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	COSMIC_Codon	COSMIC_Gene	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	COSMIC_Gene_Freq	COSMIC_Site_Freq	dbSNP_AF	Algorithm
EIF4G3	8672	hgsc.bcm.edu	hg19	1	21231426	21231426	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	EIF4G3	NM_001198802	exon13	c.C1552T	p.P518S	CTTTTGGTTTCTT	.	393.0	144.0	372.0	0.0	.	300	.	.	Atlas-SNP
CYP4A22	284541	hgsc.bcm.edu	hg19	1	47610101	47610101	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	CYP4A22	NM_001010969	exon7	c.A863G	p.H288R	AGAGGCACTTGGA	.	435.0	176.0	325.0	1.0	.	60	.	.	Atlas-SNP
PTGER3	5733	hgsc.bcm.edu	hg19	1	71512812	71512812	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	PTGER3	NM_001126044	exon1	c.C449T	p.A150V	GCCATGGCGCTGG	.	51.0	24.0	24.0	0.0	.	246	.	.	Atlas-SNP
STXBP3	6814	hgsc.bcm.edu	hg19	1	109340799	109340799	+	Silent	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	STXBP3	NM_007269	exon16	c.G1389T	p.R463R	GGATCGGTCTGCA	.	598.0	245.0	536.0	1.0	.	44	.	.	Atlas-SNP
SYT6	148281	hgsc.bcm.edu	hg19	1	114646254	114646254	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	SYT6	NM_205848	exon4	c.C906A	p.N302K	CTTGAGGTTCCGA	.	83.0	39.0	76.0	0.0	.	66	.	.	Atlas-SNP
NUP210L	91181	hgsc.bcm.edu	hg19	1	154033436	154033436	+	Silent	SNP	A	A	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	NUP210L	NM_001159484	exon19	c.T2730C	p.Y910Y	GTGGTTATAGATG	.	324.0	118.0	262.0	0.0	.	181	.	.	Atlas-SNP
PMVK	10654	hgsc.bcm.edu	hg19	1	154904884	154904884	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	PMVK	NM_006556	exon2	c.G103C	p.A35P	CATCAGCTCCAAG	.	259.0	14.0	179.0	0.0	.	17	.	.	Atlas-SNP
MNDA	4332	hgsc.bcm.edu	hg19	1	158817665	158817665	+	Missense_Mutation	SNP	C	C	A	rs139902913	alternate_allele	TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	MNDA	NM_002432	exon6	c.C1135A	p.R379S	GTTGACCGCAAGC	.	145.0	58.0	127.0	0.0	.	147	.	C|1.000;T|0.000	Atlas-SNP
TBX19	9095	hgsc.bcm.edu	hg19	1	168262484	168262484	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	TBX19	NM_005149	exon3	c.T571C	p.F191L	ACCCAGTTCATAG	.	126.0	52.0	67.0	0.0	.	68	.	.	Atlas-SNP
TDRD5	163589	hgsc.bcm.edu	hg19	1	179603595	179603595	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	TDRD5	NM_173533	exon8	c.A1130T	p.Q377L	TAGTTCAGTCAGA	.	183.0	73.0	183.0	0.0	.	149	.	.	Atlas-SNP
KIF26B	55083	hgsc.bcm.edu	hg19	1	245847619	245847619	+	Silent	SNP	G	G	A	rs201075952		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	KIF26B	NM_018012	exon11	c.G2343A	p.A781A	GGCCGCGGTCGGG	.	124.0	42.0	68.0	0.0	.	343	.	G|0.999;A|0.001	Atlas-SNP
SCCPDH	51097	hgsc.bcm.edu	hg19	1	246923373	246923373	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	SCCPDH	NM_016002	exon8	c.A928T	p.I310L	CTTCTCATAAAAG	.	934.0	323.0	854.0	1.0	.	37	.	.	Atlas-SNP
TET3	200424	hgsc.bcm.edu	hg19	2	74327943	74327943	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	TET3	NM_144993	exon9	c.A3623T	p.Q1208L	CCAGCCAGGCTGT	.	69.0	27.0	46.0	0.0	.	101	.	.	Atlas-SNP
