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
SORCS1	114815	broad.mit.edu	36	10	108327176	108327176	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_052918	exon26	c.G3499A	p.A1167T	.	.	.
SLC16A9	220963	broad.mit.edu	36	10	61082682	61082682	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_194298	exon6	c.A1384T	p.I462F	.	.	.
ARHGAP19	84986	broad.mit.edu	36	10	99015662	99015662	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032900	exon2	c.C267T	p.G89G	.	.	.
OR8B2	26595	broad.mit.edu	36	11	123758196	123758197	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001005468	exon1	c.254_255insG	p.F85fs	.	.	.
PCNXL3	399909	broad.mit.edu	36	11	65160878	65160879	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032223	exon35	c.5958_5959insC	p.S1986fs	.	.	.
GRIA4	2893	broad.mit.edu	36	11	105309720	105309720	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001077243	exon14	c.A2109G	p.V703V	.	.	.
CUL5	8065	broad.mit.edu	36	11	107425961	107425961	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003478	exon4	c.C369T	p.G123G	.	.	.
C11orf63	79864	broad.mit.edu	36	11	122310469	122310469	+	Nonsense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_024806	exon5	c.T1110A	p.C370X	.	.	.
PARVA	55742	broad.mit.edu	36	11	12455972	12455972	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018222	exon4	c.A420G	p.V140V	.	.	.
IGSF9B	22997	broad.mit.edu	36	11	133295297	133295297	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014987	exon18	c.G3533A	p.R1178Q	.	.	.
IGSF22	283284	broad.mit.edu	36	11	18696767	18696767	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_173588	exon8	c.G781A	p.D261N	.	.	.
KCNA4	3739	broad.mit.edu	36	11	29989289	29989289	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002233	exon2	c.A1513C	p.T505P	.	.	.
NUP98	4928	broad.mit.edu	36	11	3677004	3677004	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_139132	exon25	c.C3893G	p.T1298R	.	.	.
OR52J3	119679	broad.mit.edu	36	11	5024738	5024738	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001001916	exon1	c.C407T	p.T136I	.	.	.
OR4C6	219432	broad.mit.edu	36	11	55189851	55189851	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001004704	exon1	c.C633G	p.I211M	.	.	.
OR5F1	338674	broad.mit.edu	36	11	55518403	55518403	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003697	exon1	c.T275C	p.I92T	.	.	.
SLC43A1	8501	broad.mit.edu	36	11	57025263	57025263	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003627	exon3	c.C270T	p.T90T	.	.	.
DCHS1	8642	broad.mit.edu	36	11	6601358	6601358	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003737	exon21	c.A8125T	p.N2709Y	.	.	.
KRAS	3845	broad.mit.edu	36	12	25269829	25269829	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004985	exon4	c.G436A	p.A146T	 KRAS,large_intestine,NS,Substitution - Missense,0 	.	.
DYRK4	8798	broad.mit.edu	36	12	4593103	4593103	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003845	exon13	c.G1486C	p.E496Q	.	.	.
KRT71	112802	broad.mit.edu	36	12	51228274	51228274	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_033448	exon5	c.G907A	p.E303K	.	.	.
B4GALNT3	283358	broad.mit.edu	36	12	533279	533279	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_173593	exon14	c.C1929T	p.L643L	.	.	.
ATN1	1822	broad.mit.edu	36	12	6915515	6915515	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001007026	exon5	c.C824T	p.P275L	.	.	.
TRHDE	29953	broad.mit.edu	36	12	71343099	71343099	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_013381	exon19	c.C2932A	p.L978I	.	.	.
RIMKLB	57494	broad.mit.edu	36	12	8817426	8817426	+	Missense_Mutation	SNP	C	T	T	rs34259191	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020734	exon7	c.C940T	p.R314W	.	.	.
MYO16	23026	broad.mit.edu	36	13	108243875	108243875	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001198950	exon6	c.G627C	p.L209F	.	.	.
RASA3	22821	broad.mit.edu	36	13	113780148	113780148	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_007368	exon21	c.C2102T	p.A701V	.	.	.
