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
OR5M11	219487	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	56310051	56310051	+	Missense_Mutation	SNP	T	T	C			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	CTCTGCTGATTTGATCCGGAG	0.498	28	65
APLNR	187	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	57003704	57003704	+	Missense_Mutation	SNP	G	G	T			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	ATCCAGCACAGGGCAAAGGTC	0.612	7	73
SIPA1	6494	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	65408860	65408860	+	Silent	SNP	G	G	A			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	CTGCCAGCTCGGACCTGCTGC	0.667	33	93
USP44	84101	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	95914959	95914959	+	Nonsense_Mutation	SNP	G	G	A			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	ATCTTCTCTCGGTTATTACGT	0.423	20	60
PCNX	22990	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	71443880	71443880	+	Nonsense_Mutation	SNP	A	A	T			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	CTCTTATAGAAAAGACCACCG	0.493	19	61
THSD4	79875	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	72040864	72040864	+	Silent	SNP	G	G	A			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	AGCTCCGGCCGAATGACATTG	0.597	14	54
CDH8	1006	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	61891032	61891032	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	CCTGTTTCAGGCTCAATGGAA	0.393	28	47
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	7577094	7577094	+	Missense_Mutation	SNP	G	G	A	rs28934574		TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	TCTGTGCGCCGGTCTCTCCCA	0.557	44	14
ABCA4	24	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	94480119	94480119	+	Nonsense_Mutation	SNP	C	C	A			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	TCAAATAATTCCAAGATGAAG	0.438	35	175
FLG	2312	hgsc.bcm.edu;broad.mit.edu	37	1	152282080	152282080	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	AGACCCTGAACGTCCAGACCT	0.602	37	410
APOB	338	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	21228468	21228468	+	Missense_Mutation	SNP	C	C	A			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	CACGATGGAACCTGAAGATCT	0.388	30	147
FBXW7	55294	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	153244137	153244137	+	Missense_Mutation	SNP	G	G	A	rs140856583	byFrequency	TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	GCTCTGATCCGCCACACAACT	0.493	51	115
PCLO	27445	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	82583285	82583285	+	Silent	SNP	G	G	A			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	TTGTTCGTTCGGCCTCCAACT	0.413	22	147
EPHB4	2050	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	100421497	100421497	+	Silent	SNP	C	C	A			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	GCACGTCACACACTTCGTAGG	0.682	10	34
PI15	51050	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	75756325	75756325	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	CTATCTGTACGCACTGGAAGG	0.408	16	162
KCNQ3	3786	hgsc.bcm.edu;broad.mit.edu	37	8	133192522	133192522	+	Missense_Mutation	SNP	T	T	C			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	GGCCAGAACATTGCCTTGGTT	0.597	11	135
RFX2	5990	broad.mit.edu;ucsc.edu	37	19	6013017	6013017	+	Silent	SNP	C	C	T			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	GGTGCATGGGCTGCTGCCGCA	0.612	34	163
ITGB4	3691	broad.mit.edu;ucsc.edu	37	17	73736512	73736512	+	Silent	SNP	C	C	T			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	CTCGGGAGTGCGCCCAGCTGC	0.662	4	71
POLN	353497	broad.mit.edu;ucsc.edu	37	4	2073954	2073954	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	CCTGGCGGAGGGCCCCAGGCC	0.692	8	64
TUBB8P7	197331	broad.mit.edu;ucsc.edu	37	16	90160999	90160999	+	RNA	SNP	C	C	T			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	GGACTCCGTGCGCTCGGGGCC	0.687	21	128
ABCA4	24	broad.mit.edu;ucsc.edu	37	1	94480120	94480120	+	Missense_Mutation	SNP	C	C	A			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	CAAATAATTCCAAGATGAAGG	0.438	33	174
IDH1	3417	broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	ATAAGCATGACGACCTATGAT	0.393	5	40
LRIT2	340745	broad.mit.edu;hgsc.bcm.edu	37	10	85984831	85984832	+	Frame_Shift_Ins	INS	-	-	G			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	AAAGGTTCCCAGGGATCTTTCC	0.455	18	77
ATRX	546	broad.mit.edu;hgsc.bcm.edu	37	X	76939387	76939387	+	Frame_Shift_Del	DEL	T	T	-			TCGA-HT-A618-01A-11D-A29Q-08	TCGA-HT-A618-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	49fd71af-f8af-43dd-a5d6-caa20d4f82e4	193f9709-5167-4fb6-a1dd-b1c102d01e77	AATATCCTTCTTTTCCAAAGC	0.343	97	96
