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
HPS1	3257	broad.mit.edu	36	10	100167962	100167962	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000195	exon19	c.G1900A	p.D634N	.	.	.
ACSL5	51703	broad.mit.edu	36	10	114154319	114154319	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_016234	exon4	c.A494G	p.K165R	.	.	.
DMBT1	1755	broad.mit.edu	36	10	124348287	124348287	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_007329	exon26	c.A2964G	p.E988E	.	.	.
LRRC27	80313	broad.mit.edu	36	10	134028925	134028925	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001143757	exon10	c.C1297T	p.Q433X	.	.	.
FRMD4A	55691	broad.mit.edu	36	10	13756992	13756992	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018027	exon16	c.G1176A	p.K392K	.	.	.
ITGA8	8516	broad.mit.edu	36	10	15726215	15726215	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003638	exon13	c.G1219A	p.G407R	.	.	.
C10orf128	170371	broad.mit.edu	36	10	50039671	50039671	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001010863	exon5	c.G272A	p.R91Q	.	.	.
PCDH15	65217	broad.mit.edu	36	10	55509131	55509131	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001142767	exon16	c.T1946A	p.L649Q	.	.	.
FBXO18	84893	broad.mit.edu	36	10	6003433	6003433	+	Silent	SNP	C	T	T	rs17146330	byFrequency;byHapMap	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032807	exon16	c.C2370T	p.D790D	.	.	.
LRRC20	55222	broad.mit.edu	36	10	71770460	71770460	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_207119	exon3	c.G87A	p.L29L	.	.	.
SFMBT2	57713	broad.mit.edu	36	10	7254516	7254516	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001029880	exon18	c.G2098A	p.V700M	.	.	.
DYDC2	84332	broad.mit.edu	36	10	82116449	82116449	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032372	exon5	c.C296T	p.T99M	.	.	.
C11orf2	738	broad.mit.edu	36	11	64632261	64632262	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_013265	exon5	c.742_743insC	p.A248fs	.	.	.
OR51B2	79345	broad.mit.edu	36	11	5301880	5301880	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_033180	exon1	c.C224T	p.T75M	.	.	.
MACROD1	28992	broad.mit.edu	36	11	63523395	63523395	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014067	exon8	c.A875G	p.E292G	.	.	.
LRRC32	2615	broad.mit.edu	36	11	76048580	76048580	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001128922	exon3	c.C1705G	p.Q569E	.	.	.
MYO1H	283446	broad.mit.edu	36	12	108323395	108323395	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001101421	exon5	c.G637A	p.E213K	.	.	.
OAS2	4939	broad.mit.edu	36	12	111917609	111917609	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002535	exon3	c.C574T	p.R192C	.	.	.
DNAH10	196385	broad.mit.edu	36	12	122838387	122838387	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_207437	exon10	c.G1322A	p.R441Q	.	.	.
KRAS	3845	broad.mit.edu	36	12	25289551	25289551	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004985	exon2	c.G35A	p.G12D	 KRAS,haematopoietic_and_lymphoid_tissue,NS,Substitution - Missense,0 	.	.
IPO8	10526	broad.mit.edu	36	12	30728536	30728536	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006390	exon3	c.G289T	p.V97L	.	.	.
LRRK2	120892	broad.mit.edu	36	12	39047733	39047733	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_198578	exon51	c.G7483A	p.V2495I	.	.	.
KRT84	3890	broad.mit.edu	36	12	51063845	51063845	+	Missense_Mutation	SNP	C	A	A	rs1613931	byCluster;byFrequency;byHapMap;by1000genomes	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_033045	exon2	c.G551T	p.R184L	.	.	.
FAM71C	196472	broad.mit.edu	36	12	98566520	98566520	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_153364	exon1	c.G437A	p.R146H	.	.	.
SLC10A2	6555	broad.mit.edu	36	13	102508615	102508615	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000452	exon2	c.G496T	p.G166C	.	.	.
