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
GAD2	2572	broad.mit.edu	36	10	26558601	26558601	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001134366	exon7	c.C729T	p.G243G	.	.	.
KIF5B	3799	broad.mit.edu	36	10	32384790	32384790	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004521	exon1	c.G118A	p.V40M	.	.	.
USP2	9099	broad.mit.edu	36	11	118735497	118735498	+	Missense_Mutation	DNP	GT	TG	TG	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	GT	GT					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_171997	exon3	c.281_282CA	.	.	.	.
PTPN5	84867	broad.mit.edu	36	11	18718816	18718816	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032781	exon8	c.C825T	p.R275R	.	.	.
FBXO3	26273	broad.mit.edu	36	11	33734062	33734062	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_033406	exon5	c.G509A	p.R170H	.	.	.
OR8I2	120586	broad.mit.edu	36	11	55618153	55618153	+	Nonsense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001003750	exon1	c.C794A	p.S265X	.	.	.
TNKS1BP1	85456	broad.mit.edu	36	11	56826262	56826262	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_033396	exon8	c.C4696T	p.L1566F	.	.	.
CCKBR	887	broad.mit.edu	36	11	6248504	6248504	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_176875	exon4	c.G706A	p.V236M	.	.	.
CCDC87	55231	broad.mit.edu	36	11	66115959	66115959	+	Silent	SNP	C	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018219	exon1	c.G1104T	p.G368G	.	.	.
MLL2	8085	broad.mit.edu	36	12	47718140	47718141	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003482	exon34	c.9266_9267insG	p.V3089fs	.	.	.
C12orf51	283450	broad.mit.edu	36	12	111122930	111122930	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001109662	exon54	c.G7946A	p.R2649Q	.	.	.
CDKN1B	1027	broad.mit.edu	36	12	12762262	12762262	+	Nonsense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004064	exon1	c.C222G	p.Y74X	.	.	.
KRAS	3845	broad.mit.edu	36	12	25289522	25289522	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004985	exon2	c.C64A	p.Q22K	 KRAS,haematopoietic_and_lymphoid_tissue,head_neck,Substitution - coding silent,+2 	.	.
OR6C3	254786	broad.mit.edu	36	12	54012256	54012256	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_054104	exon1	c.A505G	p.N169D	.	.	.
TMCC3	57458	broad.mit.edu	36	12	93499669	93499669	+	Silent	SNP	G	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020698	exon2	c.C855A	p.G285G	.	.	.
AHNAK2	113146	broad.mit.edu	36	14	104483743	104483744	+	Missense_Mutation	DNP	GG	AT	AT	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	GG	GG					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_138420	exon7	c.9089_9090AT	.	.	.	.
TGM1	7051	broad.mit.edu	36	14	23794090	23794090	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000359	exon12	c.A1855G	p.T619A	.	.	.
C15orf2	23742	broad.mit.edu	36	15	22472845	22472845	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018958	exon1	c.C738T	p.A246A	.	.	.
TMOD3	29766	broad.mit.edu	36	15	49948765	49948765	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014547	exon3	c.G186A	p.G62G	.	.	.
PRM2	5620	broad.mit.edu	36	16	11277649	11277649	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002762	exon1	c.G80A	p.G27E	.	.	.
CHD9	80205	broad.mit.edu	36	16	51829821	51829821	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_025134	exon12	c.A2699G	p.Y900C	.	.	.
CLEC18C	283971	broad.mit.edu	36	16	68777345	68777345	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_173619	exon11	c.G1268A	p.R423H	.	.	.
SOX9	6662	broad.mit.edu	36	17	67631402	67631403	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	-	-	-	C	-	-	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000346	exon3	c.809_810insC	p.F270fs	.	.	.
FZD2	2535	broad.mit.edu	36	17	39991926	39991926	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001466	exon1	c.C1344T	p.D448D	.	.	.
NGFR	4804	broad.mit.edu	36	17	44942819	44942819	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002507	exon4	c.G615A	p.S205S	.	.	.
SOX9	6662	broad.mit.edu	36	17	67631698	67631698	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000346	exon3	c.C1105T	p.Q369X	.	.	.
EFNB3	1949	broad.mit.edu	36	17	7552149	7552149	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001406	exon2	c.C271T	p.R91C	.	.	.
SLC14A1	6563	broad.mit.edu	36	18	41570496	41570496	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015865	exon6	c.C548T	p.A183V	.	.	.
DSEL	92126	broad.mit.edu	36	18	63332477	63332477	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_032160	exon2	c.T379G	p.W127G	.	.	.
CYP2A13	1553	broad.mit.edu	36	19	46289632	46289632	+	Silent	SNP	C	G	G	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000766	exon5	c.C810G	p.S270S	.	.	.
PAFAH1B3	5050	broad.mit.edu	36	19	47493347	47493347	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002573	exon5	c.C419T	p.P140L	.	.	.
PLEKHA4	57664	broad.mit.edu	36	19	54040499	54040499	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020904	exon16	c.G1683C	p.R561S	.	.	.