NR4A2	4929	hgsc.bcm.edu	hg19	2	157186659	157186659	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	NR4A2	NM_006186	exon3	c.G40A	p.G14R	TGGCTCCTTGAGG	.	147.0	38.0	122.0	0.0	.	82	.	.	Atlas-SNP
HOXD4	3233	hgsc.bcm.edu	hg19	2	177017653	177017653	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	HOXD4	NM_014621	exon2	c.G751C	p.D251H	CACACGGACCTGA	.	138.0	52.0	86.0	0.0	.	32	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179419703	179419703	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	TTN	NM_001267550	exon331	c.C88483T	p.L29495F	ATGCGAGGTCCGT	.	198.0	79.0	150.0	0.0	.	18412	.	.	Atlas-SNP
NCL	4691	hgsc.bcm.edu	hg19	2	232325414	232325414	+	Missense_Mutation	SNP	T	T	A	rs199689485	bycluster	TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	NCL	NM_005381	exon4	c.A777T	p.E259D	ATCATCTTCATCA	.	432.0	44.0	350.0	0.0	.	80	.	.	Atlas-SNP
TTC21A	199223	hgsc.bcm.edu	hg19	3	39171742	39171742	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	TTC21A	NM_145755	exon17	c.G2233T	p.E745X	CAGCCCGAGAAGG	.	63.0	42.0	77.0	0.0	.	96	.	.	Atlas-SNP
ZIC4	84107	hgsc.bcm.edu	hg19	3	147120535	147120535	+	Missense_Mutation	SNP	C	C	G	rs148365070	bycluster;by1000genomes;alternate_allele	TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	ZIC4_ENST00000525172,NS,carcinoma,0,4	ZIC4	NM_001168378	exon2	c.G200C	p.R67P	GTGTTTCGGTAAA	.	191.0	65.0	181.0	0.0	.	174	.	C|0.999;T|0.001	Atlas-SNP
ABCC5	10057	hgsc.bcm.edu	hg19	3	183667834	183667834	+	Silent	SNP	T	T	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	ABCC5	NM_005688	exon21	c.A3024T	p.A1008A	GACTCCTGCGATC	.	143.0	45.0	105.0	0.0	.	142	.	.	Atlas-SNP
CEP135	9662	hgsc.bcm.edu	hg19	4	56846403	56846403	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	CEP135	NM_025009	exon12	c.A1568T	p.Q523L	ATATACAGTCCAA	.	432.0	168.0	502.0	0.0	.	115	.	.	Atlas-SNP
KIAA1109	84162	hgsc.bcm.edu	hg19	4	123274094	123274094	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	KIAA1109	NM_015312	exon79	c.G13885A	p.V4629I	CCTGGAGTATTGA	.	152.0	52.0	121.0	0.0	.	424	.	.	Atlas-SNP
GRIA2	2891	hgsc.bcm.edu	hg19	4	158262498	158262498	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	GRIA2	NM_000826	exon12	c.G1927A	p.A643T	TTAGCTGCCTTCC	.	608.0	231.0	639.0	1.0	.	358	.	.	Atlas-SNP
GRIA2	2891	hgsc.bcm.edu	hg19	4	158262499	158262499	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	GRIA2	NM_000826	exon12	c.C1928A	p.A643D	TAGCTGCCTTCCT	.	600.0	227.0	634.0	2.0	.	358	.	.	Atlas-SNP
SLC1A3	6507	hgsc.bcm.edu	hg19	5	36684073	36684073	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	SLC1A3	NM_004172	exon9	c.C1397T	p.T466M	ACATCACGCTCAT	.	383.0	87.0	173.0	0.0	.	88	.	.	Atlas-SNP
EGFLAM	133584	hgsc.bcm.edu	hg19	5	38427282	38427282	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	EGFLAM	NM_001205301	exon14	c.T1982A	p.F661Y	AAGACTTCCTGTC	.	165.0	43.0	104.0	0.0	.	302	.	.	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	hg19	5	89910835	89910835	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	GPR98	NM_032119	exon2	c.C206A	p.S69X	TTGTATCGGTAAG	.	109.0	63.0	227.0	0.0	.	605	.	.	Atlas-SNP
