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
TAS1R3	83756	hgsc.bcm.edu	hg19	1	1268035	1268035	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TAS1R3	NM_152228	exon3	c.G1124T	p.C375F	GTGACTGCATCAC	.	52.0	13.0	57.0	0.0	.	39	.	.	Atlas-SNP
GPR153	387509	hgsc.bcm.edu	hg19	1	6314095	6314095	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	GPR153	NM_207370	exon3	c.T469G	p.Y157D	GGGTGTAGAAGCG	.	177.0	37.0	207.0	0.0	.	44	.	.	Atlas-SNP
CA6	765	hgsc.bcm.edu	hg19	1	9027785	9027785	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CA6	NM_001270500	exon6	c.C639A	p.Y213X	CTACTACACCTAC	.	902.0	250.0	632.0	1.0	.	47	.	.	Atlas-SNP
KIF1B	23095	hgsc.bcm.edu	hg19	1	10408722	10408722	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	KIF1B	NM_015074	exon35	c.A3742T	p.I1248F	CGAAGGATCACAG	.	368.0	115.0	253.0	0.0	.	242	.	.	Atlas-SNP
VPS13D	55187	hgsc.bcm.edu	hg19	1	12313850	12313850	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	VPS13D	NM_015378	exon7	c.T636A	p.T212T	TTGCACTTTACTG	.	332.0	109.0	247.0	0.0	.	316	.	.	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	hg19	1	19480377	19480377	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	UBR4	NM_020765	exon45	c.A6515T	p.N2172I	GGGTGGTTCATCA	.	430.0	245.0	476.0	2.0	.	415	.	.	Atlas-SNP
EPHB2	2048	hgsc.bcm.edu	hg19	1	23222044	23222044	+	Silent	SNP	T	T	A	rs141173528	alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	EPHB2	NM_004442	exon8	c.T1671A	p.A557A	CATTGCTGTGGTT	.	113.0	18.0	181.0	0.0	.	257	.	T|1.000;C|0.000	Atlas-SNP
MTFR1L	56181	hgsc.bcm.edu	hg19	1	26158452	26158452	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	.	NM_001099625	exon7	c.A814G	p.I272V	GTGCTTATCTCTG	.	128.0	9.0	145.0	0.0	.	.	.	.	Atlas-SNP
PIK3R3	8503	hgsc.bcm.edu	hg19	1	46531740	46531740	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	PIK3R3	NM_001114172	exon6	c.A607G	p.T203A	TTCTAGTATATTC	.	116.0	14.0	75.0	0.0	.	41	.	.	Atlas-SNP
ZCCHC11	23318	hgsc.bcm.edu	hg19	1	52943444	52943444	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ZCCHC11	NM_015269	exon12	c.A1959T	p.V653V	TATCCGTACACAT	.	122.0	11.0	103.0	0.0	.	151	.	.	Atlas-SNP
TMEM48	55706	hgsc.bcm.edu	hg19	1	54272140	54272140	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TMEM48	NM_018087	exon9	c.C942A	p.C314X	TGGAAGGCACTCA	.	92.0	4.0	87.0	0.0	.	47	.	.	Atlas-SNP
MROH7	374977	hgsc.bcm.edu	hg19	1	55130862	55130862	+	Silent	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	.	NM_001039464	exon4	c.A1254G	p.S418S	GACCTCATGCCTG	.	361.0	145.0	256.0	1.0	.	.	.	.	Atlas-SNP
LEPR	3953	hgsc.bcm.edu	hg19	1	66081748	66081748	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	LEPR	NM_001003680	exon15	c.A2053T	p.T685S	CATCATACTTCCT	.	257.0	13.0	161.0	0.0	.	284	.	.	Atlas-SNP
ZNF326	284695	hgsc.bcm.edu	hg19	1	90473063	90473063	+	Silent	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ZNF326	NM_182976	exon5	c.A369T	p.G123G	TTTCGGAGGTAGA	.	228.0	19.0	151.0	0.0	.	60	.	.	Atlas-SNP
