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
CDH23	64072	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	73548698	73548698	+	Splice_Site	SNP	A	A	G			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	CCCTTGCAGGATTATGACTTG	0.547	17	31
APLNR	187	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	57003348	57003348	+	Silent	SNP	A	A	G			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	AGTCAACCACAAGGGTCTCCT	0.612	25	40
NADSYN1	55191	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	71166162	71166162	+	Missense_Mutation	SNP	A	A	G			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	ACAGGTATTGAAATTGCCAAA	0.438	22	53
RYR3	6263	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	33893721	33893721	+	Silent	SNP	C	C	G			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	GAAACCTACTCCTGCAGACAC	0.512	26	33
KIAA0556	23247	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	27786309	27786309	+	Silent	SNP	G	G	A			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	TGGAGGGTGTGGGCGGGGACG	0.627	16	87
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	7577121	7577121	+	Missense_Mutation	SNP	G	G	A	rs121913343		TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	GCACAAACACGCACCTCAAAG	0.542	12	14
VPS13D	55187	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	12461735	12461735	+	Silent	SNP	T	T	C			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	TAAGTTTCTTTGGCTACGATC	0.373	49	73
SF3A3	10946	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	38435137	38435137	+	Splice_Site	SNP	C	C	A			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	AGGGAATAGGCTAAAAAAGAA	0.418	15	34
COL9A2	1298	hgsc.bcm.edu;broad.mit.edu	37	1	40782860	40782860	+	Missense_Mutation	SNP	C	C	T			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	GAGGCCGTAGCGGCGGCCATG	0.701	11	5
KRTAP10-12	386685	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	21	46117134	46117134	+	Silent	SNP	C	C	T			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	TCTGCTCCAGCGACCTGAGCT	0.642	37	210
PCYOX1	51449	hgsc.bcm.edu;broad.mit.edu	37	2	70504434	70504434	+	Silent	SNP	C	C	T			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	CAGCCCACAACGCTGCACTCC	0.468	16	297
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	ATAAGCATGACGACCTATGAT	0.393	51	77
GRM7	2917	hgsc.bcm.edu;broad.mit.edu	37	3	7620372	7620372	+	Silent	SNP	T	T	C			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	GGGCTGTGATTCCTGTCTTCC	0.552	10	129
UBXN7	26043	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	196096372	196096372	+	Missense_Mutation	SNP	T	T	A			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	TTCCTCACTGTCATGATAAAC	0.363	14	57
PIK3R1	5295	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	67569270	67569270	+	Silent	SNP	G	G	A			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	ACATTGCCCCGCCTCTTCTTA	0.443	35	433
PIK3R1	5295	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	67591086	67591086	+	Missense_Mutation	SNP	A	A	G			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	CGAGAAATTGACAAACGTATG	0.358	27	104
CRHBP	1393	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	76264637	76264637	+	Missense_Mutation	SNP	G	G	A			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	TTTGAGTATCGTCAGCTGGAG	0.458	24	70
DEFB112	245915	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	50011409	50011409	+	Missense_Mutation	SNP	T	T	C			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	TCTTGCACAGTATGAAATCCT	0.433	39	86
TFAP2D	83741	hgsc.bcm.edu;broad.mit.edu	37	6	50696680	50696680	+	Missense_Mutation	SNP	G	G	A			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	GTAAAGAGGCGCCTCTCCCCA	0.473	7	115
BACH2	60468	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	90661005	90661005	+	Nonsense_Mutation	SNP	G	G	A			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	CTTTTAATCTGCCCCCTGGCA	0.532	51	64
SLC7A2	6542	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	17396342	17396342	+	Missense_Mutation	SNP	A	A	G			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	GAATGAAGATAGAAACAAGTG	0.388	20	77
RB1CC1	9821	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	53570054	53570054	+	Missense_Mutation	SNP	C	C	T			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	ACATTTGTATCCTGCATTCGT	0.403	37	111
ACOT9	23597	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	23748659	23748659	+	Missense_Mutation	SNP	G	G	T			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	AAGCTGTCAAGATCCTCAAGA	0.343	50	16
GPC4	2239	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	132458383	132458383	+	Silent	SNP	G	G	A			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	GCTCCAGGAGGCGAGCCCAGA	0.468	24	98
FMR1	2332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	147010283	147010283	+	Missense_Mutation	SNP	T	T	C			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	AAAGATACTTTCCATAAGATC	0.368	16	97
RARS2	57038	broad.mit.edu;ucsc.edu	37	6	88239302	88239302	+	Missense_Mutation	SNP	A	A	C			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	CAACTTTAAGACCTCTTGAGA	0.308	20	56
TP53	7157	broad.mit.edu;ucsc.edu	37	17	7578457	7578457	+	Missense_Mutation	SNP	C	C	T			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	GGCCATGGCGCGGACGCGGGT	0.627	51	72
TENM3	55714	broad.mit.edu;ucsc.edu	37	4	183609326	183609326	+	Silent	SNP	T	T	C			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	TAGAAATATGTTCTGTGGACT	0.527	67	114
PRKDC	5591	broad.mit.edu;ucsc.edu	37	8	48706915	48706915	+	Missense_Mutation	SNP	T	T	C			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	CTTTCGCTGCTTATGATGAAG	0.423	9	14
DEFB113	245927	broad.mit.edu;ucsc.edu	37	6	49936551	49936551	+	Missense_Mutation	SNP	C	C	T			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	CTTTTTCTCTCTGCAACTTCT	0.383	4	28
SLC9A2	6549	broad.mit.edu;ucsc.edu	37	2	103324661	103324661	+	Missense_Mutation	SNP	C	C	G			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	CTTGCCAGAACAGTTCTCCAA	0.537	29	147
MKRN1	23608	broad.mit.edu;hgsc.bcm.edu	37	7	140154921	140154922	+	Frame_Shift_Del	DEL	TC	TC	-	rs1062780		TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	GTTCCCACTTTCTGTCTCTGTG	0.485	80	186
ATRX	546	broad.mit.edu;hgsc.bcm.edu	37	X	76939473	76939474	+	Frame_Shift_Del	DEL	TT	TT	-			TCGA-FG-8188-01A-11D-2253-08	TCGA-FG-8188-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4fec960b-9288-453a-8c65-5b3e04b61550	c145c9e4-6e4d-4f21-a264-4bbb8a82930a	TATTTTTCTCTTTGTTTACAGC	0.361	79	35
