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
HTRA1	5654	broad.mit.edu	36	10	124238503	124238503	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002775	exon2	c.C568T	p.R190C	.	.	.
GLRX3	10539	broad.mit.edu	36	10	131833499	131833499	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001199868	exon2	c.G127C	p.A43P	.	.	.
ITIH2	3698	broad.mit.edu	36	10	7808970	7808970	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002216	exon10	c.T1036G	p.F346V	.	.	.
RNH1	6050	broad.mit.edu	36	11	489973	489974	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_203388	exon4	c.299_300insG	p.A100fs	.	.	.
B3GNT1	11041	broad.mit.edu	36	11	65870710	65870711	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006876	exon1	c.883_884insC	p.C295fs	.	.	.
TTC17	55761	broad.mit.edu	36	11	43357361	43357361	+	Silent	SNP	G	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018259	exon2	c.G162T	p.V54V	.	.	.
NUP160	23279	broad.mit.edu	36	11	47766337	47766337	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015231	exon31	c.C3719T	p.T1240M	.	.	.
OR8K1	390157	broad.mit.edu	36	11	55870528	55870528	+	Silent	SNP	A	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001002907	exon1	c.A438C	p.V146V	.	.	.
NUMA1	4926	broad.mit.edu	36	11	71397385	71397385	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006185	exon20	c.C5213G	p.T1738S	.	.	.
TYR	7299	broad.mit.edu	36	11	88657723	88657723	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000372	exon4	c.T1319G	p.I440S	.	.	.
TENC1	23371	broad.mit.edu	36	12	51739169	51739170	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_015319	exon18	c.1507_1508insC	p.T503fs	.	.	.
TAS2R8	50836	broad.mit.edu	36	12	10850303	10850303	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_023918	exon1	c.C544T	p.P182S	.	.	.
C12orf29	91298	broad.mit.edu	36	12	86963673	86963673	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001009894	exon5	c.A605G	p.N202S	.	.	.
FOXM1	2305	broad.mit.edu	36	12	2843750	2843750	+	Frame_Shift_Del	DEL	G	-	-	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	G	G	G	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_202003	exon7	c.1218delC	p.P406fs	.	.	.
GLI1	2735	broad.mit.edu	36	12	56150482	56150482	+	Frame_Shift_Del	DEL	T	-	-	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	T	T	T	T	T	T	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001160045	exon10	c.1308delT	p.P436fs	.	.	.
STARD13	90627	broad.mit.edu	36	13	32579011	32579011	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_178006	exon13	c.T3108G	p.H1036Q	.	.	.
SOHLH2	54937	broad.mit.edu	36	13	35646640	35646640	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_017826	exon8	c.C854G	p.S285C	.	.	.
MZT1	440145	broad.mit.edu	36	13	72199704	72199706	+	In_Frame_Del	DEL	GCC	-	-	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	GCC	GCC					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001071775	exon1	c.36_38del	p.12_13del	.	.	.
CTAGE5	4253	broad.mit.edu	36	14	38816019	38816019	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_203354	exon2	c.C158T	p.S53L	.	.	.
RIPK3	11035	broad.mit.edu	36	14	23875406	23875406	+	Frame_Shift_Del	DEL	C	-	-	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006871	exon10	c.1372delG	p.V458fs	.	.	.
PKMYT1	9088	broad.mit.edu	36	16	2963158	2963159	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004203	exon8	c.1370_1371insC	p.R457fs	.	.	.
C16orf93	90835	broad.mit.edu	36	16	30680049	30680050	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-	-	-	-	-	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001014979	exon2	c.207_208insC	p.P69fs	.	.	.
ADAD2	161931	broad.mit.edu	36	16	82786776	82786777	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_139174	exon7	c.1270_1271insC	p.T424fs	.	.	.
FBXL19	54620	broad.mit.edu	36	16	30847333	30847333	+	De_novo_Start_OutOfFrame	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001099784	exon6	c.C732T	p.D244D	.	.	.
DUS2L	54920	broad.mit.edu	36	16	66640944	66640944	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_017803	exon4	c.A162G	p.R54R	.	.	.
UNC119	9094	broad.mit.edu	36	17	23903621	23903622	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_054035	exon1	c.82_83insC	p.I28fs	.	.	.
CAMTA2	23125	broad.mit.edu	36	17	4816381	4816382	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-	-	-	-	-	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001171167	exon16	c.2747_2748insC	p.L916fs	.	.	.