ZFP36L1	677	broad.mit.edu	36	14	68326696	68326697	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004926	exon2	c.324_325insG	p.G108fs	.	.	.
GABRA5	2558	broad.mit.edu	36	15	24677198	24677198	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001165037	exon4	c.G199A	p.G67R	.	.	.
POTEB	339010	broad.mit.edu	36	15	19331373	19331373	+	Frame_Shift_Del	DEL	G	-	-	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_207355	exon2	c.546delC	p.A182fs	.	.	.
MAPK8IP3	23162	broad.mit.edu	36	16	1757906	1757907	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001040439	exon27	c.3488_3489insC	p.I1163fs	.	.	.
ACSM5	54988	broad.mit.edu	36	16	20340126	20340126	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_017888	exon5	c.C669T	p.D223D	.	.	.
DNAH3	55567	broad.mit.edu	36	16	20901676	20901676	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_017539	exon49	c.G7727A	p.R2576H	.	.	.
SLC5A2	6524	broad.mit.edu	36	16	31408119	31408119	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003041	exon12	c.C1624T	p.L542F	.	.	.
TSNAXIP1	55815	broad.mit.edu	36	16	66417611	66417611	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018430	exon10	c.C1038T	p.S346S	.	.	.
TMCO7	79613	broad.mit.edu	36	16	67498902	67498902	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_024562	exon10	c.G1723C	p.V575L	.	.	.
HYDIN	54768	broad.mit.edu	36	16	69546930	69546930	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032821	exon40	c.C6162T	p.S2054S	.	.	.
SPECC1	92521	broad.mit.edu	36	17	20048854	20048855	+	Frame_Shift_Ins	INS	-	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001033554	exon2	c.657_658insA	p.Y219fs	.	.	.
SOX9	6662	broad.mit.edu	36	17	67631357	67631358	+	Frame_Shift_Ins	INS	-	GG	GG	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	-	-	-	GG	-	-	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000346	exon3	c.764_765insGG	p.E255fs	.	.	.
WNT3	7473	broad.mit.edu	36	17	42250943	42250943	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_030753	exon1	c.G20T	p.G7V	.	.	.
TTLL6	284076	broad.mit.edu	36	17	44217383	44217383	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001130918	exon13	c.T1941C	p.N647N	.	.	.
SCN4A	6329	broad.mit.edu	36	17	59374917	59374917	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000334	exon22	c.C3938T	p.T1313M	.	.	.
TP53	7157	broad.mit.edu	36	17	7518264	7518264	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001126114	exon7	c.C742T	p.R248W	 TP53,haematopoietic_and_lymphoid_tissue,lymph_node,Substitution - Missense,+1 	.	.
NOL4	8715	broad.mit.edu	36	18	30057199	30057199	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001198546	exon1	c.A17C	p.D6A	.	.	.
PODNL1	79883	broad.mit.edu	36	19	13906174	13906175	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_024825	exon6	c.565_566insC	p.D189fs	.	.	.
ZNF714	148206	broad.mit.edu	36	19	21092799	21092799	+	Nonsense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_182515	exon5	c.A1489T	p.K497X	.	.	.
ZNF599	148103	broad.mit.edu	36	19	39942626	39942626	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001007248	exon4	c.G920T	p.R307L	.	.	.
TRPM4	54795	broad.mit.edu	36	19	54405429	54405429	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_017636	exon21	c.C3283T	p.R1095X	.	.	.
KLK12	43849	broad.mit.edu	36	19	56227141	56227141	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_145894	exon4	c.G260A	p.R87Q	.	.	.
LAIR2	3904	broad.mit.edu	36	19	59706755	59706755	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002288	exon2	c.C62T	p.T21M	.	.	.
MAP1S	55201	broad.mit.edu	36	19	17699385	17699385	+	Frame_Shift_Del	DEL	C	-	-	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_018174	exon5	c.2192delC	p.S731fs	.	.	.
CGB	1082	broad.mit.edu	36	19	54218021	54218021	+	Frame_Shift_Del	DEL	A	-	-	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000737	exon3	c.432delT	p.P144fs	.	.	.