FRRS1	391059	hgsc.bcm.edu	hg19	1	100174554	100174554	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	FRRS1	NM_001013660	exon17	c.A1781T	p.Q594L	ATCACTTGGCCTG	.	120.0	48.0	77.0	0.0	.	50	.	.	Atlas-SNP
SLC6A17	388662	hgsc.bcm.edu	hg19	1	110709579	110709579	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SLC6A17	NM_001010898	exon2	c.C28A	p.R10S	ACCCAGCGTGAGC	.	366.0	163.0	296.0	0.0	.	86	.	.	Atlas-SNP
MTMR11	10903	hgsc.bcm.edu	hg19	1	149904191	149904191	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MTMR11	NM_001145862	exon11	c.A1017T	p.S339S	CAGGGCTGAAAGC	.	162.0	13.0	99.0	0.0	.	136	.	.	Atlas-SNP
ADAM15	8751	hgsc.bcm.edu	hg19	1	155030505	155030505	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ADAM15	NM_001261464	exon14	c.A1625T	p.Q542L	AGTGCCAGTCACT	.	69.0	5.0	80.0	0.0	.	92	.	.	Atlas-SNP
ARHGEF2	9181	hgsc.bcm.edu	hg19	1	155931649	155931649	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ARHGEF2	NM_001162383	exon11	c.A1271T	p.E424V	AGCAGCTCCTTCA	.	312.0	35.0	231.0	0.0	.	81	.	.	Atlas-SNP
SMG5	23381	hgsc.bcm.edu	hg19	1	156230352	156230352	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SMG5	NM_015327	exon15	c.A2173T	p.S725C	GAAGGCTAGAGGG	.	289.0	18.0	236.0	0.0	.	98	.	.	Atlas-SNP
OR6Y1	391112	hgsc.bcm.edu	hg19	1	158517532	158517532	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	OR6Y1	NM_001005189	exon1	c.A364T	p.I122F	CCATGATAGCAAG	.	414.0	39.0	255.0	0.0	.	73	.	.	Atlas-SNP
F5	2153	hgsc.bcm.edu	hg19	1	169521814	169521814	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	F5	NM_000130	exon8	c.A1277T	p.Q426L	CTGACCTGGGCTC	.	185.0	14.0	124.0	0.0	.	301	.	.	Atlas-SNP
ASPM	259266	hgsc.bcm.edu	hg19	1	197108988	197108988	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ASPM	NM_001206846	exon4	c.C1935A	p.F645L	AGTTCTGAATATT	.	44.0	17.0	47.0	0.0	.	444	.	.	Atlas-SNP
CR1	1378	hgsc.bcm.edu	hg19	1	207679331	207679331	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CR1	NM_000573	exon2	c.T204A	p.Y68X	GACATATCTGAAC	.	444.0	33.0	332.0	0.0	.	354	.	.	Atlas-SNP
RD3	343035	hgsc.bcm.edu	hg19	1	211652560	211652560	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	RD3	NM_183059	exon3	c.C406A	p.H136N	GCTTGTGGGCCTC	.	44.0	11.0	61.0	0.0	.	26	.	.	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	hg19	1	215972280	215972280	+	Silent	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	USH2A	NM_206933	exon50	c.A9927G	p.G3309G	TTCTTCTCCACCA	.	410.0	168.0	284.0	0.0	.	1168	.	.	Atlas-SNP
LGALS8	3964	hgsc.bcm.edu	hg19	1	236708178	236708178	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	LGALS8	NM_006499	exon11	c.T893C	p.I298T	GAAATATTACCTC	.	136.0	50.0	105.0	0.0	.	42	.	.	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	hg19	1	237868576	237868576	+	Silent	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	RYR2	NM_001035	exon67	c.G9513A	p.L3171L	ATTTTTGGAAACT	.	155.0	47.0	133.0	0.0	.	1273	.	.	Atlas-SNP
