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
NTF3	4908	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	5603654	5603654	+	Silent	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	GGACACCGAACTGCTGCGACA	0.632	30	38
PA2G4	5036	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	56504240	56504240	+	Silent	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	TGGATGTTCTCGTCAGCTCAG	0.403	29	38
FGF14	2259	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	13	103053948	103053948	+	Silent	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	GCTTAGACACCCTGAGAAAGA	0.413	22	55
OR11G2	390439	hgsc.bcm.edu;broad.mit.edu	37	14	20666311	20666311	+	Nonsense_Mutation	SNP	A	A	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	AGCTGGGAGAAGAAAGGCTTT	0.517	10	159
MYH6	4624	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	23855703	23855703	+	Missense_Mutation	SNP	G	G	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	TCCACCACCCGCTGGTGGTTG	0.592	53	112
PTPN21	11099	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	88938593	88938593	+	Missense_Mutation	SNP	T	T	C			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	CTCACCTTAATATGTGATGCG	0.373	23	19
MYO9A	4649	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	72122614	72122614	+	Silent	SNP	T	T	C			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	CAGGAGACGATGGACCTGGAT	0.468	42	35
LRRK1	79705	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	101555560	101555560	+	Missense_Mutation	SNP	T	T	G			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	ACGAAGCGTATTGCCTTTTTC	0.517	8	10
SLC35G6	643664	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	7385399	7385399	+	Silent	SNP	G	G	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	AGTGCTGCCAGCCCTCTGATG	0.662	29	44
USH1G	124590	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	72916252	72916252	+	Missense_Mutation	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	GTGCCTTCGCCGCCCTGCTTG	0.692	24	33
PPP4R1	9989	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	18	9549244	9549244	+	Silent	SNP	G	G	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	GCACTCGCACGTTAGGAACCC	0.478	61	67
SH2D2A	9047	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	156785835	156785835	+	Missense_Mutation	SNP	A	A	G			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	CCTGCGGGTCATGTCTGTGAT	0.612	13	10
C1orf106	0	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	200880752	200880752	+	Silent	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	CTGACGTCTCCAGCATCTCCC	0.667	58	87
OR1C1	26188	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	247921335	247921335	+	Missense_Mutation	SNP	G	G	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	GTGGCAAATCGCCACATATCT	0.502	26	19
CD93	22918	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	23065004	23065004	+	Missense_Mutation	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	CTTCGCTCTCCGCTTGCGATA	0.577	69	91
CHMP4B	128866	hgsc.bcm.edu;broad.mit.edu	37	20	32439895	32439895	+	Missense_Mutation	SNP	G	G	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	TGAGCTCATGGCGGAATTAGA	0.493	11	122
SON	6651	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	21	34921914	34921914	+	Missense_Mutation	SNP	A	A	G			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	aaagaaaaggaaaaaaaaTAT	0.303	13	17
LZTR1	8216	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	22	21348256	21348256	+	Missense_Mutation	SNP	G	G	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	GTCACAGCGCGGAGCCGCTGG	0.647	13	18
FBLN1	2192	hgsc.bcm.edu;broad.mit.edu	37	22	45931164	45931164	+	Missense_Mutation	SNP	C	C	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	CGCTGCCGACCCAAGCTACAG	0.483	23	42
CYP26B1	56603	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	72360210	72360210	+	Missense_Mutation	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	CGTGAACAGGCGCATGACCTC	0.677	17	20
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	ATAAGCATGACGACCTATGAT	0.393	24	43
SLC6A6	6533	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	14508027	14508027	+	Missense_Mutation	SNP	G	G	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	CTTGCAGGTCGTCTACTTCAC	0.602	30	44
ATP10D	57205	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	47556756	47556756	+	Missense_Mutation	SNP	T	T	C			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	ACAGACGTGGTACCAGACACC	0.363	29	34
CHD1	1105	hgsc.bcm.edu;broad.mit.edu	37	5	98207864	98207864	+	Missense_Mutation	SNP	A	A	G	rs150956514	by1000genomes	TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	GCCCCAGTCTATATCAAAATG	0.348	5	76
PHF15	23338	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	133914911	133914911	+	Silent	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	GGGAGATGAGCGACTCAGATG	0.617	28	30
PITX1	5307	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	134364859	134364859	+	Silent	SNP	G	G	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	GGCTCTTGGCGGCCCAGTTGT	0.632	16	45
CUL7	9820	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	43010826	43010826	+	Missense_Mutation	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	TTCTCCACCACGGCCCGCCAA	0.602	13	24
SYNE1	23345	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	152469200	152469200	+	Missense_Mutation	SNP	C	C	T	rs148008634	byFrequency	TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	AACAGCTCCCCGGAGGTAGAA	0.493	14	25
WIPI2	26100	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	5256279	5256279	+	Missense_Mutation	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	GAGACGCCTCCAAACCCTGCA	0.463	16	23
NPVF	64111	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	25266332	25266332	+	Missense_Mutation	SNP	G	G	C			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	TGAATGCATGGATCCTTGACA	0.468	62	95
HEPACAM2	253012	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	92825189	92825189	+	Nonsense_Mutation	SNP	G	G	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	CATATATTCCGAAGTCATCCA	0.383	30	45
PPP1R42	286187	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	67923054	67923054	+	Missense_Mutation	SNP	T	T	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	ATATTCAATATACAGAGGGAT	0.308	24	26
OSR2	116039	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	99962883	99962883	+	Splice_Site	SNP	G	G	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	TTGATTTTCAGATACATCCAT	0.358	6	8
KIAA0020	9933	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	2829886	2829886	+	Missense_Mutation	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	TTCCGCATGCCGCAGCATCTT	0.433	57	125
PTGES2	80142	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	130885212	130885212	+	Splice_Site	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	CACACACTTGCCTGCTCTTGA	0.642	17	22
HCCS	3052	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	11133053	11133053	+	Missense_Mutation	SNP	C	C	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	CGTGGAGTGTCCCATTAGGGG	0.498	44	61
GABRE	2564	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	151123361	151123361	+	Missense_Mutation	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	TCACAGCAGGCCAGCTTGGAG	0.617	21	22
ATP2B3	492	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	152845601	152845601	+	Missense_Mutation	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	GAACGAGGAGCGCCTCCGGGC	0.592	70	71
GLIS3	169792	broad.mit.edu;ucsc.edu	37	9	4286155	4286155	+	Missense_Mutation	SNP	G	G	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	CCATTGGTGAGCATTTGTCTC	0.562	33	50
GPR123	84435	broad.mit.edu;ucsc.edu	37	10	134898495	134898495	+	Silent	SNP	T	T	C			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	AACAGGAACGTATCCTCCGCC	0.532	48	74
AIFM2	84883	broad.mit.edu;ucsc.edu	37	10	71880314	71880314	+	Silent	SNP	C	C	T			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	CCACTCCAGCCGAGCCTCCTC	0.522	38	77
SLC6A19	340024	broad.mit.edu;hgsc.bcm.edu	37	5	1216915	1216915	+	Frame_Shift_Del	DEL	C	C	-			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	AACATCCTGACCCTCATCAAC	0.657	48	67
CIC	23152	hgsc.bcm.edu	37	19	42794103	42794103	+	Splice_Site	SNP	G	G	A			TCGA-DU-5874-01A-11D-1705-08	TCGA-DU-5874-10A-01D-1705-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	85d915b8-0184-4ec7-93ad-e9ffa2f5743b	0b75be09-bdd0-435e-84ad-0624c781a430	AGGGCAACAAGGTGAGGGCTT	0.592	6	0
