
GAD1	2571	broad.mit.edu	36	2	171394353	171394353	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_000817	exon4	c.C268T	p.R90C	.	.	.
HIBCH	26275	broad.mit.edu	36	2	190785947	190785947	+	Missense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_014362	exon12	c.C991T	p.R331W	.	.	.
RBM44	375316	broad.mit.edu	36	2	238391423	238391423	+	Silent	SNP	T	C	C	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	T	T					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_001080504	exon3	c.T1125C	p.C375C	.	.	.
FARP2	9855	broad.mit.edu	36	2	242056376	242056376	+	Missense_Mutation	SNP	C	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	C	C	C	Unknown	Wildtype	None	Phase_I	Unspecified	454			Illumina	NM_014808	exon18	c.C2042A	p.P681H	.	.	.
ZNF638	27332	broad.mit.edu	36	2	71515393	71515393	+	Missense_Mutation	SNP	A	G	G	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_014497	exon28	c.A5885G	p.K1962R	.	.	.
DBC1	1620	broad.mit.edu	36	9	121010964	121010964	+	Silent	SNP	G	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_014618	exon7	c.C999A	p.G333G	.	.	.
STRBP	55342	broad.mit.edu	36	9	124949009	124949009	+	Silent	SNP	T	G	G	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	T	T					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_001171137	exon13	c.A1242C	p.T414T	.	.	.
MAMDC2	256691	broad.mit.edu	36	9	71849348	71849348	+	Silent	SNP	G	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_153267	exon2	c.G63T	p.L21L	.	.	.
FAM75D1	389763	broad.mit.edu	36	9	83795967	83795967	+	Missense_Mutation	SNP	G	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_001001670	exon4	c.G762T	p.E254D	.	.	.
FLT1	2321	broad.mit.edu	36	13	27939214	27939214	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_002019	exon3	c.G214A	p.E72K	.	.	.
NBEA	26960	broad.mit.edu	36	13	34904464	34904464	+	Nonsense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_015678	exon39	c.C6238T	p.R2080X	.	.	.
TLX1	3195	broad.mit.edu	36	10	102883965	102883965	+	Silent	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_001195517	exon2	c.G612A	p.P204P	.	.	.
NRG3	10718	broad.mit.edu	36	10	84728813	84728813	+	Missense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_001165973	exon9	c.G877A	p.E293K	.	.	.
APC	324	broad.mit.edu	36	5	112198590	112198590	+	Nonsense_Mutation	SNP	C	G	G	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_001127511	exon13	c.C1733G	p.S578X	APC,large_intestine,NS,Substitution - Nonsense,0	.	.
APC	324	broad.mit.edu	36	5	112203172	112203172	+	Nonsense_Mutation	SNP	C	T	T	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	C	C	C	Unknown	Wildtype	None	Phase_I	Unspecified	454			Illumina	NM_001127511	exon14	c.C3928T	p.Q1310X	APC,large_intestine,colon,Substitution - Nonsense,0	.	.
DMXL1	1657	broad.mit.edu	36	5	118496801	118496801	+	Missense_Mutation	SNP	A	C	C	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_005509	exon11	c.A1391C	p.N464T	.	.	.
KIAA0141	9812	broad.mit.edu	36	5	141298362	141298362	+	Missense_Mutation	SNP	C	T	T	rs10056676	by-cluster,by-frequency,by-hapmap	TCGA-AG-3878-01	TCGA-AG-3878-01	C	C					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_001142603	exon12	c.C1402T	p.R468C	.	.	.
GABRB2	2561	broad.mit.edu	36	5	160690468	160690468	+	Missense_Mutation	SNP	C	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Unspecified	454			Illumina	NM_000813	exon9	c.G1077T	p.K359N	.	.	.
RIOK2	55781	broad.mit.edu	36	5	96524673	96524673	+	Nonsense_Mutation	SNP	G	A	A	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	G	G					Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	NM_018343	exon10	c.C1507T	p.Q503X	.	.	.
ADAM6	8755	broad.mit.edu	36	14	105425520	105425526	+	Splice_Site	DEL	ACAGGAG	-	-	novel		TCGA-AG-3878-01	TCGA-AG-3878-01							Unknown	Unknown	Somatic	Phase_I	Unspecified				Illumina	.	.	.	.	.	.	.
CRYBG3	131544	broad.mit.edu	36	3	99094417	99094417	+	Missense_Mutation	SNP	C	G	G	novel		TCGA-AG-3878-01	TCGA-AG-3878-01	C	C	C	C	C	C	Unknown	Wildtype	None	Phase_I	Unspecified	454			Illumina	.	.	.	.	.	.	.