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
CHAT	1103	hgsc.bcm.edu;broad.mit.edu	37	10	50901834	50901834	+	Nonstop_Mutation	SNP	G	G	T			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	GTTGGCCATAGATGGACATGA	0.463	12	135
LGI1	9211	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	95557106	95557106	+	Missense_Mutation	SNP	G	G	A			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	AGTTCCCAGCGTCCTGTAATT	0.433	118	86
PAX6	5080	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	31815341	31815341	+	Missense_Mutation	SNP	A	A	G			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	CTTCGATTAGAAAACCATACC	0.522	78	7
AHNAK	79026	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	62287998	62287998	+	Missense_Mutation	SNP	C	C	A			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	ACTTTGGGGTCCCTGATGTCA	0.522	100	355
MMP19	4327	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	56233333	56233333	+	Missense_Mutation	SNP	C	C	T	rs138516871		TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	AAAGTGGGGCCGGTAGCCCTC	0.617	18	73
CMA1	1215	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	24976583	24976583	+	Missense_Mutation	SNP	G	G	A	rs13306251	by1000genomes	TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	ATGAGCAGCCGTCAGCACAAA	0.488	87	180
EIF2AK4	440275	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	40258023	40258023	+	Silent	SNP	G	G	A			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	AAAAAGAGAAGATTGATAAGT	0.443	38	122
OSGIN1	29948	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	83994303	83994303	+	Missense_Mutation	SNP	C	C	T			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	CTGGAAGCACCGGAAGGAGCA	0.657	21	116
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	7578550	7578550	+	Missense_Mutation	SNP	G	G	T			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	GAGGGCAGGGGAGTACTGTAG	0.552	45	0
ALKBH6	84964	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	36501795	36501795	+	Splice_Site	SNP	C	C	T			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	TGTGTGGTTACCATGATGCCC	0.592	37	104
RPS6KA1	6195	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	26898350	26898350	+	Missense_Mutation	SNP	G	G	T			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	GTGCTGAAGCGCCAGGGCTAC	0.627	31	38
GBP3	2635	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	89486247	89486247	+	Missense_Mutation	SNP	T	T	C			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	GTTCATCAGGTAGGATTTTCC	0.517	30	173
ABCB10	23456	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	229685030	229685030	+	Silent	SNP	C	C	G			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	CAGCACCACACAGAAACACGG	0.522	21	76
ETAA1	54465	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	67631847	67631847	+	Missense_Mutation	SNP	A	A	G			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	GGAGCCAAAAACATGTTTGCT	0.363	90	113
NAT8	9027	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	73868641	73868641	+	Missense_Mutation	SNP	G	G	C			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	GTTCGAGGCAGCTTCAGCAAT	0.622	67	237
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	ATAAGCATGACGACCTATGAT	0.393	115	89
KCNJ13	3769	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	233633140	233633140	+	Missense_Mutation	SNP	A	A	G			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	CTCCTTTGGCATATTTCTCCA	0.433	148	135
FYCO1	79443	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	46014621	46014621	+	Silent	SNP	C	C	T	rs149291592	byFrequency	TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	CAAAGCCCCTCGACGCCAGGT	0.483	26	82
EPHA3	2042	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	89448615	89448615	+	Nonsense_Mutation	SNP	G	G	T			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	GTTTGAGTTTGAAACTAGTCC	0.448	37	123
KIAA1407	57577	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	113761686	113761686	+	Silent	SNP	C	C	T			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	CATTGACCAGCTCCTGAGCTA	0.333	52	154
CNGA1	1259	hgsc.bcm.edu;broad.mit.edu	37	4	47938995	47938995	+	Missense_Mutation	SNP	T	T	A			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	TTCTTGCAAATATAATCTCCA	0.438	17	290
COL25A1	84570	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	109765700	109765700	+	Missense_Mutation	SNP	C	C	T			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	gccatggggacctggtgggcc	0.433	60	122
PKHD1	5314	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	51513908	51513908	+	Missense_Mutation	SNP	G	G	T			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	TACCAATTGTGGCTGCACTGG	0.413	91	194
PHF3	23469	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	64356551	64356551	+	Missense_Mutation	SNP	A	A	G			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	GAAGTCTGTGAGGATTTTAGT	0.393	49	151
RINT1	60561	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	105189063	105189063	+	Missense_Mutation	SNP	C	C	A			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	GCCTCCCCTTCTGTCATCCTG	0.443	103	389
STK3	6788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	99779474	99779474	+	Missense_Mutation	SNP	T	T	C			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	TTCATACCTGTCACATTGCTG	0.313	63	69
PLEC	5339	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	145007212	145007212	+	Missense_Mutation	SNP	C	C	T			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	GGGGCCGCCACGCCTGCCTTC	0.662	10	5
AKNA	80709	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	117139492	117139492	+	Missense_Mutation	SNP	T	T	C			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	CTCCAGGACCTTGCCGGGCTG	0.612	95	71
ATRX	546	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	76814313	76814313	+	Nonsense_Mutation	SNP	G	G	A			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	ATAAATAATCGTCCTCTGAAA	0.274	69	1
ALMS1	7840	broad.mit.edu;ucsc.edu	37	2	73718168	73718168	+	Missense_Mutation	SNP	T	T	G			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	CCCAAATCACTGTACATTAGC	0.378	67	204
PCSK5	5125	broad.mit.edu;ucsc.edu	37	9	78965754	78965754	+	Silent	SNP	G	G	A			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	GAAAAGGAGCGTTGAATTGTT	0.448	132	134
CSMD3	114788	broad.mit.edu;ucsc.edu	37	8	113988170	113988170	+	Missense_Mutation	SNP	T	T	C			TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	AGAGAGCCCGTCCTTGGACGT	0.478	72	269
DYNLL1	8655	broad.mit.edu;hgsc.bcm.edu	37	12	120935907	120935908	+	Frame_Shift_Ins	INS	-	-	TT	rs142458935	by1000genomes	TCGA-E1-5304-01A-01D-1468-08	TCGA-E1-5304-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6b925bf-a091-4254-ad24-d1581fa66cb1	81f4e278-bb3d-4621-886b-5e03e7205291	CCCACCTGGCATTGCATCGTGG	0.426	35	57
