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
PPRC1	23082	broad.mit.edu	36	10	103889625	103889625	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015062	exon5	c.G1370A	p.R457Q	.	.	.
PDCD11	22984	broad.mit.edu	36	10	105171156	105171156	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014976	exon17	c.C2339T	p.A780V	.	.	.
PITRM1	10531	broad.mit.edu	36	10	3197621	3197621	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014889	exon5	c.C517T	p.R173C	.	.	.
ZNF518A	9849	broad.mit.edu	36	10	97909828	97909828	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014803	exon6	c.A3759C	p.K1253N	.	.	.
SORL1	6653	broad.mit.edu	36	11	120865969	120865969	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003105	exon5	c.A698T	p.K233M	.	.	.
KCNJ1	3758	broad.mit.edu	36	11	128214852	128214852	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_153765	exon3	c.C497T	p.P166L	.	.	.
PRG2	5553	broad.mit.edu	36	11	56941861	56941861	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_199329	exon8	c.C607T	p.R203C	.	.	.
PPFIA2	8499	broad.mit.edu	36	12	80259056	80259057	+	In_Frame_Ins	INS	-	GGG	GGG	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	-	-	-	GGG	-	-	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003625	exon20	c.2325_2326insCCC	p.P775delinsPP	.	.	.
NAA25	80018	broad.mit.edu	36	12	110969933	110969933	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_024953	exon17	c.C1925T	p.P642L	.	.	.
ATP6V0A2	23545	broad.mit.edu	36	12	122804964	122804964	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_012463	exon18	c.C2220T	p.I740I	.	.	.
KRAS	3845	broad.mit.edu	36	12	25289552	25289552	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004985	exon2	c.G34T	p.G12C	 KRAS,haematopoietic_and_lymphoid_tissue,NS,Substitution - Missense,+1 	.	.
FGF6	2251	broad.mit.edu	36	12	4424812	4424812	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020996	exon1	c.C186T	p.R62R	.	.	.
KRT6A	3853	broad.mit.edu	36	12	51173194	51173194	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005554	exon1	c.C46T	p.R16W	.	.	.
RASSF9	9182	broad.mit.edu	36	12	84723105	84723105	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005447	exon2	c.C814T	p.R272X	.	.	.
C14orf43	91748	broad.mit.edu	36	14	73266327	73266327	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001043318	exon4	c.C1864G	p.P622A	.	.	.
DUOX1	53905	broad.mit.edu	36	15	43241798	43241798	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_017434	exon32	c.C4179T	p.T1393T	.	.	.
UNC13C	440279	broad.mit.edu	36	15	52092846	52092846	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001080534	exon1	c.C454T	p.R152C	.	.	.
SMAD3	4088	broad.mit.edu	36	15	65260684	65260684	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001145103	exon6	c.A578G	p.Y193C	.	.	.
TMC3	342125	broad.mit.edu	36	15	79412317	79412317	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001080532	exon22	c.G2801A	p.R934H	.	.	.
MYLK3	91807	broad.mit.edu	36	16	45329232	45329232	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_182493	exon3	c.T893C	p.L298S	.	.	.
HYDIN	54768	broad.mit.edu	36	16	69429237	69429237	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_032821	exon77	c.G13096A	p.V4366M	.	.	.
TTYH2	94015	broad.mit.edu	36	17	69761520	69761520	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032646	exon13	c.C1477T	p.R493C	.	.	.
TP53	7157	broad.mit.edu	36	17	7519179	7519179	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001126114	exon5	c.C476T	p.A159V	 TP53,large_intestine,colon,Substitution - Missense,0 	.	.
MAN2B1	4125	broad.mit.edu	36	19	12620995	12620995	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000528	exon20	c.C2391T	p.R797R	.	.	.
OR10H2	26538	broad.mit.edu	36	19	15700268	15700268	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_013939	exon1	c.C415T	p.R139W	.	.	.
PLIN4	729359	broad.mit.edu	36	19	4464405	4464405	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001080400	exon3	c.C525T	p.A175A	.	.	.
