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
PDCD4	27250	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	112641024	112641024	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	CTCTTTTCCGGTGATGAAGAA	0.318	25	139
BAG3	9531	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	121432114	121432114	+	Silent	SNP	G	G	A	rs147259596	byFrequency	TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	GGAGCAGCACGCCACTCCACT	0.657	8	82
OR4C15	81309	hgsc.bcm.edu;ucsc.edu	37	11	55322754	55322754	+	Silent	SNP	G	G	A	rs77547304	byFrequency	TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	ACAAAATGGCGGCAATATTTT	0.388	31	185
RAD51AP1	10635	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	4668029	4668029	+	Missense_Mutation	SNP	C	C	T	rs140432356	byFrequency	TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	TCAGCGGCATCTGGAGGTAGC	0.418	15	77
PA2G4	5036	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	56504773	56504773	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	GAAGAAGGCTCGGATGGGTGT	0.418	19	67
MAX	4149	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	65544747	65544747	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	GATTTGGGCCCGGGATGCCTG	0.498	22	70
HCN4	10021	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	73616140	73616140	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	GGTTGGGGTGGCAGAGGCAGC	0.647	14	81
ACAN	176	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	89400165	89400165	+	Missense_Mutation	SNP	G	G	T			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	GAGATCAGCGGGCTTCCTTCT	0.512	29	136
ZP2	7783	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	21214448	21214448	+	Missense_Mutation	SNP	A	A	G	rs142277591		TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	GTCTTTACCTATAGAAACGGG	0.418	12	54
PLEKHM1	9842	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	43545910	43545910	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	TGGCTCAGTCCGTTGGTTGGC	0.517	11	81
PHF13	148479	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	6681634	6681634	+	Silent	SNP	C	C	G			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	GCCGGGACTCCAAGTTTGACA	0.577	20	82
CLDN19	149461	hgsc.bcm.edu;broad.mit.edu	37	1	43204166	43204166	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	TCCCACCCGCGTACACTTCAT	0.637	4	53
C1orf106	0	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	200880683	200880683	+	Silent	SNP	C	C	T			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	CCTGCTTTCCCGCGACCAAGC	0.682	36	206
UGGT1	56886	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	128917277	128917277	+	Missense_Mutation	SNP	G	G	A	rs141470228	byFrequency	TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	AGCTGACATTGCGGAGTTCTC	0.567	19	79
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	ATAAGCATGACGACCTATGAT	0.393	20	129
PIK3CA	5290	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	178928079	178928079	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	TCATGGATTAGAAGATTTGCT	0.348	26	119
AHRR	57491	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	413500	413500	+	Silent	SNP	G	G	A			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	CAGAAGGGACGATATTTTATG	0.403	31	111
KIAA1191	57179	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	175779732	175779732	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	GGAGGGTAGACTGGCCTCTCC	0.527	13	45
GMPR	2766	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	16295259	16295259	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	TAAGACTGTGGAAGTTCCTTA	0.498	13	73
WDR27	253769	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	170052047	170052047	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	CGCATAACCAGATGACCTAAC	0.428	11	36
TRRAP	8295	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	98508712	98508712	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	CCAGATAGCAGGAAATGGACA	0.453	14	86
AOC1	26	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	150555011	150555011	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	CACTGGCTACGTCCACGCCAC	0.557	27	134
COL27A1	85301	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	117050747	117050747	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	GGAGCAGGGCGAGGACGGCAA	0.637	4	22
NLGN4X	57502	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	5811260	5811260	+	Silent	SNP	C	C	T			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	AGAGGAGCGACGCCCCGACGG	0.522	26	102
GABRA3	2556	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	151532994	151532994	+	Missense_Mutation	SNP	G	G	C			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	ATCAGGAAAAGAATCCCAAGG	0.453	35	139
OFD1	8481	broad.mit.edu;ucsc.edu	37	X	13786333	13786333	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	GACCAGGAGTCGGCAGATAAG	0.478	16	105
ING1	3621	broad.mit.edu;ucsc.edu	37	13	111372025	111372025	+	Nonsense_Mutation	SNP	C	C	T			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	CAAGGCGGAGCGAGAGGCGTC	0.627	14	42
HCFC1	3054	broad.mit.edu;ucsc.edu	37	X	153228837	153228837	+	Missense_Mutation	SNP	A	A	C			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	CCAGGCTACCACTCCAGAGCC	0.522	15	64
FRMPD4	9758	broad.mit.edu;ucsc.edu	37	X	12720061	12720061	+	Silent	SNP	C	C	T			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	TGCGGCTGGCCGCATTACAAA	0.507	36	138
POT1	25913	broad.mit.edu;ucsc.edu	37	7	124499166	124499166	+	Splice_Site	SNP	C	C	A			TCGA-HT-7607-01A-11D-2086-08	TCGA-HT-7607-10A-01D-2086-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7b3ce734-c2b6-4dc3-9c1c-6dfd5d3aa6b3	fc524be3-8c05-4dda-ab66-c466d0c2d64f	CCATCCCATACCTGCCATAAG	0.353	8	47