CEP170	9859	hgsc.bcm.edu	hg19	1	243354349	243354349	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CEP170	NM_001042405	exon8	c.A1079T	p.D360V	GGAACATCACTTT	.	257.0	16.0	218.0	0.0	.	153	.	.	Atlas-SNP
ALK	238	hgsc.bcm.edu	hg19	2	29416521	29416521	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ALK	NM_004304	exon29	c.A4432G	p.M1478V	ATGCCATATTCAC	.	231.0	74.0	261.0	0.0	.	533	.	.	Atlas-SNP
HNRPLL	92906	hgsc.bcm.edu	hg19	2	38804603	38804603	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	HNRPLL	NM_138394	exon7	c.G874C	p.G292R	ACTTACCATAGCC	.	298.0	86.0	273.0	0.0	.	19	.	.	Atlas-SNP
TMEM127	55654	hgsc.bcm.edu	hg19	2	96919803	96919803	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TMEM127	NM_001193304	exon4	c.A460G	p.I154V	CCAAGATGAGTTC	.	111.0	43.0	155.0	0.0	.	13	.	.	Atlas-SNP
MAP4K4	9448	hgsc.bcm.edu	hg19	2	102483701	102483701	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MAP4K4	NM_001242559	exon19	c.C2150G	p.S717C	CTCCATCTCAGCG	.	135.0	35.0	153.0	0.0	.	111	.	.	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	hg19	2	128334177	128334177	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MYO7B	NM_001080527	exon8	c.A743T	p.E248V	CTCCCGAGGAGCG	.	53.0	12.0	52.0	0.0	.	359	.	.	Atlas-SNP
SCN1A	6323	hgsc.bcm.edu	hg19	2	166897947	166897947	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SCN1A	NM_001165963	exon13	c.T2209A	p.C737S	ACCAACAGGGTGG	.	64.0	9.0	43.0	0.0	.	641	.	.	Atlas-SNP
SCN9A	6335	hgsc.bcm.edu	hg19	2	167163108	167163108	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SCN9A	NM_002977	exon4	c.T379G	p.L127V	TGAATAAGGTAGC	.	76.0	31.0	105.0	0.0	.	296	.	.	Atlas-SNP
ITGA6	3655	hgsc.bcm.edu	hg19	2	173344405	173344405	+	Silent	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ITGA6	NM_000210	exon10	c.A1425T	p.T475T	CATCACAGTAACT	.	85.0	31.0	111.0	0.0	.	171	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179433349	179433349	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	TTN_ENST00000359218,right_upper_lobe,carcinoma,0,5	TTN	NM_001267550	exon326	c.C77510T	p.P25837L	TTCAGTGGGAGAC	.	295.0	27.0	279.0	1.0	.	18412	.	.	Atlas-SNP
UNC80	285175	hgsc.bcm.edu	hg19	2	210782504	210782504	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	UNC80	NM_032504	exon31	c.C4835T	p.A1612V	TAGCTGCCATGTT	.	124.0	39.0	122.0	0.0	.	280	.	.	Atlas-SNP
FN1	2335	hgsc.bcm.edu	hg19	2	216261912	216261912	+	Silent	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	FN1	NM_212476	exon23	c.A3552G	p.A1184A	AGGGTTTGCCTCC	.	72.0	15.0	82.0	0.0	.	521	.	.	Atlas-SNP
CCDC108	255101	hgsc.bcm.edu	hg19	2	219897276	219897276	+	Silent	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CCDC108	NM_194302	exon6	c.C561T	p.F187F	GAAGAAGAACTTG	.	200.0	55.0	252.0	0.0	.	208	.	.	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	hg19	2	220333737	220333737	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SPEG	NM_005876	exon12	c.T3458A	p.V1153E	TGTATGTAGAAGA	.	80.0	9.0	106.0	0.0	.	272	.	.	Atlas-SNP