ZNF230	7773	broad.mit.edu	36	19	49206822	49206822	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006300	exon5	c.A791G	p.D264G	.	.	.
TRPM4	54795	broad.mit.edu	36	19	54376510	54376510	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_017636	exon10	c.C1243T	p.R415W	.	.	.
KLK10	5655	broad.mit.edu	36	19	56211086	56211086	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002776	exon4	c.C408T	p.H136H	.	.	.
C19orf75	284369	broad.mit.edu	36	19	56462460	56462460	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_173635	exon5	c.G432T	p.K144N	.	.	.
C19orf21	126353	broad.mit.edu	36	19	710987	710987	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_173481	exon3	c.T1859C	p.V620A	.	.	.
ACTL9	284382	broad.mit.edu	36	19	8669159	8669159	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_178525	exon1	c.C893T	p.P298L	.	.	.
MUC16	94025	broad.mit.edu	36	19	8880615	8880615	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_024690	exon22	c.G37531A	p.V12511M	.	.	.
NPPB	4879	broad.mit.edu	36	1	11840974	11840974	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002521	exon2	c.G272A	p.R91H	.	.	.
POGZ	23126	broad.mit.edu	36	1	149651475	149651475	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_145796	exon9	c.G1415A	p.W472X	.	.	.
FLG	2312	broad.mit.edu	36	1	150546375	150546375	+	Silent	SNP	A	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002016	exon3	c.T7611A	p.A2537A	.	.	.
ARHGEF10L	55160	broad.mit.edu	36	1	17826485	17826485	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018125	exon15	c.C1484T	p.T495M	.	.	.
CACNA1S	779	broad.mit.edu	36	1	199296566	199296566	+	Missense_Mutation	SNP	C	T	T	rs1800559	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000069	exon26	c.G3257A	p.R1086H	.	.	.
SLC30A1	7779	broad.mit.edu	36	1	209815943	209815943	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_021194	exon2	c.T934A	p.W312R	.	.	.
USH2A	7399	broad.mit.edu	36	1	214128711	214128711	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_206933	exon41	c.G7903A	p.D2635N	.	.	.
RYR2	6262	broad.mit.edu	36	1	236014313	236014313	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001035	exon90	c.G12678A	p.P4226P	.	.	.
HMGCL	3155	broad.mit.edu	36	1	24019609	24019609	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001166059	exon2	c.G122A	p.R41Q	.	.	.
GMEB1	10691	broad.mit.edu	36	1	28913274	28913274	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006582	exon10	c.A1124T	p.K375M	.	.	.
RBCK1	10616	broad.mit.edu	36	20	338535	338535	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_031229	exon2	c.G33A	p.M11I	.	.	.
TSHZ2	128553	broad.mit.edu	36	20	51304838	51304838	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_173485	exon2	c.C1434T	p.V478V	.	.	.
KCNQ2	3785	broad.mit.edu	36	20	61541441	61541441	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_172107	exon6	c.C881T	p.A294V	.	.	.
GMEB2	26205	broad.mit.edu	36	20	61699657	61699657	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_012384	exon5	c.T358A	p.Y120N	.	.	.
KRTAP10-9	386676	broad.mit.edu	36	21	44872334	44872334	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_198690	exon1	c.G818A	p.R273H	.	.	.
PI4KA	5297	broad.mit.edu	36	22	19487556	19487556	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_058004	exon13	c.C1340T	p.P447L	.	.	.
MGAT3	4248	broad.mit.edu	36	22	38213574	38213574	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001098270	exon1	c.G276A	p.E92E	.	.	.
RAPGEF4	11069	broad.mit.edu	36	2	173590465	173590465	+	Silent	SNP	C	T	T	rs34965602	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_007023	exon21	c.C1995T	p.R665R	.	.	.
GIGYF2	26058	broad.mit.edu	36	2	233389879	233389879	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001103148	exon19	c.C2245T	p.R749X	.	.	.
TMEM214	54867	broad.mit.edu	36	2	27112926	27112926	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001083590	exon5	c.G653A	p.G218D	.	.	.