SHC1	6464	broad.mit.edu	36	1	153209534	153209535	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001130040	exon1	c.93_94insC	p.P31fs	.	.	.
SLC1A7	6512	broad.mit.edu	36	1	53328307	53328308	+	Frame_Shift_Ins	INS	-	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	.	.	.	.	.	.	.
AMY2A	279	broad.mit.edu	36	1	103963839	103963839	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000699	exon4	c.G654C	p.W218C	.	.	.
SORT1	6272	broad.mit.edu	36	1	109680391	109680391	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_002959	exon11	c.G1365T	p.K455N	.	.	.
IGSF21	84966	broad.mit.edu	36	1	18564688	18564688	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_032880	exon6	c.C925T	p.L309F	.	.	.
KIAA1751	85452	broad.mit.edu	36	1	1878012	1878012	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001080484	exon17	c.G1923A	p.T641T	.	.	.
RGS13	6003	broad.mit.edu	36	1	190895215	190895215	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_144766	exon6	c.T419A	p.F140Y	.	.	.
KCNT2	343450	broad.mit.edu	36	1	194516626	194516626	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_198503	exon25	c.T2897G	p.L966R	.	.	.
SSBP3	23648	broad.mit.edu	36	1	54466568	54466568	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_145716	exon17	c.G1085A	p.R362Q	.	.	.
ELF3	1999	broad.mit.edu	36	1	200250981	200250981	+	Frame_Shift_Del	DEL	C	-	-	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	-	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001114309	exon9	c.1023delC	p.I341fs	.	.	.
TOP1	7150	broad.mit.edu	36	20	39091711	39091712	+	Frame_Shift_Ins	INS	-	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	.	.	.	.	.	.	.
SLC24A3	57419	broad.mit.edu	36	20	19141556	19141556	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020689	exon1	c.C70A	p.L24M	.	.	.
EPB41L1	2036	broad.mit.edu	36	20	34236600	34236600	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_012156	exon7	c.C714T	p.S238S	.	.	.
CTSA	5476	broad.mit.edu	36	20	43953743	43953743	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000308	exon2	c.G183A	p.K61K	.	.	.
PREX1	57580	broad.mit.edu	36	20	46705253	46705253	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020820	exon19	c.G2191A	p.V731I	.	.	.
PLCB4	5332	broad.mit.edu	36	20	9336678	9336678	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000933	exon18	c.A1726C	p.K576Q	.	.	.
PCNT	5116	broad.mit.edu	36	21	46570848	46570848	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006031	exon2	c.G184A	p.A62T	.	.	.
C22orf43	51233	broad.mit.edu	36	22	22298211	22298211	+	Nonsense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_016449	exon2	c.T233A	p.L78X	.	.	.
SPECC1L	23384	broad.mit.edu	36	22	23047468	23047468	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001145468	exon4	c.C520T	p.Q174X	.	.	.
ELFN2	114794	broad.mit.edu	36	22	36100191	36100191	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_052906	exon3	c.G1330A	p.G444R	.	.	.
ATF4	468	broad.mit.edu	36	22	38247938	38247938	+	Silent	SNP	T	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001675	exon2	c.T441C	p.S147S	.	.	.
ZC3H6	376940	broad.mit.edu	36	2	112784013	112784013	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_198581	exon4	c.G417C	p.E139D	.	.	.
UBXN4	23190	broad.mit.edu	36	2	136229631	136229631	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014607	exon5	c.G408A	p.A136A	.	.	.
LRP1B	53353	broad.mit.edu	36	2	141341718	141341718	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018557	exon27	c.A4490G	p.K1497R	.	.	.
PLA2R1	22925	broad.mit.edu	36	2	160512290	160512290	+	Silent	SNP	A	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_007366	exon26	c.T3736C	p.L1246L	.	.	.
MYL1	4632	broad.mit.edu	36	2	210867374	210867374	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_079422	exon4	c.G186C	p.K62N	.	.	.
KIAA1486	57624	broad.mit.edu	36	2	226155604	226155604	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_020864	exon4	c.G1227A	p.A409A	.	.	.