CACNG6	59285	broad.mit.edu	36	19	59207141	59207141	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_145815	exon3	c.C531T	p.C177C	.	.	.
ZNF561	93134	broad.mit.edu	36	19	9585724	9585724	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_152289	exon5	c.G297T	p.K99N	.	.	.
RYR2	6262	broad.mit.edu	36	1	235840848	235840848	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001035	exon36	c.G4847T	p.G1616V	.	.	.
ZNF593	51042	broad.mit.edu	36	1	26369736	26369736	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015871	exon3	c.G347A	p.R116Q	.	.	.
ARID1A	8289	broad.mit.edu	36	1	26978140	26978140	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006015	exon20	c.C5164T	p.R1722X	.	.	.
CSMD2	114784	broad.mit.edu	36	1	33772073	33772073	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_052896	exon62	c.C9469T	p.R3157C	.	.	.
KDM4A	9682	broad.mit.edu	36	1	43898569	43898569	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014663	exon4	c.C328T	p.R110C	.	.	.
NSUN4	387338	broad.mit.edu	36	1	46583101	46583101	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_199044	exon2	c.G135C	p.L45F	.	.	.
PRKAA2	5563	broad.mit.edu	36	1	56934356	56934356	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006252	exon6	c.G724A	p.A242T	.	.	.
DPYD	1806	broad.mit.edu	36	1	97812014	97812014	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000110	exon11	c.G1229A	p.R410Q	.	.	.
CSTF1	1477	broad.mit.edu	36	20	54404090	54404090	+	De_novo_Start_OutOfFrame	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001033521	exon2	c.C75T	p.D25D	.	.	.
TIAM1	7074	broad.mit.edu	36	21	31446945	31446945	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003253	exon20	c.C3246T	p.D1082D	.	.	.
HLCS	3141	broad.mit.edu	36	21	37231357	37231357	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000411	exon5	c.T258C	p.A86A	.	.	.
PI4KA	5297	broad.mit.edu	36	22	19445649	19445649	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_058004	exon23	c.C2560T	p.R854C	.	.	.
MYO18B	84700	broad.mit.edu	36	22	24673729	24673729	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_032608	exon36	c.C5683T	p.R1895C	.	.	.
RNF215	200312	broad.mit.edu	36	22	29106099	29106099	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001017981	exon7	c.G960A	p.P320P	.	.	.
L3MBTL2	83746	broad.mit.edu	36	22	39955502	39955502	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_031488	exon16	c.C1901T	p.P634L	.	.	.
BUB1	699	broad.mit.edu	36	2	111148266	111148266	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004336	exon3	c.A93G	p.I31M	.	.	.
PXDN	7837	broad.mit.edu	36	2	1646466	1646466	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_012293	exon12	c.C1485T	p.H495H	.	.	.
TTN	7273	broad.mit.edu	36	2	179267585	179267585	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_133378	exon114	c.T27680A	p.V9227D	.	.	.
SESTD1	91404	broad.mit.edu	36	2	179690542	179690542	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_178123	exon14	c.A1486C	p.M496L	.	.	.
SLC4A3	6508	broad.mit.edu	36	2	220210669	220210669	+	Silent	SNP	G	A	A	rs61753431	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005070	exon17	c.G2658A	p.P886P	.	.	.
BRE	9577	broad.mit.edu	36	2	28101616	28101616	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_199193	exon6	c.C320T	p.P107L	.	.	.
NRXN1	9378	broad.mit.edu	36	2	50552965	50552965	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001135659	exon17	c.C3339T	p.N1113N	.	.	.
GPR75	10936	broad.mit.edu	36	2	53934079	53934079	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006794	exon2	c.A1319C	p.K440T	.	.	.
RSAD2	91543	broad.mit.edu	36	2	6947892	6947892	+	Silent	SNP	T	C	C	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_080657	exon4	c.T873C	p.P291P	.	.	.
TTN	7273	broad.mit.edu	36	2	179107793	179107794	+	Frame_Shift_Del	DEL	CT	-	-	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	CT	CT	CT	-	CT	CT	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003319	exon186	c.74598_74599del	p.24866_24867del	.	.	.
PLCXD2	257068	broad.mit.edu	36	3	113047369	113047369	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_153268	exon4	c.T878A	p.I293N	.	.	.
SEMA5B	54437	broad.mit.edu	36	3	124114443	124114443	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001031702	exon18	c.G2662A	p.G888R	.	.	.
VEPH1	79674	broad.mit.edu	36	3	158564863	158564863	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001167911	exon8	c.C1260A	p.S420R	.	.	.
OR5K2	402135	broad.mit.edu	36	3	99699578	99699578	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001004737	exon1	c.C364T	p.R122C	.	.	.
ENPEP	2028	broad.mit.edu	36	4	111631748	111631748	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001977	exon3	c.A897G	p.R299R	.	.	.
