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
SYT7	9066	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	61295549	61295549	+	Missense_Mutation	SNP	C	C	T	rs382505		TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	ATGATCTTCACGGTGAGCGTG	0.612	25	123
RAD52	5893	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	1023182	1023182	+	Nonsense_Mutation	SNP	A	A	T			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	GTTCAAGGCTAATGTGTCAGA	0.522	17	104
TMEM132B	114795	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	125900205	125900205	+	Missense_Mutation	SNP	G	G	A			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	ATGGGCCATCGCCCGGACACG	0.592	16	71
ITGAX	3687	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	31374553	31374553	+	Missense_Mutation	SNP	C	C	T			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	CGCTTTGGGGCGGCTCTGACA	0.617	43	232
MUC16	94025	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	9082770	9082770	+	Silent	SNP	A	A	G			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	TGCTGAAGAGAGTTGTGAGTT	0.493	26	98
CIC	23152	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	42791719	42791719	+	Missense_Mutation	SNP	G	G	A			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	CACATCCGGCGGCCCATGAAT	0.627	27	65
NR5A2	2494	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	200017321	200017321	+	Missense_Mutation	SNP	G	G	A			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	GACCGAATGCGTGGAGGAAGG	0.478	14	112
OR2G6	391211	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	248685210	248685210	+	Missense_Mutation	SNP	A	A	T			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	ATGAATAAGAAAGACAAAACC	0.517	40	98
TPTE	7179	hgsc.bcm.edu;broad.mit.edu	37	21	10941933	10941933	+	Missense_Mutation	SNP	T	T	C			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	ATAGAAAGACTGCCTTCCAGA	0.308	30	119
STON1	11037	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	48809142	48809142	+	Missense_Mutation	SNP	C	C	A			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	TGCTTTTTAACCTTGAATGAC	0.373	52	85
ARHGEF4	50649	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	131797917	131797917	+	Silent	SNP	C	C	A			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	TCGAGGACATCTACCGCTGCC	0.642	13	25
NEB	4703	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	152497171	152497171	+	Missense_Mutation	SNP	T	T	C			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	TAGCCTTCTTTGTACTTGAAC	0.403	73	85
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	ATAAGCATGACGACCTATGAT	0.393	30	28
TLR9	54106	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	52257400	52257400	+	Missense_Mutation	SNP	C	C	T	rs141692865	byFrequency	TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	GTCCAGCACTCGGAGGTTTCC	0.532	25	85
CXCL13	10563	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	78528958	78528958	+	Missense_Mutation	SNP	C	C	T	rs150188610	by1000genomes	TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	AATCTTGCCCCGTGGGAATGG	0.383	13	60
KIAA1109	84162	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	123166209	123166209	+	Nonsense_Mutation	SNP	C	C	T			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	TGCTAGTACCCGACATCCAGC	0.343	21	64
PCDHA5	56143	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	140201485	140201485	+	Missense_Mutation	SNP	C	C	A			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	AAACACGGAACCTTCGTTGGC	0.677	24	106
FAT2	2196	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	150946296	150946296	+	Missense_Mutation	SNP	G	G	A			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	CGGGCCAAGGGGGTGTTGATA	0.483	62	96
STEAP1	26872	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	89790617	89790617	+	Missense_Mutation	SNP	T	T	A			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	GTTGCTAAACTGGGCATATCA	0.363	5	37
KLF14	136259	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	130418098	130418098	+	Missense_Mutation	SNP	A	A	C			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	GGGCAGGAGAAGCGCTTCTCG	0.622	9	23
KDM5B	10765	broad.mit.edu;ucsc.edu	37	1	202719900	202719900	+	Nonsense_Mutation	SNP	G	G	A			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	TGATTAGTTCGGTAAACCTAA	0.358	40	40
JUP	3728	broad.mit.edu;ucsc.edu	37	17	39914694	39914694	+	Missense_Mutation	SNP	C	C	T			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	GATCTCCATGCGGTTCATGGG	0.622	35	65
RP11-248G5.8	0	broad.mit.edu;ucsc.edu	37	13	52742281	52742281	+	RNA	SNP	A	A	C			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	AAGGGCTCAGAGAACTGACCC	0.522	8	31
LRRC37A2	474170	broad.mit.edu;hgsc.bcm.edu	37	17	44630803	44630812	+	Frame_Shift_Del	DEL	AAGGATTCTC	AAGGATTCTC	-			TCGA-DB-A64P-01A-11D-A29Q-08	TCGA-DB-A64P-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5864a37b-dfec-475c-95f4-2426c8e2772c	0bb265d4-0ce6-4374-890c-3f9e096dab5e	GAAGATGAAGAAGGATTCTCAAGGTAAATA	0.395	22	89
