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
HKDC1	80201	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	71007297	71007297	+	Missense_Mutation	SNP	C	C	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	GAAGGTGGAACGGCTCCGGAC	0.612	17	40
ACTA2	59	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	90708581	90708581	+	Missense_Mutation	SNP	A	A	G			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	ACGTCCCACAATGGATGGGAA	0.502	57	58
MEN1	4221	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	64573758	64573758	+	Missense_Mutation	SNP	C	C	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	CCGCACATTGCGGTTGCGACA	0.602	47	68
MTUS2	23281	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	13	29600879	29600879	+	Missense_Mutation	SNP	G	G	A			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	TCCCCACGAAGAGAAGGCAGC	0.587	16	21
AKAP6	9472	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	33293788	33293788	+	Missense_Mutation	SNP	G	G	A	rs140237441	byFrequency	TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	GGAAAGTTCCGGAAAACCAGG	0.438	27	35
JKAMP	51528	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	59970667	59970667	+	Silent	SNP	G	G	A			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	TTTCCAGAGTGGATAAACTTG	0.398	25	35
RYR3	6263	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	33822854	33822854	+	Missense_Mutation	SNP	C	C	G			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	CTGAGGCACTCTTTCAGCGGA	0.512	7	11
MFAP1	4236	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	44109449	44109449	+	Missense_Mutation	SNP	T	T	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	TCTTCACTAATACGGTTCTGT	0.398	33	65
FUBP1	8880	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	78422352	78422352	+	Nonsense_Mutation	SNP	C	C	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	ATAAGCAGCCCAAGCTGCTGA	0.458	23	6
TAGLN2	8407	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	159890149	159890149	+	Missense_Mutation	SNP	T	T	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	TTCTGGAAGTTCTCGCGTCCA	0.587	46	5
SULF2	55959	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	46305256	46305256	+	Silent	SNP	C	C	A			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	GCTGCTCACACGCCGTCTGGT	0.612	6	5
LSM14B	149986	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	60701373	60701373	+	Missense_Mutation	SNP	C	C	G			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	TCCCTGGGTTCTGCCTCCGCC	0.657	17	18
HELZ2	85441	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	62200696	62200696	+	Missense_Mutation	SNP	T	T	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	CACGTGGCGGTTGCCAGTGTG	0.697	6	8
TAF1B	9014	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	10016065	10016065	+	Missense_Mutation	SNP	A	A	G			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	AATCGTGAAGATGACCATGCC	0.413	54	70
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	ATAAGCATGACGACCTATGAT	0.393	19	39
PBRM1	55193	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	52621372	52621372	+	Silent	SNP	G	G	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	TTCTTACCTTGACAAACATGA	0.318	30	41
FSTL5	56884	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	162841556	162841556	+	Splice_Site	SNP	C	C	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	CTTCATTTACCTTTAAAGAAG	0.378	20	33
HSPA5	3309	hgsc.bcm.edu;broad.mit.edu	37	9	128001229	128001229	+	Silent	SNP	C	C	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	CCATGTTGAGCTCTTCAAATT	0.418	4	66
ANGPTL2	23452	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	129853996	129853996	+	Missense_Mutation	SNP	T	T	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	CTGCTTGCCGTTGTGCCATGT	0.537	114	132
MED14	9282	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	40572233	40572233	+	Silent	SNP	T	T	C			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	CAGGGTCATCTCCCATCACAG	0.383	15	6
PAX4	5078	broad.mit.edu;ucsc.edu	37	7	127255106	127255106	+	Missense_Mutation	SNP	C	C	T			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	GACACCTGTGCGGTAGTAACG	0.572	44	44
JKAMP	51528	broad.mit.edu;ucsc.edu	37	14	59970666	59970666	+	Missense_Mutation	SNP	T	T	A			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	ATTTCCAGAGTGGATAAACTT	0.398	24	33
PCDH10	57575	broad.mit.edu;hgsc.bcm.edu	37	4	134071550	134071553	+	Frame_Shift_Del	DEL	CAAA	CAAA	-			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	AACAAATCTGCAAACAGAGCCCCT	0.549	30	71
PIK3R1	5295	broad.mit.edu;hgsc.bcm.edu	37	5	67589586	67589591	+	In_Frame_Del	DEL	ATGAAT	ATGAAT	-	rs17852841		TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	AAAAAATTACATGAATATAACACTCA	0.277	21	27
CIC	23152	broad.mit.edu;hgsc.bcm.edu	37	19	42798786	42798787	+	Frame_Shift_Ins	INS	-	-	A			TCGA-CS-5394-01A-01D-1468-08	TCGA-CS-5394-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e67f766-3799-4ce1-8c9c-d966d96302bf	ed3dfb55-5905-4bb2-a497-276c2d8b43d2	CTTGGGGAGCTAGAGTATGACA	0.644	25	14
