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
TMX2	51075	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	57480129	57480129	+	Silent	SNP	G	G	A			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	TCGTGTATTCGGTGCCGCGAC	0.627	7	40
THBS1	7057	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	39884880	39884880	+	Nonsense_Mutation	SNP	C	C	T			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	CAATGCCAACCAGGCTGACCA	0.502	18	36
SPINT1	6692	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	41146276	41146276	+	Missense_Mutation	SNP	G	G	A	rs138167951		TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	ATGGAAAGGCGCCATCCAGGT	0.592	52	126
ANKRD13B	124930	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	27939276	27939276	+	Missense_Mutation	SNP	T	T	G			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	GCCTCCTGGCTTCCCAGTTAA	0.622	32	86
ABCA9	10350	hgsc.bcm.edu;broad.mit.edu	37	17	66982397	66982397	+	Silent	SNP	C	C	T			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	TGGGCCACAGCGCATTCTCCT	0.547	8	119
DSG2	1829	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	18	29126141	29126141	+	Missense_Mutation	SNP	G	G	C			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	ATGGCTTCTAGAAATGTGATA	0.473	66	78
RTTN	25914	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	18	67695981	67695981	+	Silent	SNP	A	A	C			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	CATTTTGATAAAGACAGTTTC	0.308	5	20
PRODH2	58510	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	36293163	36293163	+	Silent	SNP	G	G	T			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	CCAGAGGAATGCCCAGCTCCC	0.542	13	148
KCNA7	3743	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	49573516	49573516	+	Missense_Mutation	SNP	A	A	G			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	GGAGACAATGACGGGCACTGG	0.567	26	43
PRR12	57479	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	50123629	50123629	+	Silent	SNP	C	C	T			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	ACCTGGGCGTCTGCTCAAAAC	0.567	7	16
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	179453926	179453926	+	Silent	SNP	A	A	G			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	CCGTAACTACATATTTACCCC	0.413	54	67
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	179579894	179579894	+	Silent	SNP	G	G	A			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	ACCAAGAAACGTGAAATGGGG	0.443	62	105
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	ATAAGCATGACGACCTATGAT	0.393	16	51
CCDC54	84692	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	107096617	107096617	+	Silent	SNP	C	C	T	rs144553244		TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	ATAGTTATGACGGAAAAATGA	0.363	29	85
CAPN11	11131	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	44143857	44143857	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	CTGGTGAGAGGGCACGCTTAC	0.557	8	28
MAGEB4	4115	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	30260295	30260295	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	CCGTGAGAAACGCCAGCGGAC	0.567	16	52
ATRX	546	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	76939697	76939697	+	Nonsense_Mutation	SNP	C	C	A			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	TTAATCATCTCTTTGGGCACA	0.353	39	71
RGAG1	57529	hgsc.bcm.edu;broad.mit.edu	37	X	109694050	109694050	+	Missense_Mutation	SNP	C	C	G			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	GATGACATCTCCAGTCTTTGA	0.517	26	316
MCF2	4168	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	138711938	138711938	+	Missense_Mutation	SNP	T	T	A			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	TCTCAGCCAGTTCAGTTCCAA	0.398	82	147
CD99L2	83692	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	149938823	149938823	+	Silent	SNP	G	G	A	rs147156476	byFrequency	TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	CTCCCTTCACGTAGTCTGCGT	0.537	20	39
HMGB3	3149	hgsc.bcm.edu;broad.mit.edu	37	X	150156360	150156360	+	Silent	SNP	G	G	A			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	aggaagaagaggaggaggagg	0.443	5	62
KIAA1324	57535	broad.mit.edu;ucsc.edu	37	1	109741239	109741239	+	Missense_Mutation	SNP	C	C	G			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	AGATCAACCACCATCCGCGTC	0.532	3	17
CCAR1	55749	broad.mit.edu;hgsc.bcm.edu	37	10	70513778	70513779	+	Frame_Shift_Ins	INS	-	-	A			TCGA-HT-A616-01A-11D-A29Q-08	TCGA-HT-A616-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5e41fcb0-82bf-4e09-99ba-ff6f56d6f18c	eb5310fc-1426-4b59-b41b-47302c259a6a	AGAGTCCTTAGAAAAAAATATG	0.381	32	69