ANK2	287	broad.mit.edu	36	4	114482368	114482368	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020977	exon33	c.C3969T	p.C1323C	.	.	.
PHF17	79960	broad.mit.edu	36	4	130012294	130012294	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_199320	exon11	c.G1956A	p.V652V	.	.	.
HTT	3064	broad.mit.edu	36	4	3201438	3201438	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002111	exon60	c.C8136T	p.T2712T	.	.	.
LRRTM2	26045	broad.mit.edu	36	5	138237160	138237160	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015564	exon2	c.A989T	p.Q330L	.	.	.
PCDHA6	56142	broad.mit.edu	36	5	140189743	140189743	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018909	exon1	c.C1883T	p.T628M	.	.	.
PCDHB3	56132	broad.mit.edu	36	5	140462290	140462290	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018937	exon1	c.C1873T	p.R625C	.	.	.
PCDHB12	56124	broad.mit.edu	36	5	140569057	140569057	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018932	exon1	c.G394A	p.V132I	.	.	.
LMAN2	10960	broad.mit.edu	36	5	176698170	176698170	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006816	exon3	c.G358A	p.V120I	.	.	.
RANBP3L	202151	broad.mit.edu	36	5	36305297	36305297	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_145000	exon4	c.C220T	p.R74W	.	.	.
C5orf42	65250	broad.mit.edu	36	5	37202919	37202919	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_023073	exon35	c.G7387T	p.D2463Y	.	.	.
PIK3R1	5295	broad.mit.edu	36	5	67626202	67626202	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_181523	exon11	c.G1508A	p.R503Q	.	.	.
APC	324	broad.mit.edu	36	5	112203323	112203323	+	Frame_Shift_Del	DEL	A	-	-	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001127511	exon14	c.4079delA	p.Q1360fs	 APC,large_intestine,NS,Substitution - Nonsense,+1 	.	.
GRM1	2911	broad.mit.edu	36	6	146762452	146762452	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001114329	exon8	c.G2584A	p.D862N	.	.	.
SYNE1	23345	broad.mit.edu	36	6	152873094	152873094	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_033071	exon8	c.C529T	p.R177W	.	.	.
THBS2	7058	broad.mit.edu	36	6	169364383	169364383	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003247	exon20	c.G3107A	p.R1036H	.	.	.
SCGN	10590	broad.mit.edu	36	6	25809449	25809449	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006998	exon11	c.C738T	p.R246R	.	.	.
ANKS1A	23294	broad.mit.edu	36	6	35156855	35156856	+	Missense_Mutation	DNP	GC	CT	CT	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	GC	GC					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015245	exon17	c.2651_2652CT	.	.	.	.
BRPF3	27154	broad.mit.edu	36	6	36276839	36276839	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015695	exon2	c.G762T	p.W254C	.	.	.
PEX6	5190	broad.mit.edu	36	6	43041471	43041471	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000287	exon13	c.T2397C	p.I799I	.	.	.
FILIP1	27145	broad.mit.edu	36	6	76080422	76080422	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015687	exon5	c.C1846T	p.R616X	.	.	.
ST7	7982	broad.mit.edu	36	7	116598177	116598177	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018412	exon9	c.G920A	p.S307N	.	.	.
NCAPG2	54892	broad.mit.edu	36	7	158175386	158175386	+	De_novo_Start_OutOfFrame	SNP	A	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_017760	exon6	c.T558A	p.L186L	.	.	.
MIOS	54468	broad.mit.edu	36	7	7579807	7579807	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_019005	exon4	c.G1176A	p.T392T	.	.	.
DNAJC2	27000	broad.mit.edu	36	7	102769570	102769571	+	Frame_Shift_Del	DEL	TC	-	-	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	TC	TC					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001129887	exon2	c.131_132del	p.44_44del	.	.	.
PTDSS1	9791	broad.mit.edu	36	8	97381123	97381123	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014754	exon6	c.A626G	p.N209S	.	.	.
PAPPA	5069	broad.mit.edu	36	9	117989301	117989301	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002581	exon2	c.G463A	p.V155M	.	.	.
PAPPA	5069	broad.mit.edu	36	9	117990143	117990143	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002581	exon2	c.C1305T	p.H435H	.	.	.
CACNA1B	774	broad.mit.edu	36	9	140129944	140129944	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000718	exon41	c.C5769T	p.G1923G	.	.	.
CTSL2	1515	broad.mit.edu	36	9	98839678	98839678	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001333	exon3	c.T167G	p.M56R	.	.	.
NXF5	55998	broad.mit.edu	36	X	100983393	100983393	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_032946	exon5	c.G149A	p.R50Q	.	.	.
ARHGAP36	158763	broad.mit.edu	36	X	130048017	130048017	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_144967	exon10	c.C1315T	p.R439C	.	.	.
RPS4X	6191	broad.mit.edu	36	X	71409878	71409878	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AG-A025-01A-01W-A00E-09	TCGA-AG-A025-10A-01W-A00E-09	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001007	exon6	c.G619A	p.V207M	.	.	.