TOP3A	7156	broad.mit.edu	36	17	18122043	18122043	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004618	exon18	c.G2498A	p.R833Q	.	.	.
PNPO	55163	broad.mit.edu	36	17	43379106	43379106	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018129	exon7	c.C745T	p.R249C	.	.	.
TP53	7157	broad.mit.edu	36	17	7518937	7518937	+	Nonsense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001126114	exon6	c.C637T	p.R213X	 TP53,central_nervous_system,brain,Substitution - Missense,+1 	.	.
KDM6B	23135	broad.mit.edu	36	17	7692286	7692286	+	Frame_Shift_Del	DEL	C	-	-	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001080424	exon11	c.1955delC	p.A652fs	.	.	.
TAF4B	6875	broad.mit.edu	36	18	22108703	22108703	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005640	exon4	c.A676C	p.S226R	.	.	.
DCC	1630	broad.mit.edu	36	18	48843742	48843742	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005215	exon6	c.G1055A	p.C352Y	.	.	.
JAK3	3718	broad.mit.edu	36	19	17815642	17815643	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-	-	-	-	-	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000215	exon3	c.252_253insC	p.P84fs	.	.	.
AP2A1	160	broad.mit.edu	36	19	55000740	55000741	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_130787	exon20	c.2479_2480insC	p.A827fs	.	.	.
NAPSB	256236	broad.mit.edu	36	19	55529413	55529414	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	.	.	.	.	.	.	.
ARRDC5	645432	broad.mit.edu	36	19	4842493	4842493	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001080523	exon3	c.C594T	p.T198T	.	.	.
PLEKHA4	57664	broad.mit.edu	36	19	54054539	54054539	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020904	exon7	c.G691A	p.D231N	.	.	.
KLK7	5650	broad.mit.edu	36	19	56176957	56176957	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005046	exon3	c.C99T	p.G33G	.	.	.
SIGLEC8	27181	broad.mit.edu	36	19	56647475	56647475	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014442	exon7	c.C1470A	p.H490Q	.	.	.
COL8A2	1296	broad.mit.edu	36	1	36336393	36336394	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005202	exon2	c.1476_1477insC	p.P492fs	.	.	.
GPR61	83873	broad.mit.edu	36	1	109887351	109887351	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_031936	exon2	c.G184A	p.A62T	.	.	.
MTOR	2475	broad.mit.edu	36	1	11187241	11187241	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004958	exon26	c.G3908T	p.C1303F	.	.	.
GATAD2B	57459	broad.mit.edu	36	1	152051131	152051131	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020699	exon9	c.G1521A	p.T507T	.	.	.
CHRNB2	1141	broad.mit.edu	36	1	152810753	152810753	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000748	exon5	c.C830T	p.T277M	.	.	.
ETV3L	440695	broad.mit.edu	36	1	155329432	155329432	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	A	A	A	A	A	A	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001004341	exon5	c.T719C	p.L240P	.	.	.
CACNA1S	779	broad.mit.edu	36	1	199325209	199325209	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000069	exon6	c.G700A	p.V234M	.	.	.
SCP2	6342	broad.mit.edu	36	1	53193042	53193042	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001193617	exon4	c.G131C	p.S44T	.	.	.
C1orf52	148423	broad.mit.edu	36	1	85496942	85496942	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_198077	exon2	c.A328G	p.T110A	.	.	.
KIAA0495	57212	broad.mit.edu	36	1	3652294	3652294	+	Frame_Shift_Del	DEL	G	-	-	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	G	G	G	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	.	.	.	.	.	.	.
HSPA12B	116835	broad.mit.edu	36	20	3670944	3670944	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001197327	exon4	c.G155A	p.R52Q	.	.	.
RBPJL	11317	broad.mit.edu	36	20	43374342	43374342	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014276	exon6	c.T512A	p.L171Q	.	.	.
ZNF335	63925	broad.mit.edu	36	20	44022345	44022345	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_022095	exon14	c.C1929T	p.H643H	.	.	.
CDH26	60437	broad.mit.edu	36	20	57997449	57997449	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_177980	exon9	c.G1119A	p.P373P	.	.	.
CHCHD10	400916	broad.mit.edu	36	22	22438440	22438441	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_213720	exon3	c.284_285insC	p.Q95fs	.	.	.
