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
OPN4	94233	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	88418275	88418275	+	Silent	SNP	T	T	C			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	GAGCTCTCTTTGGCATTTCCT	0.617	18	44
OR52A5	390054	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	5153482	5153482	+	Missense_Mutation	SNP	G	G	T			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	TGTCTCAAGGGGATACAGATG	0.473	12	15
ANO1	55107	hgsc.bcm.edu;broad.mit.edu	37	11	69934117	69934117	+	Missense_Mutation	SNP	A	A	G			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	CACGAGGATGACAAGCGCTTC	0.672	4	17
TPTE2	93492	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	13	20025343	20025343	+	Missense_Mutation	SNP	T	T	C			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	TCGATGTTTCTTATCTAGAAA	0.363	9	27
CHMP1A	5119	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	89720317	89720317	+	Silent	SNP	A	A	G			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	CATACCTTCAACTGGAACAGG	0.502	36	73
EPG5	57724	hgsc.bcm.edu;broad.mit.edu	37	18	43505774	43505774	+	Missense_Mutation	SNP	T	T	C			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	CACTGTCAGGTTGTAATTCAA	0.403	6	57
ATP9A	10079	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	50314007	50314007	+	Missense_Mutation	SNP	T	T	G			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	TTAGAACTCTTCACCTTCACT	0.443	40	70
TMEM17	200728	hgsc.bcm.edu;broad.mit.edu	37	2	62729687	62729687	+	Splice_Site	SNP	T	T	C			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	GATTGAATACTAAAAGAAAAG	0.308	6	18
RPIA	22934	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	89037526	89037526	+	Silent	SNP	C	C	T			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	GGAATTTTATCTTGGACTGGA	0.433	19	40
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	ATAAGCATGACGACCTATGAT	0.393	14	21
ALPP	250	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	233245025	233245025	+	Missense_Mutation	SNP	C	C	T			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	GCTGGCGAAGCGCCAGGTGAT	0.667	25	193
SETMAR	6419	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	4355172	4355172	+	Silent	SNP	C	C	G			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	TTTTTGCAGCCAAAGATATTG	0.373	7	34
FLNB	2317	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	58120353	58120353	+	Missense_Mutation	SNP	G	G	A			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	TCCCTTCAAGGTCAAGGTCCT	0.488	17	133
FGF5	2250	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	81207567	81207567	+	Missense_Mutation	SNP	A	A	T			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	AGAACTGAAAAAACAGGGCGG	0.468	28	65
VCAN	1462	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	82833311	82833311	+	Missense_Mutation	SNP	G	G	C			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	TTCAGGTGGTGAGCCTGATGT	0.438	12	26
C6orf15	0	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	31079466	31079466	+	Missense_Mutation	SNP	C	C	T			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	CAACCAGTCCCAGGGCCTCCA	0.587	14	40
AMER1	139285	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	63412447	63412447	+	Silent	SNP	A	A	G			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	CTGGTGTTGGAGAAACTTTTG	0.537	28	97
PCDH19	57526	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	99662601	99662601	+	Missense_Mutation	SNP	A	A	G			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	GCTGACGGTGACCTTGCAGTG	0.602	20	53
BSG	682	broad.mit.edu;ucsc.edu	37	19	581456	581456	+	Missense_Mutation	SNP	G	G	A			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	CTCCGACCAGGCCATCATCAC	0.647	8	12
HSD3B7	80270	broad.mit.edu;ucsc.edu	37	16	30998231	30998231	+	Missense_Mutation	SNP	T	T	G			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	GGCCACCAGATCATGAGGGAC	0.662	13	46
TP53	7157	broad.mit.edu;hgsc.bcm.edu	37	17	7573991	7573992	+	Frame_Shift_Ins	INS	-	-	A			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	TCCAAGGCCTCATTCAGCTCTC	0.579	16	9
ATRX	546	broad.mit.edu;hgsc.bcm.edu	37	X	76918915	76918915	+	Frame_Shift_Del	DEL	T	T	-			TCGA-QH-A65S-01A-11D-A29Q-08	TCGA-QH-A65S-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05be7524-29b3-47c4-95bd-eecb53e97770	f3762aaf-0169-420b-93dd-2ebd5afe4412	CTCTTTAGGCTTTGTCTTTTT	0.383	17	28