RNF182	221687	hgsc.bcm.edu	hg19	6	13977395	13977395	+	Silent	SNP	T	T	C	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	RNF182	NM_001165032	exon4	c.T45C	p.S15S	GGCCTCTGATGAG	.	193.0	85.0	113.0	0.0	.	51	.	.	Atlas-SNP
FILIP1	27145	hgsc.bcm.edu	hg19	6	76024218	76024218	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	FILIP1	NM_015687	exon5	c.A1330T	p.K444X	TACTCTTGCTAAA	.	662.0	328.0	457.0	1.0	.	173	.	.	Atlas-SNP
CITED2	10370	hgsc.bcm.edu	hg19	6	139694674	139694674	+	Silent	SNP	C	C	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	CITED2	NM_001168389	exon2	c.G423A	p.P141P	CAAATCCGGCATG	.	288.0	141.0	154.0	0.0	.	16	.	.	Atlas-SNP
CITED2	10370	hgsc.bcm.edu	hg19	6	139694675	139694675	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	CITED2	NM_001168389	exon2	c.C422A	p.P141Q	AAATCCGGCATGT	.	291.0	145.0	154.0	0.0	.	16	.	.	Atlas-SNP
SASH1	23328	hgsc.bcm.edu	hg19	6	148867236	148867236	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	SASH1	NM_015278	exon19	c.T3434A	p.M1145K	CCAACATGGACCA	.	104.0	51.0	57.0	0.0	.	123	.	.	Atlas-SNP
NOX3	50508	hgsc.bcm.edu	hg19	6	155718096	155718096	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	NOX3	NM_015718	exon13	c.C1581A	p.S527R	ACTGCTGCTGCAG	.	159.0	38.0	77.0	0.0	.	93	.	.	Atlas-SNP
IGF2R	3482	hgsc.bcm.edu	hg19	6	160454027	160454027	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	IGF2R	NM_000876	exon9	c.G1099T	p.G367X	GTCTGTGGAGAAA	.	197.0	59.0	143.0	0.0	.	251	.	.	Atlas-SNP
PDE10A	10846	hgsc.bcm.edu	hg19	6	165846593	165846593	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	PDE10A	NM_001130690	exon7	c.G562C	p.G188R	CCAGTCCAGTACC	.	323.0	84.0	231.0	0.0	.	154	.	.	Atlas-SNP
AOAH	313	hgsc.bcm.edu	hg19	7	36633945	36633945	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	AOAH	NM_001637	exon12	c.G938A	p.G313E	ACTTACCCAACAG	.	213.0	12.0	146.0	0.0	.	79	.	.	Atlas-SNP
TPST1	8460	hgsc.bcm.edu	hg19	7	65751568	65751568	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	TPST1	NM_003596	exon3	c.A916G	p.I306V	GGGAAGATACCGC	.	147.0	68.0	139.0	0.0	.	25	.	.	Atlas-SNP
CALN1	83698	hgsc.bcm.edu	hg19	7	71571275	71571275	+	Silent	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	CALN1	NM_031468	exon4	c.C249A	p.I83I	CTCTCGGATTTCT	.	56.0	20.0	45.0	0.0	.	92	.	.	Atlas-SNP
YWHAG	7532	hgsc.bcm.edu	hg19	7	75959524	75959524	+	Silent	SNP	C	C	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	YWHAG	NM_012479	exon2	c.G114C	p.S38S	CTCATTCGACAGT	.	56.0	27.0	36.0	0.0	.	24	.	.	Atlas-SNP
MCM7	4176	hgsc.bcm.edu	hg19	7	99693701	99693701	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	MCM7	NM_005916	exon11	c.G1291T	p.G431C	CCCCACCCTCTAA	.	94.0	35.0	69.0	0.0	.	136	.	.	Atlas-SNP
FGF20	26281	hgsc.bcm.edu	hg19	8	16853235	16853235	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	FGF20	NM_019851	exon2	c.C319A	p.L107M	TGACCAGTCCCAC	.	103.0	56.0	152.0	0.0	.	16	.	.	Atlas-SNP
PPP2R4	5524	hgsc.bcm.edu	hg19	9	131909700	131909700	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	PPP2R4	NM_178001	exon11	c.A1034G	p.K345R	ACTTCAAGTTCGG	.	87.0	44.0	43.0	0.0	.	32	.	.	Atlas-SNP