SF3A1	10291	broad.mit.edu	36	22	29071064	29071064	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005877	exon4	c.C509T	p.T170M	.	.	.
SLC9A4	389015	broad.mit.edu	36	2	102462116	102462116	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001011552	exon2	c.T643C	p.F215L	.	.	.
RANBP2	5903	broad.mit.edu	36	2	108749121	108749121	+	Silent	SNP	T	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006267	exon20	c.T5694C	p.F1898F	.	.	.
LCT	3938	broad.mit.edu	36	2	136291900	136291900	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002299	exon6	c.C1188T	p.N396N	.	.	.
RAPGEF4	11069	broad.mit.edu	36	2	173600194	173600194	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_007023	exon25	c.G2519A	p.R840H	.	.	.
MAP2	4133	broad.mit.edu	36	2	210268224	210268224	+	Nonsense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002374	exon7	c.G3085T	p.E1029X	.	.	.
C2orf56	55471	broad.mit.edu	36	2	37316758	37316758	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_144736	exon3	c.C232T	p.R78C	.	.	.
ADD2	119	broad.mit.edu	36	2	70773043	70773043	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001185054	exon7	c.G705A	p.A235A	.	.	.
PARP3	10039	broad.mit.edu	36	3	51953629	51953630	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005485	exon4	c.496_497insC	p.V166fs	.	.	.
HEG1	57493	broad.mit.edu	36	3	126230947	126230947	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_020733	exon2	c.A392T	p.E131V	.	.	.
CNTN6	27255	broad.mit.edu	36	3	1399750	1399750	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014461	exon18	c.G2291C	p.R764T	.	.	.
BTD	686	broad.mit.edu	36	3	15661980	15661980	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000060	exon4	c.G1613A	p.R538H	.	.	.
PLD1	5337	broad.mit.edu	36	3	172938083	172938083	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001130081	exon3	c.C221T	p.T74M	.	.	.
GBE1	2632	broad.mit.edu	36	3	81630967	81630967	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000158	exon15	c.G2036A	p.R679H	.	.	.
PTH1R	5745	broad.mit.edu	36	3	46915319	46915319	+	Frame_Shift_Del	DEL	C	-	-	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001184744	exon8	c.802delC	p.P268fs	.	.	.
FAT4	79633	broad.mit.edu	36	4	126590492	126590492	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_024582	exon9	c.T8871A	p.D2957E	.	.	.
FAT1	2195	broad.mit.edu	36	4	187755837	187755837	+	Nonsense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005245	exon24	c.G12361T	p.G4121X	.	.	.
UCHL1	7345	broad.mit.edu	36	4	40958673	40958673	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004181	exon6	c.C435T	p.A145A	.	.	.
FRAS1	80144	broad.mit.edu	36	4	79653637	79653637	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_025074	exon65	c.C10081T	p.H3361Y	.	.	.
TCOF1	6949	broad.mit.edu	36	5	149735127	149735128	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-	-	-	-	-	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001135244	exon11	c.1521_1522insC	p.K507fs	.	.	.
OTP	23440	broad.mit.edu	36	5	76961976	76961977	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032109	exon3	c.847_848insC	p.G283fs	.	.	.
APC	324	broad.mit.edu	36	5	112156090	112156090	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001127510	exon8	c.C694T	p.R232X	 APC,large_intestine,NS,Substitution - Nonsense,0 	.	.
PCDHGB7	56099	broad.mit.edu	36	5	140779486	140779486	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_032101	exon1	c.G1876A	p.V626M	.	.	.
GRK6	2870	broad.mit.edu	36	5	176795825	176795827	+	In_Frame_Del	DEL	GAA	-	-	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	GAA	GAA					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001004105	exon12	c.1203_1205del	p.401_402del	.	.	.
HIVEP1	3096	broad.mit.edu	36	6	12272582	12272583	+	Frame_Shift_Ins	INS	-	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-	-	-	-	-	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002114	exon9	c.8059_8060insT	p.V2687fs	.	.	.
AKIRIN2	55122	broad.mit.edu	36	6	88468113	88468114	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018064	exon1	c.9_10insG	p.C3fs	.	.	.
UBR2	23304	broad.mit.edu	36	6	42734542	42734543	+	Splice_Site	INS	-	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-	-	A	-	A	Unknown	Valid	Germline	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	.	.	.	.	.	.	.