OR6B3	150681	broad.mit.edu	36	2	240633411	240633411	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_173351	exon1	c.T752G	p.F251C	.	.	.
TMEM214	54867	broad.mit.edu	36	2	27117173	27117173	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001083590	exon16	c.C1899T	p.F633F	.	.	.
ASB3	51130	broad.mit.edu	36	2	53809480	53809480	+	Silent	SNP	A	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_016115	exon5	c.T477G	p.A159A	.	.	.
PCBP1	5093	broad.mit.edu	36	2	70168684	70168684	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006196	exon1	c.T305A	p.L102Q	.	.	.
ACTR1B	10120	broad.mit.edu	36	2	97643530	97643530	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005735	exon3	c.C125T	p.P42L	.	.	.
SATB2	23314	broad.mit.edu	36	2	200028931	200028931	+	Frame_Shift_Del	DEL	C	-	-	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001172509	exon2	c.75delG	p.G25fs	.	.	.
HPS3	84343	broad.mit.edu	36	3	150359218	150359218	+	Silent	SNP	C	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032383	exon10	c.C1767G	p.A589A	.	.	.
PLCH1	23007	broad.mit.edu	36	3	156794470	156794470	+	Missense_Mutation	SNP	T	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001130960	exon3	c.A388G	p.I130V	.	.	.
ZMAT3	64393	broad.mit.edu	36	3	180268186	180268186	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_152240	exon3	c.C49T	p.P17S	.	.	.
DGKG	1608	broad.mit.edu	36	3	187388761	187388761	+	Silent	SNP	G	A	A	rs34284245	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001080744	exon21	c.C1944T	p.N648N	.	.	.
TP63	8626	broad.mit.edu	36	3	191087012	191087012	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001114980	exon9	c.T1203G	p.I401M	.	.	.
ZNF167	55888	broad.mit.edu	36	3	44587495	44587495	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018651	exon6	c.C1889T	p.T630M	.	.	.
RRP9	9136	broad.mit.edu	36	3	51946312	51946312	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004704	exon6	c.T453G	p.C151W	.	.	.
NEK4	6787	broad.mit.edu	36	3	52777647	52777647	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_003157	exon2	c.A107C	p.K36T	.	.	.
ROBO1	6091	broad.mit.edu	36	3	78771705	78771705	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002941	exon22	c.G2916A	p.A972A	.	.	.
TMEM192	201931	broad.mit.edu	36	4	166253361	166253362	+	Frame_Shift_Ins	INS	-	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001100389	exon1	c.15_16insG	p.G5fs	.	.	.
MAB21L2	10586	broad.mit.edu	36	4	151724192	151724192	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006439	exon1	c.G561T	p.W187C	.	.	.
TRIM2	23321	broad.mit.edu	36	4	154456543	154456543	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_015271	exon8	c.T1724A	p.I575N	.	.	.
DCHS2	54798	broad.mit.edu	36	4	155375524	155375524	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_017639	exon25	c.T8365C	p.F2789L	.	.	.
ODZ3	55714	broad.mit.edu	36	4	183837909	183837909	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001080477	exon7	c.G1423A	p.V475I	.	.	.
IRF2	3660	broad.mit.edu	36	4	185576721	185576721	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002199	exon4	c.T323G	p.V108G	.	.	.
SLIT2	9353	broad.mit.edu	36	4	20178034	20178034	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004787	exon27	c.C2777T	p.P926L	.	.	.
APC	324	broad.mit.edu	36	5	112201459	112201459	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001127511	exon14	c.C2215T	p.Q739X	.	.	.
CTNND2	1501	broad.mit.edu	36	5	11417842	11417842	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001332	exon8	c.G1338A	p.P446P	.	.	.
CDC23	8697	broad.mit.edu	36	5	137555476	137555476	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_004661	exon12	c.C1336G	p.L446V	.	.	.
DNAH5	1767	broad.mit.edu	36	5	13761348	13761348	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001369	exon76	c.C13222T	p.R4408C	.	.	.
PCDHB1	29930	broad.mit.edu	36	5	140411425	140411425	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_013340	exon1	c.C186T	p.R62R	.	.	.