WBP4	11193	broad.mit.edu	36	13	40552879	40552879	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_007187	exon9	c.C854T	p.S285L	.	.	.
PCDH9	5101	broad.mit.edu	36	13	66698427	66698427	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020403	exon2	c.C2147T	p.T716I	.	.	.
ACIN1	22985	broad.mit.edu	36	14	22603206	22603206	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001164816	exon5	c.G536A	p.G179D	.	.	.
NUMB	8650	broad.mit.edu	36	14	72820708	72820708	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001005744	exon10	c.C783T	p.I261I	.	.	.
SNW1	22938	broad.mit.edu	36	14	77268589	77268589	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_012245	exon9	c.G883A	p.D295N	.	.	.
ACOT4	122970	broad.mit.edu	36	14	73130267	73130270	+	Frame_Shift_Del	DEL	CTTA	-	-	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	CTTA	CTTA					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_152331	exon2	c.566_569del	p.189_190del	.	.	.
NDN	4692	broad.mit.edu	36	15	21483444	21483444	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002487	exon1	c.G14T	p.S5I	.	.	.
RGMA	56963	broad.mit.edu	36	15	91389427	91389427	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001166283	exon4	c.C1182T	p.G394G	.	.	.
ABCC6	368	broad.mit.edu	36	16	16223028	16223028	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001079528	exon2	c.C198T	p.S66S	.	.	.
PLK1	5347	broad.mit.edu	36	16	23606344	23606344	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005030	exon6	c.C1090T	p.R364X	.	.	.
MYLK3	91807	broad.mit.edu	36	16	45323695	45323695	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_182493	exon4	c.C1388T	p.A463V	.	.	.
RSPRY1	89970	broad.mit.edu	36	16	55812808	55812808	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_133368	exon10	c.G1141A	p.D381N	.	.	.
CDH11	1009	broad.mit.edu	36	16	63579717	63579717	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001797	exon7	c.C843T	p.A281A	.	.	.
GRIN2A	2903	broad.mit.edu	36	16	9851164	9851164	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001134408	exon5	c.C1278T	p.T426T	.	.	.
SOX9	6662	broad.mit.edu	36	17	67631459	67631460	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	-	-	-	C	-	-	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000346	exon3	c.866_867insC	p.F289fs	.	.	.
PRPF8	10594	broad.mit.edu	36	17	1523570	1523570	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006445	exon23	c.G3488A	p.R1163Q	.	.	.
KRTAP1-3	81850	broad.mit.edu	36	17	36444205	36444205	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_030966	exon1	c.C395T	p.T132I	.	.	.
ITGA2B	3674	broad.mit.edu	36	17	39811340	39811340	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000419	exon20	c.C2010T	p.N670N	.	.	.
GEMIN4	50628	broad.mit.edu	36	17	596031	596031	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015721	exon2	c.G2002A	p.D668N	.	.	.
FBXO39	162517	broad.mit.edu	36	17	6631344	6631344	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_153230	exon4	c.C1202T	p.A401V	.	.	.
SDK2	54549	broad.mit.edu	36	17	68922462	68922462	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001144952	exon18	c.G2400A	p.A800A	.	.	.
C17orf101	79701	broad.mit.edu	36	17	77955247	77955247	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_175902	exon7	c.G554A	p.R185Q	.	.	.
OR7A10	390892	broad.mit.edu	36	19	14813390	14813390	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001005190	exon1	c.G300C	p.Q100H	.	.	.
PIP5K1C	23396	broad.mit.edu	36	19	3596992	3596992	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001195733	exon11	c.C1325T	p.T442M	.	.	.
ZBTB32	27033	broad.mit.edu	36	19	40897795	40897795	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014383	exon2	c.G427A	p.G143R	.	.	.
RYR1	6261	broad.mit.edu	36	19	43683124	43683124	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001042723	exon46	c.C7362T	p.R2454R	.	.	.