MASTL	84930	hgsc.bcm.edu	hg19	10	27459791	27459791	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	MASTL	NM_032844	exon8	c.A1903T	p.M635L	CAAAAAATGTTAG	.	139.0	49.0	110.0	0.0	.	81	.	.	Atlas-SNP
ERCC6	2074	hgsc.bcm.edu	hg19	10	50732464	50732464	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	ERCC6	NM_000124	exon5	c.A1012T	p.K338X	AAGCCCTCTTCTG	.	985.0	364.0	736.0	2.0	.	162	.	.	Atlas-SNP
PDE3B	5140	hgsc.bcm.edu	hg19	11	14665851	14665851	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	PDE3B	NM_000922	exon1	c.G230T	p.R77L	TCTGCCGGGCGCG	.	17.0	11.0	0.0	0.0	.	98	.	.	Atlas-SNP
OR10V1	390201	hgsc.bcm.edu	hg19	11	59481145	59481145	+	Silent	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	OR10V1	NM_001005324	exon1	c.C174A	p.P58P	GTACATGGGGGTG	.	231.0	10.0	167.0	0.0	.	40	.	.	Atlas-SNP
B4GALNT3	283358	hgsc.bcm.edu	hg19	12	668557	668557	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	B4GALNT3	NM_173593	exon19	c.G2858A	p.W953X	ACCGCTGGGGCGG	.	93.0	34.0	69.0	0.0	.	64	.	.	Atlas-SNP
KRT78	196374	hgsc.bcm.edu	hg19	12	53237937	53237937	+	Silent	SNP	G	G	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	KRT78	NM_173352	exon6	c.C987T	p.I329I	CTGAGAGATCTGG	.	402.0	152.0	289.0	0.0	.	41	.	.	Atlas-SNP
OR6C75	390323	hgsc.bcm.edu	hg19	12	55759521	55759521	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	OR6C75	NM_001005497	exon1	c.G627T	p.L209F	CACCTTGACATTA	.	466.0	174.0	406.0	1.0	.	67	.	.	Atlas-SNP
KL	9365	hgsc.bcm.edu	hg19	13	33638123	33638123	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	KL	NM_004795	exon5	c.A2839G	p.I947V	AGGAAAATTATTG	.	225.0	51.0	322.0	0.0	.	106	.	.	Atlas-SNP
MAB21L1	4081	hgsc.bcm.edu	hg19	13	36050192	36050192	+	Silent	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	MAB21L1	NM_005584	exon1	c.C84A	p.A28A	AGTTTTGGCAATG	.	56.0	35.0	82.0	0.0	.	52	.	.	Atlas-SNP
MAB21L1	4081	hgsc.bcm.edu	hg19	13	36050193	36050193	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	MAB21L1	NM_005584	exon1	c.C83A	p.A28D	GTTTTGGCAATGG	.	56.0	34.0	82.0	0.0	.	52	.	.	Atlas-SNP
NALCN	259232	hgsc.bcm.edu	hg19	13	101717813	101717813	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	NALCN	NM_052867	exon40	c.G4547A	p.C1516Y	TCGTAGCACATGT	.	130.0	42.0	64.0	0.0	.	431	.	.	Atlas-SNP
KLHL33	123103	hgsc.bcm.edu	hg19	14	20897958	20897958	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	KLHL33	NM_001109997	exon2	c.C877A	p.L293I	ACCTGAGAGTTGA	.	76.0	24.0	66.0	0.0	.	37	.	.	Atlas-SNP
CHD8	57680	hgsc.bcm.edu	hg19	14	21878045	21878045	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	CHD8	NM_001170629	exon10	c.C2329T	p.R777W	GAATCCGTTTAAA	.	311.0	30.0	331.0	0.0	.	339	.	.	Atlas-SNP
ITPK1	3705	hgsc.bcm.edu	hg19	14	93483123	93483123	+	Silent	SNP	C	C	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	ITPK1	NM_001142593	exon4	c.G144A	p.E48E	CTGCTCCTCGATC	.	71.0	34.0	47.0	0.0	.	53	.	.	Atlas-SNP