OR12D3	81797	broad.mit.edu	36	6	29450694	29450694	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_030959	exon1	c.C350T	p.A117V	.	.	.
TRERF1	55809	broad.mit.edu	36	6	42339237	42339237	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_033502	exon8	c.G1683A	p.P561P	.	.	.
FHL5	9457	broad.mit.edu	36	6	97170253	97170253	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001170807	exon6	c.A739G	p.S247G	.	.	.
ZBTB24	9841	broad.mit.edu	36	6	109909893	109909893	+	Frame_Shift_Del	DEL	C	-	-	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	C	C	C	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001164313	exon2	c.30delG	p.G10fs	.	.	.
TTBK1	84630	broad.mit.edu	36	6	43338829	43338831	+	In_Frame_Del	DEL	GCG	-	-	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	GCG	GCG					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032538	exon13	c.1749_1751del	p.583_584del	.	.	.
GJC3	349149	broad.mit.edu	36	7	99365122	99365123	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_181538	exon1	c.58_59insC	p.V20fs	.	.	.
C7orf47	221908	broad.mit.edu	36	7	99871217	99871218	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-	-	-	-	-	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_145030	exon3	c.561_562insC	p.P187fs	.	.	.
MUC17	140453	broad.mit.edu	36	7	100464181	100464181	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001040105	exon3	c.G2764A	p.G922R	.	.	.
SYPL1	6856	broad.mit.edu	36	7	105525433	105525433	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_182715	exon3	c.C341T	p.A114V	.	.	.
CARD11	84433	broad.mit.edu	36	7	2943270	2943270	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_032415	exon9	c.G1268A	p.R423Q	.	.	.
VPS13B	157680	broad.mit.edu	36	8	100940762	100940763	+	Missense_Mutation	DNP	GC	TA	TA	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	GC	GC					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_152564	exon57	c.10922_10923TA	.	.	.	.
COL14A1	7373	broad.mit.edu	36	8	121426906	121426906	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_021110	exon45	c.C5000T	p.A1667V	.	.	.
CEL	1056	broad.mit.edu	36	9	134936423	134936424	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001807	exon11	c.1722_1723insC	p.V574fs	.	.	.
C9orf86	55684	broad.mit.edu	36	9	138842809	138842810	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-	-	-	-	-	Unknown	Wildtype	None	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001173988	exon4	c.356_357insC	p.D119fs	.	.	.
NOXA1	10811	broad.mit.edu	36	9	139447490	139447491	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_006647	exon10	c.863_864insG	p.M288fs	.	.	.
CDK9	1025	broad.mit.edu	36	9	129591375	129591375	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001261	exon7	c.G851A	p.R284H	.	.	.
CIZ1	25792	broad.mit.edu	36	9	129971586	129971586	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001131015	exon14	c.G1897A	p.V633I	.	.	.
DNM1	1759	broad.mit.edu	36	9	130026429	130026429	+	Silent	SNP	C	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001005336	exon10	c.C1275A	p.L425L	.	.	.
ODZ1	10178	broad.mit.edu	36	X	123485110	123485110	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014253	exon17	c.G2818A	p.D940N	.	.	.
ARHGAP36	158763	broad.mit.edu	36	X	130045509	130045509	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_144967	exon4	c.C440T	p.A147V	.	.	.
ATP11C	286410	broad.mit.edu	36	X	138724739	138724739	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001010986	exon5	c.T399A	p.N133K	.	.	.
MAGEC1	9947	broad.mit.edu	36	X	140822183	140822183	+	Missense_Mutation	SNP	C	A	A	rs62611966	by1000genomes	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005462	exon4	c.C1327A	p.L443I	.	.	.
MAGEA10	4109	broad.mit.edu	36	X	151054729	151054729	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_021048	exon4	c.G20A	p.R7H	.	.	.
FAM47A	158724	broad.mit.edu	36	X	34058249	34058249	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_203408	exon1	c.C2068T	p.R690C	.	.	.
ZMYM3	9203	broad.mit.edu	36	X	70385347	70385347	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001171162	exon9	c.C1651T	p.R551C	.	.	.
SYTL4	94121	broad.mit.edu	36	X	99843619	99843619	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3980-01A-02W-0995-10	TCGA-AA-3980-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001129896	exon3	c.G71A	p.R24Q	.	.	.