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	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	ref_context	gc_content	t_alt_count	t_ref_count
NOS1	4842	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	117669890	117669890	+	Silent	SNP	G	G	A			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	CCTGGAAGATGGTGCAGGGCG	0.592	19	21
NPAS3	64067	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	34263252	34263252	+	Splice_Site	SNP	T	T	G			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	CCTTCTTAGGTATATTTTCTA	0.333	26	44
JAG2	3714	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	105615619	105615619	+	Silent	SNP	G	G	A			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	AGCGAGCGCCGTTCCGGCAGG	0.662	48	85
ENKD1	84080	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	67700039	67700039	+	Missense_Mutation	SNP	C	C	T			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	CCCGACGCCGCGCTGGCCGCG	0.662	8	52
FKBP8	23770	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	18650228	18650228	+	Silent	SNP	C	C	T			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	TGACCATGGCCGTCTCCCCCA	0.637	51	50
IRF2BP1	26145	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	46387378	46387378	+	Missense_Mutation	SNP	C	C	A			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	GACCAGCGGGCACTTGTCTCC	0.642	15	4
PHACTR3	116154	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	58381107	58381107	+	Missense_Mutation	SNP	C	C	T			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	AACACTGCCACGGAAATGCAA	0.547	69	287
KRTAP13-1	140258	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	21	31768834	31768834	+	Missense_Mutation	SNP	G	G	A			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	GGGCTATGGCGTTGGATTCTG	0.542	17	17
PWP2	5822	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	21	45540355	45540355	+	Missense_Mutation	SNP	G	G	A			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	GGACGGGACCGTGCGAGCCTT	0.597	81	101
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	ATAAGCATGACGACCTATGAT	0.393	26	62
TXK	7294	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	48114404	48114404	+	Silent	SNP	A	A	G			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	TTAAGGCTAAATTACAGGGTT	0.468	27	148
NPY1R	4886	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	164247119	164247119	+	Silent	SNP	G	G	A			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	CAAAGCACACGTATTTGTCTT	0.408	35	39
PLEKHG4B	153478	hgsc.bcm.edu;broad.mit.edu	37	5	143249	143249	+	Missense_Mutation	SNP	G	G	A	rs115149634	byFrequency	TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	GTGCCTGCCCGGCAGCCACAC	0.647	22	74
ZDHHC11	79844	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	814876	814876	+	Splice_Site	SNP	C	C	G	rs138424733		TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	ACGAACTTACCCAAGTGTAGA	0.378	26	34
DNAH8	1769	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	38690599	38690599	+	Missense_Mutation	SNP	C	C	T			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	GAGAAGGATGCTGAAGATGGC	0.532	11	15
THEMIS	387357	hgsc.bcm.edu;broad.mit.edu	37	6	128135074	128135074	+	Nonsense_Mutation	SNP	G	G	A			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	ATATCTTTTCGAACTAAAAAG	0.333	40	55
ZNF782	158431	hgsc.bcm.edu;broad.mit.edu	37	9	99581580	99581580	+	Missense_Mutation	SNP	G	G	C			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	GAAATTGTAAGATTTTCCTTT	0.333	8	92
FRMPD4	9758	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	12701668	12701668	+	Missense_Mutation	SNP	C	C	T			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	TGTCAAAGTACGCTTCTCTGA	0.423	28	3
CEP104	9731	broad.mit.edu;ucsc.edu	37	1	3768869	3768869	+	Missense_Mutation	SNP	G	G	A			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	CTAGGTGACCGCCACCCACTG	0.622	3	21