PCDHGA7	56108	broad.mit.edu	36	5	140744634	140744634	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_032087	exon1	c.G1984A	p.V662M	.	.	.
ADAMTS2	9509	broad.mit.edu	36	5	178484716	178484716	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014244	exon19	c.G2822A	p.R941H	.	.	.
TRIM41	90933	broad.mit.edu	36	5	180592325	180592325	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_033549	exon3	c.C970G	p.L324V	.	.	.
HTR1A	3350	broad.mit.edu	36	5	63292722	63292722	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_000524	exon1	c.G581C	p.G194A	.	.	.
BTF3	689	broad.mit.edu	36	5	72836795	72836795	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001207	exon6	c.G465C	p.E155D	.	.	.
CMYA5	202333	broad.mit.edu	36	5	79070782	79070782	+	Nonsense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_153610	exon2	c.G10438T	p.E3480X	.	.	.
VCAN	1462	broad.mit.edu	36	5	82822004	82822004	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001164097	exon3	c.C402T	p.Y134Y	.	.	.
FBXO30	84085	broad.mit.edu	36	6	146168338	146168338	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_032145	exon2	c.G897C	p.Q299H	.	.	.
KIF25	3834	broad.mit.edu	36	6	168182231	168182231	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_030615	exon5	c.G467A	p.R156Q	.	.	.
DEFB112	245915	broad.mit.edu	36	6	50119339	50119339	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001037498	exon2	c.G250A	p.V84M	.	.	.
COL21A1	81578	broad.mit.edu	36	6	56140920	56140920	+	Silent	SNP	G	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_030820	exon6	c.C1161A	p.T387T	.	.	.
LMBRD1	55788	broad.mit.edu	36	6	70485598	70485598	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_018368	exon8	c.G733C	p.E245Q	.	.	.
B3GAT2	135152	broad.mit.edu	36	6	71722779	71722779	+	Silent	SNP	C	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_080742	exon1	c.G75C	p.V25V	.	.	.
RIMS1	22999	broad.mit.edu	36	6	73019190	73019190	+	Nonsense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001168409	exon11	c.C883T	p.Q295X	.	.	.
HLA-DQA1	3117	broad.mit.edu	36	6	32718118	32718118	+	Frame_Shift_Del	DEL	T	-	-	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	.	.	.	.	.	.	.
KEL	3792	broad.mit.edu	36	7	142353467	142353467	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_000420	exon11	c.G1263A	p.T421T	.	.	.
SCRN1	9805	broad.mit.edu	36	7	29975119	29975119	+	Silent	SNP	C	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_014766	exon2	c.G90T	p.R30R	.	.	.
AQP1	358	broad.mit.edu	36	7	30929634	30929634	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001185060	exon5	c.C426T	p.L142L	.	.	.
SDK1	221935	broad.mit.edu	36	7	4151940	4151940	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_152744	exon29	c.T4289G	p.V1430G	.	.	.
WBSCR17	64409	broad.mit.edu	36	7	70523838	70523838	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_022479	exon5	c.C773T	p.P258L	.	.	.
RP1L1	94137	broad.mit.edu	36	8	10505216	10505216	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_178857	exon4	c.G3802A	p.A1268T	.	.	.
CYP11B1	1584	broad.mit.edu	36	8	143955449	143955449	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001026213	exon3	c.C587G	p.T196S	.	.	.
CYC1	1537	broad.mit.edu	36	8	145224200	145224200	+	Silent	SNP	G	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001916	exon7	c.G951C	p.R317R	.	.	.
MSR1	4481	broad.mit.edu	36	8	16065952	16065952	+	Missense_Mutation	SNP	T	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_138716	exon5	c.A810T	p.L270F	.	.	.
CNBD1	168975	broad.mit.edu	36	8	88435014	88435014	+	Missense_Mutation	SNP	T	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	T	T	T	G	T	T	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_173538	exon10	c.T1187G	p.L396R	.	.	.
MMP16	4325	broad.mit.edu	36	8	89278557	89278557	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_005941	exon2	c.T227C	p.M76T	.	.	.