UNC79	57578	hgsc.bcm.edu	hg19	14	94088075	94088075	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	UNC79	NM_020818	exon30	c.A3965G	p.Q1322R	TCAAACAAAAATC	.	182.0	63.0	149.0	0.0	.	366	.	.	Atlas-SNP
OR4F15	390649	hgsc.bcm.edu	hg19	15	102359072	102359072	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	OR4F15	NM_001001674	exon1	c.A683T	p.H228L	GGAAACATTCTTC	.	989.0	257.0	611.0	0.0	.	42	.	.	Atlas-SNP
PDXDC1	23042	hgsc.bcm.edu	hg19	16	15126797	15126797	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	PDXDC1	NM_015027	exon18	c.A1651T	p.K551X	CTGAAGAAGTTAA	.	138.0	52.0	124.0	0.0	.	59	.	.	Atlas-SNP
LAT	27040	hgsc.bcm.edu	hg19	16	29001267	29001267	+	Silent	SNP	C	C	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	LAT	NM_001014989	exon12	c.C744A	p.S248S	GAGTTCCCAGGAG	.	161.0	53.0	95.0	0.0	.	22	.	.	Atlas-SNP
MYLK3	91807	hgsc.bcm.edu	hg19	16	46766546	46766546	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	MYLK3	NM_182493	exon4	c.G1036A	p.G346R	TCTCCCCAGGAGT	.	18.0	14.0	8.0	0.0	.	82	.	.	Atlas-SNP
DVL2	1856	hgsc.bcm.edu	hg19	17	7129551	7129551	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	DVL2	NM_004422	exon15	c.A1844C	p.K615T	CCGGACTTGGACT	.	25.0	14.0	14.0	0.0	.	49	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7577107	7577107	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	TP53_ENST00000455263,NS,carcinoma,-1,2	TP53	NM_000546	exon8	c.T831A	p.C277X	CCCAGGACAGGCA	.	65.0	47.0	87.0	0.0	.	33396	.	.	Atlas-SNP
CRLF3	51379	hgsc.bcm.edu	hg19	17	29119458	29119458	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	CRLF3	NM_015986	exon6	c.G959A	p.R320K	ACTTGCCTGAATG	.	131.0	46.0	116.0	0.0	.	36	.	.	Atlas-SNP
KRT28	162605	hgsc.bcm.edu	hg19	17	38955214	38955214	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	KRT28	NM_181535	exon2	c.T488C	p.L163P	ATCTGCAGAATGA	.	783.0	217.0	595.0	0.0	.	65	.	.	Atlas-SNP
MPP2	4355	hgsc.bcm.edu	hg19	17	41958848	41958848	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	MPP2	NM_005374	exon7	c.A791C	p.Q264P	TCATCCTGGTTTA	.	105.0	30.0	55.0	0.0	.	67	.	.	Atlas-SNP
HOXB9	3219	hgsc.bcm.edu	hg19	17	46703431	46703431	+	Silent	SNP	G	G	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	HOXB9	NM_024017	exon1	c.C201T	p.S67S	GTGCGGGCTCAGC	.	15.0	10.0	2.0	0.0	.	19	.	.	Atlas-SNP
CLTC	1213	hgsc.bcm.edu	hg19	17	57759022	57759022	+	Silent	SNP	T	T	C	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	CLTC	NM_004859	exon21	c.T3264C	p.H1088H	TGAGCATATTGGA	.	179.0	93.0	147.0	0.0	.	124	.	.	Atlas-SNP
KIF19	124602	hgsc.bcm.edu	hg19	17	72343926	72343926	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	KIF19	NM_153209	exon9	c.G935A	p.G312E	CTCTGGGAGGAAA	.	50.0	13.0	26.0	0.0	.	102	.	.	Atlas-SNP
FASN	2194	hgsc.bcm.edu	hg19	17	80039104	80039104	+	Silent	SNP	G	G	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	FASN	NM_004104	exon38	c.C6531T	p.R2177R	CACCTCGCGCACG	.	113.0	68.0	43.0	0.0	.	154	.	.	Atlas-SNP
MPPE1	65258	hgsc.bcm.edu	hg19	18	11889442	11889442	+	Silent	SNP	T	T	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	MPPE1	NM_001242904	exon4	c.A438T	p.P146P	ATGACTTGGGTGT	.	203.0	50.0	135.0	0.0	.	21	.	.	Atlas-SNP
