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
TTC17	55761	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	43515339	43515339	+	Missense_Mutation	SNP	C	C	T			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	TTTGAAAAAGCACTGGTGTGG	0.463	62	177
NCAPD2	9918	hgsc.bcm.edu;broad.mit.edu	37	12	6635636	6635636	+	Silent	SNP	C	C	G			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	CAGACCCACTCTGGATCCCAT	0.552	9	127
TEP1	7011	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	20854643	20854643	+	Missense_Mutation	SNP	G	G	A			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	ACGCCCCAGCGGAGGTCGATT	0.657	8	47
PRMT5	10419	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	23395475	23395475	+	Missense_Mutation	SNP	T	T	C			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	AATGACATGATTAGATGGGAG	0.473	10	106
SERPINA3	12	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	95085593	95085593	+	Missense_Mutation	SNP	G	G	C			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	ACTTGAGCAAGAAAAAGTGGG	0.507	39	40
CCR7	1236	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	38711204	38711204	+	Silent	SNP	G	G	A			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	TGTAGGTGACGTCGTAGGCGA	0.567	12	100
KRT37	8688	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	39579137	39579137	+	Missense_Mutation	SNP	C	C	T			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	TTCTGCGTCCCGCACTTGTCC	0.627	32	147
MUC16	94025	hgsc.bcm.edu;broad.mit.edu	37	19	9075050	9075050	+	Silent	SNP	T	T	A			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	TGGTCTTCTCTGAGTATGTAA	0.517	10	118
DCAF8	50717	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	160209956	160209956	+	Missense_Mutation	SNP	C	C	A			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	GGAGTAATGACCAGTGTCCTC	0.537	8	21
CNTN2	6900	hgsc.bcm.edu;broad.mit.edu	37	1	205042816	205042816	+	Missense_Mutation	SNP	C	C	T			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	CATGGCAGTCCGCCCAGCACC	0.607	8	75
HCK	3055	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	30659555	30659555	+	Silent	SNP	C	C	T	rs112610391		TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	GTCCTGTGTACGTGCCGGATC	0.582	9	84
HIRA	7290	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	22	19365445	19365445	+	Missense_Mutation	SNP	C	C	G			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	CCACCACAGGCTCTGTGCAAG	0.582	86	161
APOB	338	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	21241933	21241933	+	Missense_Mutation	SNP	C	C	T	rs149357946	by1000genomes	TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	TCATAGGTTGCGCTGACAGAA	0.453	44	84
OTOF	9381	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	26688866	26688866	+	Missense_Mutation	SNP	G	G	A			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	TCCTTGTCGCGGATGTCAGTC	0.587	9	87
ABCG5	64240	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	44050052	44050052	+	Silent	SNP	G	G	A	rs139361486		TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	TCTCCTGGTCGCTGACAGCTC	0.567	15	27
SLC1A4	6509	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	65248050	65248050	+	Missense_Mutation	SNP	C	C	T			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	CACCAGGGACCGGACCACCAC	0.552	38	109
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113113	209113113	+	Missense_Mutation	SNP	G	G	A	rs121913499		TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	TAAGCATGACGACCTATGATG	0.398	19	60
CXCR2	3579	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	219000218	219000218	+	Missense_Mutation	SNP	G	G	A			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	GTTCTGCTACGGATTCACCCT	0.567	101	248
PLCD4	84812	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	219500985	219500985	+	Silent	SNP	G	G	C			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	CATACTGGGGGCAGACACTAT	0.418	82	183
IRS1	3667	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	227660233	227660233	+	Silent	SNP	C	C	T			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	TGAGGTTCACCCGGGTGAAGG	0.647	46	104
SENP2	59343	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	185316806	185316806	+	Missense_Mutation	SNP	A	A	G			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	CAACATGCTGAAACTGGGTGA	0.368	17	44
TP63	8626	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	189586404	189586404	+	Missense_Mutation	SNP	G	G	T	rs121908841		TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	TTTGAGGCCCGGATCTGTGCT	0.488	8	75
BOD1L1	259282	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	13602746	13602746	+	Silent	SNP	T	T	G			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	TATTTTCATTTGCATTCATGA	0.458	10	71
KLF3	51274	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	38690343	38690343	+	Silent	SNP	G	G	A			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	TGGACCTCACGGTGAACAAGC	0.567	9	81
PDZD2	23037	hgsc.bcm.edu;broad.mit.edu	37	5	32072325	32072325	+	Missense_Mutation	SNP	C	C	G			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	GTCCCTGGCCCCTTGTCAGAC	0.547	12	133
PCDHGA7	56108	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	140762775	140762775	+	Silent	SNP	G	G	A			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	CGCGGTGTCTGGTAAACTTTA	0.483	9	86
AUTS2	26053	hgsc.bcm.edu;broad.mit.edu	37	7	70227916	70227916	+	Missense_Mutation	SNP	T	T	C			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	GGGCCGATTGTCCCCAAGATA	0.537	21	311
ESRP1	54845	hgsc.bcm.edu;broad.mit.edu	37	8	95680362	95680362	+	Missense_Mutation	SNP	G	G	A			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	AACAGGGGACGCTTTTGTCCT	0.483	7	99
ELAVL2	1993	hgsc.bcm.edu;broad.mit.edu	37	9	23701564	23701564	+	Nonsense_Mutation	SNP	G	G	A			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	GCCTCAATTCGCTTGTCAAAT	0.443	10	137
SLC35F5	80255	broad.mit.edu;ucsc.edu	37	2	114480706	114480706	+	Missense_Mutation	SNP	A	A	G			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	GTCAGCTATTATGGACAGAGG	0.308	40	100
DNAH11	8701	broad.mit.edu;ucsc.edu	37	7	21640731	21640731	+	Missense_Mutation	SNP	T	T	C			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	AAAGTGAGCTTGTTAACCATA	0.353	12	38
RCBTB1	55213	broad.mit.edu;ucsc.edu	37	13	50134077	50134077	+	Missense_Mutation	SNP	T	T	C	rs147650879	byFrequency	TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	GCCAGAGCCATTGAATGATGT	0.413	54	130
TTC12	54970	broad.mit.edu;ucsc.edu	37	11	113211422	113211422	+	Missense_Mutation	SNP	T	T	A			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	CACAATGGATTTAGTATCATC	0.438	7	67
ZDHHC14	79683	broad.mit.edu;ucsc.edu	37	6	158066844	158066844	+	Silent	SNP	C	C	T			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	CCTACTTGATCAGCTCCAACC	0.527	6	24
GUCA1A	2978	broad.mit.edu;ucsc.edu	37	6	42146546	42146546	+	Missense_Mutation	SNP	C	C	T			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	CCAGGCCATTCGCGCCATTAA	0.582	35	386
TP53	7157	broad.mit.edu;hgsc.bcm.edu	37	17	7578213	7578213	+	Frame_Shift_Del	DEL	A	A	-			TCGA-P5-A5EZ-01A-11D-A27K-08	TCGA-P5-A5EZ-10A-01D-A27N-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a028455b-b422-4e51-ae03-779cfd854c13	b40a9126-a33f-4ad3-b610-5a6a51bcbd25	CACTATGTCGAAAAGTGTTTC	0.532	45	31