RASGRP3	25780	broad.mit.edu	36	2	33636848	33636848	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_170672	exon17	c.G1646A	p.R549Q	.	.	.
VRK2	7444	broad.mit.edu	36	2	58240321	58240321	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001130482	exon13	c.T1447G	p.F483V	.	.	.
MOGS	7841	broad.mit.edu	36	2	74542325	74542325	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001146158	exon5	c.G1781A	p.R594Q	.	.	.
TSGA10	80705	broad.mit.edu	36	2	99003343	99003343	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_025244	exon18	c.T1649C	p.I550T	.	.	.
WDR49	151790	broad.mit.edu	36	3	168776616	168776616	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_178824	exon4	c.T270C	p.D90D	.	.	.
DCLK3	85443	broad.mit.edu	36	3	36754767	36754767	+	Nonsense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_033403	exon2	c.G388T	p.E130X	.	.	.
SCN5A	6331	broad.mit.edu	36	3	38572235	38572235	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001099405	exon25	c.C4404T	p.F1468F	.	.	.
MITF	4286	broad.mit.edu	36	3	70070950	70070950	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_198158	exon3	c.G273C	p.K91N	.	.	.
FAT4	79633	broad.mit.edu	36	4	126591702	126591702	+	Missense_Mutation	SNP	C	G	G	rs61163957	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_024582	exon9	c.C10081G	p.L3361V	.	.	.
CORIN	10699	broad.mit.edu	36	4	47292553	47292553	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006587	exon22	c.C3071T	p.S1024L	.	.	.
SGCB	6443	broad.mit.edu	36	4	52594503	52594503	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000232	exon2	c.G94A	p.V32I	.	.	.
APC	324	broad.mit.edu	36	5	112201816	112201816	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001127511	exon14	c.C2572T	p.R858X	 APC,large_intestine,NS,Substitution - Nonsense,0 	.	.
PCDHA1	56147	broad.mit.edu	36	5	140147581	140147581	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_031410	exon1	c.G1522A	p.V508M	.	.	.
PCDH12	51294	broad.mit.edu	36	5	141305265	141305265	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_016580	exon4	c.G3420A	p.S1140S	.	.	.
POU4F3	5459	broad.mit.edu	36	5	145700056	145700056	+	Silent	SNP	C	G	G	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002700	exon2	c.C873G	p.A291A	.	.	.
RGS7BP	401190	broad.mit.edu	36	5	63907372	63907372	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001029875	exon3	c.G348T	p.E116D	.	.	.
RAD17	5884	broad.mit.edu	36	5	68716408	68716408	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_133341	exon5	c.G279T	p.Q93H	.	.	.
GPR126	57211	broad.mit.edu	36	6	142730582	142730582	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001032394	exon3	c.A287C	p.Y96S	.	.	.
TAGAP	117289	broad.mit.edu	36	6	159376915	159376915	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_054114	exon10	c.G2128A	p.V710M	.	.	.
PDE10A	10846	broad.mit.edu	36	6	165768809	165768809	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006661	exon7	c.G413A	p.R138H	.	.	.
HIST1H1B	3009	broad.mit.edu	36	6	27942996	27942996	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005322	exon1	c.G291A	p.V97V	.	.	.
NOTCH4	4855	broad.mit.edu	36	6	32295406	32295406	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004557	exon8	c.A1451A	p.Q484Q	.	.	.
NFYA	4800	broad.mit.edu	36	6	41167332	41167332	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002505	exon7	c.C635G	p.T212R	.	.	.
TCTE1	202500	broad.mit.edu	36	6	44358232	44358232	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_182539	exon4	c.C889T	p.R297C	.	.	.
BAI3	577	broad.mit.edu	36	6	70127722	70127722	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001704	exon29	c.G3836T	p.R1279I	.	.	.
FILIP1	27145	broad.mit.edu	36	6	76080072	76080072	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015687	exon5	c.C2196T	p.H732H	.	.	.