PRX	57716	broad.mit.edu	36	19	45593280	45593280	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_181882	exon7	c.G2819A	p.G940E	.	.	.
SPTBN4	57731	broad.mit.edu	36	19	45773248	45773248	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020971	exon36	c.C7628T	p.S2543L	.	.	.
EXOSC5	56915	broad.mit.edu	36	19	46595003	46595003	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020158	exon1	c.C71T	p.P24L	.	.	.
GRWD1	83743	broad.mit.edu	36	19	53647985	53647985	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_031485	exon7	c.A1232G	p.H411R	.	.	.
ALDH16A1	126133	broad.mit.edu	36	19	54660955	54660955	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_153329	exon13	c.G1717A	p.A573T	.	.	.
ZNF583	147949	broad.mit.edu	36	19	61626419	61626419	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001159860	exon5	c.C580T	p.R194X	.	.	.
MUC16	94025	broad.mit.edu	36	19	8827766	8827766	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_024690	exon81	c.C43187T	p.S14396L	.	.	.
TNFRSF4	7293	broad.mit.edu	36	1	1137270	1137271	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003327	exon5	c.549_550insC	p.P183fs	.	.	.
BAI2	576	broad.mit.edu	36	1	31981094	31981095	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001703	exon7	c.1184_1185insC	p.Q395fs	.	.	.
MASP2	10747	broad.mit.edu	36	1	11025995	11025995	+	Silent	SNP	G	A	A	rs7536030	byFrequency;byHapMap	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006610	exon5	c.C729T	p.Y243Y	.	.	.
LCE2C	353140	broad.mit.edu	36	1	150915368	150915368	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_178429	exon2	c.C253T	p.R85W	.	.	.
SPRR2F	6705	broad.mit.edu	36	1	151351634	151351634	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001014450	exon2	c.G200T	p.C67F	.	.	.
TNR	7143	broad.mit.edu	36	1	173598488	173598488	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003285	exon14	c.G2788A	p.E930K	.	.	.
RGL1	23179	broad.mit.edu	36	1	182140608	182140608	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015149	exon14	c.A1457G	p.E486G	.	.	.
RUNX3	864	broad.mit.edu	36	1	25163641	25163641	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001031680	exon1	c.G9A	p.S3S	.	.	.
PTPRU	10076	broad.mit.edu	36	1	29522593	29522593	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005704	exon28	c.C3982T	p.R1328W	.	.	.
COL24A1	255631	broad.mit.edu	36	1	85968857	85968857	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_152890	exon60	c.G5105A	p.R1702Q	.	.	.
CCBL2	56267	broad.mit.edu	36	1	89181344	89181344	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001008662	exon12	c.G1132A	p.V378I	.	.	.
C20orf186	149954	broad.mit.edu	36	20	31149162	31149162	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_182519	exon11	c.A1477C	p.K493Q	.	.	.
ACSS2	55902	broad.mit.edu	36	20	32964907	32964907	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018677	exon4	c.C517A	p.L173I	.	.	.
TGM2	7052	broad.mit.edu	36	20	36217726	36217726	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_198951	exon3	c.G370T	p.G124C	.	.	.
DIP2A	23181	broad.mit.edu	36	21	46811907	46811907	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015151	exon38	c.C4660T	p.R1554W	.	.	.
SLC5A1	6523	broad.mit.edu	36	22	30809101	30809101	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000343	exon7	c.G624A	p.T208T	.	.	.
PARVB	29780	broad.mit.edu	36	22	42875099	42875099	+	Silent	SNP	C	T	T	rs16991550	byFrequency;byHapMap	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001003828	exon10	c.C837T	p.F279F	.	.	.
LRP1B	53353	broad.mit.edu	36	2	140799899	140799899	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018557	exon80	c.T12242G	p.F4081C	.	.	.