SYT4	6860	hgsc.bcm.edu	hg19	18	40854035	40854035	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	SYT4	NM_020783	exon2	c.A359T	p.N120I	GTTGCATTCTCCA	.	329.0	105.0	207.0	0.0	.	162	.	.	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	hg19	19	1051263	1051263	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	ABCA7	NM_019112	exon20	c.A2794T	p.K932X	GTCTCCAAGCAGA	.	85.0	27.0	53.0	0.0	.	174	.	.	Atlas-SNP
KHSRP	8570	hgsc.bcm.edu	hg19	19	6416830	6416830	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	KHSRP	NM_003685	exon13	c.G1246A	p.G416S	CTTGGCCTCTTCC	.	34.0	14.0	31.0	0.0	.	51	.	.	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9045799	9045799	+	Silent	SNP	G	G	C	rs375775766	alternate_allele	TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	MUC16	NM_024690	exon5	c.C35832G	p.T11944T	TATCAAGGTCATA	.	455.0	148.0	313.0	0.0	.	4315	.	.	Atlas-SNP
ABHD8	79575	hgsc.bcm.edu	hg19	19	17412326	17412326	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	ABHD8	NM_024527	exon2	c.A100T	p.T34S	CAAAGGTGTAGCC	.	49.0	23.0	26.0	0.0	.	26	.	.	Atlas-SNP
ZNF681	148213	hgsc.bcm.edu	hg19	19	23927768	23927768	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	ZNF681	NM_138286	exon4	c.T584A	p.V195E	AAATTTACTCTAG	.	202.0	77.0	280.0	0.0	.	76	.	.	Atlas-SNP
ZNF230	7773	hgsc.bcm.edu	hg19	19	44514563	44514563	+	Silent	SNP	C	C	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	ZNF230	NM_006300	exon5	c.C372G	p.S124S	CCCCTCCCAGGTT	.	134.0	95.0	193.0	0.0	.	44	.	.	Atlas-SNP
PPP1R12C	54776	hgsc.bcm.edu	hg19	19	55606963	55606963	+	Silent	SNP	T	T	C	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	PPP1R12C	NM_017607	exon10	c.A1236G	p.E412E	GGCCTCTTCAAGC	.	54.0	18.0	25.0	0.0	.	46	.	.	Atlas-SNP
PTPRH	5794	hgsc.bcm.edu	hg19	19	55716907	55716907	+	Missense_Mutation	SNP	C	C	A	rs144055741	bycluster;alternate_allele	TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	PTPRH	NM_002842	exon4	c.G406T	p.A136S	TCAGGGCGATGGA	.	396.0	156.0	255.0	0.0	.	139	.	C|1.000;T|0.000	Atlas-SNP
SIGLEC1	6614	hgsc.bcm.edu	hg19	20	3669214	3669214	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	SIGLEC1	NM_023068	exon21	c.T5123A	p.L1708Q	CAGCCCAGGGGTG	.	107.0	44.0	81.0	0.0	.	210	.	.	Atlas-SNP
ELMO2	63916	hgsc.bcm.edu	hg19	20	45004003	45004003	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	ELMO2	NM_182764	exon12	c.A937G	p.R313G	TGTCCCTTTGAGC	.	206.0	76.0	152.0	0.0	.	51	.	.	Atlas-SNP
NPBWR2	2832	hgsc.bcm.edu	hg19	20	62737266	62737266	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	NPBWR2	NM_005286	exon1	c.G919A	p.A307T	AGTTGGCGTAGCT	.	73.0	28.0	71.0	0.0	.	36	.	.	Atlas-SNP
DNAJC28	54943	hgsc.bcm.edu	hg19	21	34860757	34860757	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	DNAJC28	NM_001040192	exon2	c.A944T	p.N315I	ATTAAATTAAAAT	.	535.0	37.0	402.0	0.0	.	47	.	.	Atlas-SNP
ST13	6767	hgsc.bcm.edu	hg19	22	41223190	41223190	+	Missense_Mutation	SNP	C	C	A	rs710193	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes;alternate_allele	TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	ST13	NM_003932	exon11	c.G891T	p.M297I	TCCAGGCATTCCT	.	49.0	20.0	39.0	0.0	.	16	.	C|0.940;T|0.060	Atlas-SNP