SLC26A7	115111	broad.mit.edu	36	8	92421939	92421939	+	Nonsense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_134266	exon8	c.C1010A	p.S337X	.	.	.
SDC2	6383	broad.mit.edu	36	8	97690949	97690949	+	Silent	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_002998	exon5	c.G603A	p.A201A	.	.	.
MTDH	92140	broad.mit.edu	36	8	98742485	98742485	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_178812	exon2	c.C391T	p.R131W	.	.	.
ZHX2	22882	broad.mit.edu	36	8	124035074	124035074	+	Frame_Shift_Del	DEL	C	-	-	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	-	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_014943	exon3	c.2143delC	p.P715fs	.	.	.
SMC2	10592	broad.mit.edu	36	9	105904217	105904217	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_006444	exon8	c.G792C	p.Q264H	.	.	.
OR13C3	138803	broad.mit.edu	36	9	106338122	106338122	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001001961	exon1	c.G794A	p.R265H	.	.	.
C5	727	broad.mit.edu	36	9	122784804	122784804	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001735	exon26	c.G3340C	p.D1114H	.	.	.
QSOX2	169714	broad.mit.edu	36	9	138253464	138253464	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_181701	exon6	c.G820A	p.V274I	.	.	.
FREM1	158326	broad.mit.edu	36	9	14809249	14809249	+	Silent	SNP	G	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_144966	exon15	c.C2529G	p.L843L	.	.	.
PTPLAD2	401494	broad.mit.edu	36	9	21016623	21016623	+	Nonsense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001010915	exon3	c.C242A	p.S81X	.	.	.
DOCK8	81704	broad.mit.edu	36	9	276581	276581	+	Missense_Mutation	SNP	G	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_001190458	exon2	c.G73T	p.V25L	.	.	.
PTAR1	375743	broad.mit.edu	36	9	71536887	71536887	+	Missense_Mutation	SNP	C	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_001099666	exon5	c.G630C	p.K210N	.	.	.
KDM5C	8242	broad.mit.edu	36	X	53242911	53242912	+	Frame_Shift_Ins	INS	-	GG	GG	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	-	-					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_004187	exon19	c.2663_2664insCC	p.R888fs	.	.	.
TEX13A	56157	broad.mit.edu	36	X	104350637	104350637	+	Missense_Mutation	SNP	A	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_031274	exon3	c.T897A	p.P299P	.	.	.
IRS4	8471	broad.mit.edu	36	X	107864414	107864414	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	T	T	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_003604	exon1	c.G1817A	p.R606H	.	.	.
GLUD2	2747	broad.mit.edu	36	X	120009450	120009450	+	Silent	SNP	C	T	T	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_012084	exon1	c.C231T	p.G77G	.	.	.
MAGEA12	4111	broad.mit.edu	36	X	151651352	151651352	+	Missense_Mutation	SNP	C	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	C	C	A	A	C	C	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_005367	exon2	c.G105T	p.E35D	.	.	.
ATP2B3	492	broad.mit.edu	36	X	152471737	152471737	+	Missense_Mutation	SNP	G	A	A	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	G	G	A	A	G	G	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_021949	exon11	c.G1874A	p.R625Q	.	.	.
ZNF645	158506	broad.mit.edu	36	X	22201447	22201447	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_152577	exon1	c.A418G	p.R140G	.	.	.
CXorf22	170063	broad.mit.edu	36	X	35879994	35879994	+	Missense_Mutation	SNP	A	G	G	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A					Unknown	Unknown	Somatic	Phase_I	Capture				Illumina HiSeq	NM_152632	exon6	c.A1039G	p.T347A	.	.	.
CXorf22	170063	broad.mit.edu	36	X	35881757	35881757	+	Missense_Mutation	SNP	A	C	C	novel	unknown	TCGA-AA-3979-01A-01W-0995-10	TCGA-AA-3979-10A-01W-0999-10	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_I	Capture	454_PCR_WGA			Illumina HiSeq	NM_152632	exon7	c.A1174C	p.S392R	.	.	.