KCNS3	3790	broad.mit.edu	36	2	17976191	17976191	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002252	exon3	c.G435A	p.S145S	.	.	.
VWC2L	402117	broad.mit.edu	36	2	215148665	215148665	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001080500	exon4	c.C545T	p.T182M	.	.	.
CTDSP1	58190	broad.mit.edu	36	2	218974600	218974600	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_182642	exon2	c.T137G	p.V46G	.	.	.
BOC	91653	broad.mit.edu	36	3	114473967	114473967	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_033254	exon7	c.C688T	p.R230C	.	.	.
SEMA5B	54437	broad.mit.edu	36	3	124112421	124112421	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001031702	exon22	c.G3253A	p.G1085R	.	.	.
ZBBX	79740	broad.mit.edu	36	3	168482839	168482839	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_024687	exon19	c.T2018C	p.I673T	.	.	.
PIK3CA	5290	broad.mit.edu	36	3	180418785	180418785	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006218	exon10	c.G1633A	p.E545K	 PIK3CA,urinary_tract,bladder,Substitution - Missense,0 	.	.
ABHD14B	84836	broad.mit.edu	36	3	51980602	51980602	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001146314	exon2	c.G125A	p.R42H	.	.	.
FEZF2	55079	broad.mit.edu	36	3	62331995	62331995	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018008	exon4	c.C1057T	p.R353C	.	.	.
OR5K3	403277	broad.mit.edu	36	3	99592674	99592674	+	Nonsense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001005516	exon1	c.G475T	p.E159X	.	.	.
IMPG2	50939	broad.mit.edu	36	3	102445248	102445248	+	Frame_Shift_Del	DEL	G	-	-	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_016247	exon13	c.2617delC	p.H873fs	.	.	.
HGFAC	3083	broad.mit.edu	36	4	3419016	3419017	+	Splice_Site	INS	-	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	.	.	.	.	.	.	.
EGF	1950	broad.mit.edu	36	4	111115345	111115345	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001963	exon12	c.C1762T	p.R588C	.	.	.
FGFR3	2261	broad.mit.edu	36	4	1775974	1775974	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001163213	exon9	c.C1201T	p.R401C	.	.	.
KCTD8	386617	broad.mit.edu	36	4	43871713	43871713	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_198353	exon2	c.C1273G	p.L425V	.	.	.
GPRIN3	285513	broad.mit.edu	36	4	90389064	90389064	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_198281	exon2	c.A1221C	p.E407D	.	.	.
APC	324	broad.mit.edu	36	5	112191600	112191600	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001127511	exon11	c.C1570T	p.Q524X	.	.	.
APC	324	broad.mit.edu	36	5	112203538	112203538	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001127511	exon14	c.C4294T	p.R1432X	 APC,large_intestine,rectum,Substitution - Nonsense,0 	.	.
AFF4	27125	broad.mit.edu	36	5	132298316	132298316	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014423	exon3	c.G340A	p.A114T	.	.	.
ODZ2	57451	broad.mit.edu	36	5	167558586	167558586	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001122679	exon16	c.C3024T	p.P1008P	.	.	.
PDCD6	10016	broad.mit.edu	36	5	359875	359875	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_013232	exon4	c.G367A	p.G123S	 PDCD6,breast,NS,Substitution - Missense,0 	.	.
ISL1	3670	broad.mit.edu	36	5	50721515	50721515	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002202	exon4	c.G757C	p.D253H	.	.	.
ADAMTS16	170690	broad.mit.edu	36	5	5372202	5372202	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_139056	exon23	c.A3626G	p.K1209R	.	.	.
TRDN	10345	broad.mit.edu	36	6	123875197	123875197	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006073	exon7	c.A560C	p.K187T	.	.	.
VARS2	57176	broad.mit.edu	36	6	30992970	30992970	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001167733	exon8	c.C443T	p.S148L	.	.	.