ZC3H7B	23264	hgsc.bcm.edu	hg19	22	41739420	41739420	+	Silent	SNP	C	C	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	ZC3H7B	NM_017590	exon13	c.C1299T	p.G433G	CATAGGCCCCCGG	.	108.0	36.0	50.0	0.0	.	82	.	.	Atlas-SNP
ARAF	369	hgsc.bcm.edu	hg19	X	47428285	47428285	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	ARAF	NM_001256196	exon11	c.G1254T	p.Q418H	TGCCCAGGGCATG	.	106.0	84.0	62.0	0.0	.	67	.	.	Atlas-SNP
OPHN1	4983	hgsc.bcm.edu	hg19	X	67283856	67283856	+	Silent	SNP	T	T	A	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	OPHN1	NM_002547	exon21	c.A1998T	p.P666P	CACCTCTGGGCAG	.	216.0	168.0	114.0	0.0	.	75	.	.	Atlas-SNP
RBMXL3	139804	hgsc.bcm.edu	hg19	X	114425456	114425456	+	Silent	SNP	A	A	T	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	RBMXL3	NM_001145346	exon1	c.A1452T	p.G484G	CAGTGGAGGCTGC	.	62.0	13.0	33.0	0.0	.	83	.	.	Atlas-SNP
SYCP2	10388	hgsc.bcm.edu	hg19	20	58444857	58444857	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	SYCP2	NM_014258	exon35	c.3738delA	p.R1246fs	.	.	195.0	70.0	279.0	0.0	.	204	.	.	Atlas-Indel,Pindel
ZNF141	7700	hgsc.bcm.edu	hg19	4	367384	367397	+	Frame_Shift_Del	DEL	AAAAATTCATACTG	AAAAATTCATACTG	-	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	AAAAATTCATACTG	AAAAATTCATACTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	ZNF141	NM_003441	exon4	c.1157_1170del	p.386_390del	.	.	125.0	17.0	111.0	0.0	.	48	.	.	Atlas-Indel,Pindel
MYO5A	4644	hgsc.bcm.edu	hg19	15	52638630	52638630	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	MYO5A	NM_001142495	exon30	c.3888delG	p.L1296fs	.	.	269.0	107.0	278.0	0.0	.	145	.	.	Atlas-Indel,Pindel
CEP85	64793	hgsc.bcm.edu	hg19	1	26570728	26570729	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	CEP85	NM_022778	exon3	c.127_128insG	p.R43fs	.	.	282.0	20.0	196.0	0.0	.	61	.	.	Atlas-INDEL
ITGA3	3675	hgsc.bcm.edu	hg19	17	48165169	48165170	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	ITGA3	NM_005501	exon24	c.2981_2982insG	p.L994fs	.	.	165.0	12.0	69.0	0.0	.	128	.	.	Atlas-INDEL
FAM134C	162427	hgsc.bcm.edu	hg19	17	40733882	40733889	+	Frame_Shift_Del	DEL	CAGAAGTT	CAGAAGTT	-	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	CAGAAGTT	CAGAAGTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	FAM134C	NM_178126	exon9	c.1344_1351del	p.448_451del	.	.	97.0	22.0	47.0	0.0	.	26	.	.	Atlas-Indel,Pindel
CRELD2	79174	hgsc.bcm.edu	hg19	22	50315943	50315980	+	Frame_Shift_Del	DEL	CCTCAGCAGTCAGGACCGGCCTCTCCGATTCTTACCCG	CCTCAGCAGTCAGGACCGGCCTCTCCGATTCTTACCCG	-	novel		TCGA-CC-5263-01A-01D-A12Z-10	TCGA-CC-5263-10B-01D-A12Z-10	CCTCAGCAGTCAGGACCGGCCTCTCCGATTCTTACCCG	CCTCAGCAGTCAGGACCGGCCTCTCCGATTCTTACCCG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b3dc66b5-ad21-46ef-bea2-13b364e8f7ee	e354902e-c055-43ca-ad8a-29b0cd8fd07d	.	CRELD2	NM_001135101	exon6	c.593_620del	p.198_207del	.	.	112.0	32.0	57.0	0.0	.	57	.	.	Atlas-INDEL