NF1	4763	broad.mit.edu;ucsc.edu	37	17	29670155	29670155	+	Splice_Site	SNP	T	T	A			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	TTTTAAAAGGTAAAAAAGCCT	0.318	5	36
ZNRD1-AS1	80862	broad.mit.edu;ucsc.edu	37	6	29977359	29977359	+	RNA	SNP	G	G	A	rs3831361	by1000genomes	TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	ATTTGTTCATGCCTTCCCTTT	0.453	7	47
TRBV7-6	28592	broad.mit.edu;ucsc.edu	37	7	142139349	142139349	+	RNA	SNP	G	G	A			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	GAGTGGAGACGGATCCCTCAG	0.567	26	96
ZNRD1-AS1	80862	broad.mit.edu;ucsc.edu	37	6	29977358	29977358	+	RNA	SNP	T	T	C	rs146982767	by1000genomes	TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	GATTTGTTCATGCCTTCCCTT	0.448	7	47
NPTX1	4884	broad.mit.edu;ucsc.edu	37	17	78444660	78444660	+	Missense_Mutation	SNP	C	C	T			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	GTGGCCCCTCCGTAGATCTCG	0.662	7	51
NT5C	30833	broad.mit.edu;ucsc.edu	37	17	73126675	73126675	+	Missense_Mutation	SNP	C	C	A			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	GGGGGCAGGACCAGGTGCCGA	0.607	30	47
SMC4	10051	broad.mit.edu;ucsc.edu	37	3	160137299	160137299	+	Missense_Mutation	SNP	T	T	A			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	AGAAAAAAAATCTGGCAGGAT	0.343	35	57
FUBP1	8880	broad.mit.edu;hgsc.bcm.edu	37	1	78433848	78433851	+	Splice_Site	DEL	CAGT	CAGT	-			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	GGAATACTTACAGTCATTTTGAGG	0.319	20	11
HGD	3081	broad.mit.edu;hgsc.bcm.edu	37	3	120357338	120357338	+	Frame_Shift_Del	DEL	C	C	-			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	TTATCAGCAACCCCCCATCGA	0.483	23	92
WDFY3	23001	broad.mit.edu;hgsc.bcm.edu	37	4	85731329	85731331	+	In_Frame_Del	DEL	GAA	GAA	-			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	AACACAGTGTGAAGAAGTTCAAA	0.448	28	51
MAN2A1	4124	broad.mit.edu;hgsc.bcm.edu	37	5	109049430	109049433	+	Frame_Shift_Del	DEL	CTGT	CTGT	-			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	ACACTGCAGACTGTCTGTTTGCTT	0.407	38	133
HDAC2	3066	broad.mit.edu;hgsc.bcm.edu	37	6	114277842	114277844	+	In_Frame_Del	DEL	TCT	TCT	-			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	CACTGGACAATCTTCTCCAACAT	0.35	15	16
NOTCH1	4851	broad.mit.edu;hgsc.bcm.edu	37	9	139391997	139391998	+	Frame_Shift_Del	DEL	AG	AG	-			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	GGCCAGAAACAGGGGTGTCTCC	0.683	17	14
NOTCH1	4851	broad.mit.edu;hgsc.bcm.edu	37	9	139395163	139395166	+	Frame_Shift_Del	DEL	GTCT	GTCT	-			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	CGCCCGTGCGGTCTGTCTGGTTGT	0.686	41	136
PHLPP2	23035	broad.mit.edu;hgsc.bcm.edu	37	16	71692597	71692599	+	In_Frame_Del	DEL	TGT	TGT	-	rs145938775		TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	AAAATGCTGATGTTGTTGGAGTG	0.458	25	133
PLIN4	729359	broad.mit.edu;hgsc.bcm.edu	37	19	4510914	4510916	+	In_Frame_Del	DEL	TGG	TGG	-			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	AGCACTGTCTTGGTGGTGTCCAG	0.626	22	28
NF1	4763	broad.mit.edu	37	17	29546036	29546037	+	Frame_Shift_Del	DEL	AG	AG	-			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	CCAAGAAAACAGGGGCCCGAAA	0.426	7	13
PIK3R1	5295	broad.mit.edu	37	5	67591105	67591107	+	In_Frame_Del	DEL	TAA	TAA	-			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	TGAACAGCATTAAACCAGACCTT	0.369	16	108
NF1	4763	broad.mit.edu	37	17	29652976	29652979	+	Frame_Shift_Del	DEL	TCTC	TCTC	-			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	AAACAGACTTTCTCTCTAAGTGGT	0.422	11	168
NF1	4763	broad.mit.edu	37	17	29553697	29553697	+	Nonsense_Mutation	SNP	C	C	A			TCGA-DU-6394-01A-11D-1705-08	TCGA-DU-6394-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	611b0bd5-fb3a-4c10-999c-e4b3f6980d0b	d7371b5d-ee62-450e-bc22-082b1de3911b	AATATGATGTCAACAGGTAAA	0.403	7	162