RXRB	6257	broad.mit.edu	36	6	33274974	33274974	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_021976	exon2	c.C433G	p.L145V	.	.	.
RPS18	6222	broad.mit.edu	36	6	33348405	33348405	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_022551	exon2	c.T26C	p.F9S	.	.	.
COL9A1	1297	broad.mit.edu	36	6	71018594	71018594	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001851	exon28	c.C1822T	p.Q608X	.	.	.
COL12A1	1303	broad.mit.edu	36	6	75918401	75918401	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004370	exon20	c.G3902T	p.R1301L	.	.	.
DENND2A	27147	broad.mit.edu	36	7	139865911	139865911	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015689	exon17	c.G2988A	p.L996L	.	.	.
DNAH11	8701	broad.mit.edu	36	7	21687757	21687757	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003777	exon31	c.C5412T	p.I1804I	.	.	.
RBAK	57786	broad.mit.edu	36	7	5063569	5063569	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_021163	exon3	c.G133C	p.V45L	.	.	.
CCZ1	51622	broad.mit.edu	36	7	5926052	5926052	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015622	exon12	c.C1035T	p.I345I	.	.	.
CD36	948	broad.mit.edu	36	7	80128437	80128437	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001127443	exon4	c.T404C	p.F135S	.	.	.
PON1	5444	broad.mit.edu	36	7	94778705	94778707	+	In_Frame_Del	DEL	AGA	-	-	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	AGA	AGA	AGA	-	AGA	AGA	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000446	exon5	c.489_491del	p.163_164del	.	.	.
ADCY8	114	broad.mit.edu	36	8	131985214	131985214	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001115	exon7	c.G1897A	p.V633M	.	.	.
MYOM2	9172	broad.mit.edu	36	8	2014267	2014267	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003970	exon12	c.G1308A	p.P436P	.	.	.
CRISPLD1	83690	broad.mit.edu	36	8	76060793	76060793	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_031461	exon2	c.C16T	p.R6W	.	.	.
CNBD1	168975	broad.mit.edu	36	8	88366056	88366056	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_173538	exon7	c.T806G	p.V269G	.	.	.
MUSK	4593	broad.mit.edu	36	9	112603005	112603005	+	Silent	SNP	G	C	C	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001166280	exon13	c.G2268C	p.L756L	.	.	.
CRAT	1384	broad.mit.edu	36	9	130902778	130902778	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000755	exon7	c.C817T	p.R273W	.	.	.
RXRA	6256	broad.mit.edu	36	9	136468263	136468263	+	Silent	SNP	G	T	T	rs1805348	byCluster;byFrequency	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002957	exon10	c.G1371T	p.A457A	.	.	.
HS6ST2	90161	broad.mit.edu	36	X	131918815	131918815	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001077188	exon3	c.G650A	p.R217H	.	.	.
GPR101	83550	broad.mit.edu	36	X	135940995	135940995	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_054021	exon1	c.G505A	p.G169S	.	.	.
FAM47A	158724	broad.mit.edu	36	X	34058274	34058274	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_203408	exon1	c.G2043A	p.T681T	.	.	.
ZNF41	7592	broad.mit.edu	36	X	47192698	47192698	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_153380	exon5	c.G1415A	p.C472Y	.	.	.
CFP	5199	broad.mit.edu	36	X	47372550	47372550	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002621	exon4	c.C298T	p.R100W	.	.	.
NLGN4X	57502	broad.mit.edu	36	X	5837154	5837154	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020742	exon4	c.T752A	p.F251Y	.	.	.
FAM123B	139285	broad.mit.edu	36	X	63328835	63328835	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_152424	exon2	c.C1057T	p.R353X	.	.	.
USP9Y	8287	broad.mit.edu	36	Y	13434362	13434362	+	Nonsense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3939-01A-01W-0995-10	TCGA-AA-3939-10A-01W-0995-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004654	exon31	c.C4590G	p.Y1530X	.	.	.