PUS7	54517	broad.mit.edu	36	7	104922906	104922906	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_019042	exon6	c.G761A	p.R254K	.	.	.
PTPRZ1	5803	broad.mit.edu	36	7	121438436	121438436	+	Silent	SNP	A	C	C	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002851	exon12	c.A2100C	p.S700S	.	.	.
RNF148	378925	broad.mit.edu	36	7	122130006	122130006	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_198085	exon1	c.G35A	p.S12N	.	.	.
LUC7L2	51631	broad.mit.edu	36	7	138752904	138752904	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_016019	exon9	c.G890A	p.R297Q	.	.	.
MACC1	346389	broad.mit.edu	36	7	20165495	20165495	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_182762	exon5	c.C1014T	p.I338I	.	.	.
ZNF117	51351	broad.mit.edu	36	7	64076087	64076087	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015852	exon4	c.A1297G	p.I433V	.	.	.
ZNF804B	219578	broad.mit.edu	36	7	88802600	88802600	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_181646	exon4	c.T2368A	p.S790T	.	.	.
RSPO2	340419	broad.mit.edu	36	8	109039551	109039551	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_178565	exon5	c.C549A	p.D183E	.	.	.
CSMD3	114788	broad.mit.edu	36	8	113638238	113638238	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_198123	exon25	c.C4164T	p.H1388H	.	.	.
RAD21	5885	broad.mit.edu	36	8	117933510	117933510	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006265	exon11	c.C1328T	p.P443L	.	.	.
PTP4A3	11156	broad.mit.edu	36	8	142501575	142501575	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032611	exon1	c.G53T	p.R18L	.	.	.
CYP11B1	1584	broad.mit.edu	36	8	143957556	143957556	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001026213	exon2	c.G289A	p.V97M	.	.	.
PNMA2	10687	broad.mit.edu	36	8	26421430	26421430	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_007257	exon3	c.G759A	p.R253R	.	.	.
ST18	9705	broad.mit.edu	36	8	53234066	53234066	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014682	exon15	c.G1751A	p.R584H	.	.	.
NSMAF	8439	broad.mit.edu	36	8	59681104	59681104	+	Silent	SNP	G	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003580	exon12	c.C804A	p.I268I	.	.	.
ZFHX4	79776	broad.mit.edu	36	8	77928404	77928404	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_024721	exon10	c.C6692T	p.T2231M	.	.	.
KCNS2	3788	broad.mit.edu	36	8	99510330	99510330	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020697	exon2	c.G947A	p.R316H	.	.	.
KIAA1958	158405	broad.mit.edu	36	9	114461933	114461933	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_133465	exon4	c.C1914T	p.Y638Y	.	.	.
BNC2	54796	broad.mit.edu	36	9	16409344	16409344	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_017637	exon7	c.C2943T	p.D981D	.	.	.
RFX3	5991	broad.mit.edu	36	9	3218886	3218886	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_134428	exon17	c.G1972A	p.G658S	.	.	.
SMC5	23137	broad.mit.edu	36	9	72157037	72157037	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015110	exon25	c.G3276A	p.R1092R	.	.	.
COL4A5	1287	broad.mit.edu	36	X	107822671	107822671	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000495	exon48	c.G4548C	p.M1516I	.	.	.
FAM47A	158724	broad.mit.edu	36	X	34059008	34059008	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_203408	exon1	c.A1309G	p.T437A	.	.	.
ITIH5L	347365	broad.mit.edu	36	X	54801800	54801800	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_198510	exon8	c.C1432T	p.R478C	.	.	.
FAM123B	139285	broad.mit.edu	36	X	63328016	63328016	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_152424	exon2	c.C1876T	p.R626X	.	.	.
AR	367	broad.mit.edu	36	X	66859426	66859426	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001011645	exon7	c.T886C	p.F296L	.	.	.
PCDH11X	27328	broad.mit.edu	36	X	91760553	91760553	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-3896-01A-01W-1073-09	TCGA-AG-3896-10A-01W-1073-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032968	exon7	c.G4002A	p.P1334P	.	.	.