NCL	4691	hgsc.bcm.edu	hg19	2	232326345	232326345	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	NCL	NM_005381	exon3	c.A519T	p.A173A	CATCGCTGCTGGT	.	213.0	18.0	277.0	0.0	.	80	.	.	Atlas-SNP
TIMP4	7079	hgsc.bcm.edu	hg19	3	12195118	12195118	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TIMP4	NM_003256	exon5	c.A572T	p.Q191L	TGAGCCTGGTAAC	.	485.0	35.0	382.0	0.0	.	21	.	.	Atlas-SNP
TIMP4	7079	hgsc.bcm.edu	hg19	3	12198366	12198366	+	Silent	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TIMP4	NM_003256	exon3	c.T306C	p.C102C	CACACCACAGAGG	.	177.0	53.0	135.0	0.0	.	21	.	.	Atlas-SNP
CAND2	23066	hgsc.bcm.edu	hg19	3	12856693	12856693	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CAND2	NM_001162499	exon8	c.G1060T	p.A354S	CGCCGGGCAGCTG	.	194.0	76.0	260.0	0.0	.	138	.	.	Atlas-SNP
MRPS25	64432	hgsc.bcm.edu	hg19	3	15093970	15093970	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MRPS25	NM_022497	exon4	c.T500A	p.L167Q	GCTTTCAGAGCGG	.	191.0	13.0	156.0	0.0	.	14	.	.	Atlas-SNP
SCN11A	11280	hgsc.bcm.edu	hg19	3	38945427	38945427	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SCN11A	NM_014139	exon12	c.A1771T	p.T591S	AGACAGTGTTGAT	.	361.0	119.0	372.0	1.0	.	296	.	.	Atlas-SNP
NKTR	4820	hgsc.bcm.edu	hg19	3	42674105	42674105	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	NKTR	NM_005385	exon9	c.A563G	p.K188R	AGAAAAAAAGGAA	.	86.0	25.0	70.0	0.0	.	116	.	.	Atlas-SNP
NISCH	11188	hgsc.bcm.edu	hg19	3	52489713	52489713	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	NISCH	NM_001276293	exon1	c.C56T	p.A19V	AGGAAGCGCGCGT	.	12.0	7.0	34.0	0.0	.	97	.	.	Atlas-SNP
CHDH	55349	hgsc.bcm.edu	hg19	3	53857409	53857409	+	Silent	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CHDH	NM_018397	exon3	c.C627T	p.A209A	GTAGCCGGCCTGC	.	99.0	11.0	143.0	0.0	.	34	.	.	Atlas-SNP
CADPS	8618	hgsc.bcm.edu	hg19	3	62518735	62518735	+	Splice_Site	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CADPS	NM_183394	exon14	c.2104-2A>T	.	CAGCCCTATATAA	.	90.0	7.0	71.0	0.0	.	387	.	.	Atlas-SNP
OR5H14	403273	hgsc.bcm.edu	hg19	3	97868315	97868315	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	OR5H14	NM_001005514	exon1	c.T86A	p.L29Q	TGTTCCTGGCATT	.	291.0	18.0	256.0	0.0	.	56	.	.	Atlas-SNP
CEP97	79598	hgsc.bcm.edu	hg19	3	101451370	101451370	+	Silent	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CEP97	NM_024548	exon6	c.G600A	p.L200L	ACAGTTGTCGATT	.	232.0	34.0	219.0	0.0	.	122	.	.	Atlas-SNP
KALRN	8997	hgsc.bcm.edu	hg19	3	124048793	124048793	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	KALRN	NM_003947	exon8	c.A1364T	p.H455L	CAATCCACCACCA	.	262.0	79.0	245.0	0.0	.	556	.	.	Atlas-SNP
ITGB5	3693	hgsc.bcm.edu	hg19	3	124592297	124592297	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ITGB5	NM_002213	exon2	c.A152T	p.K51I	ACCTCTTTGGAGC	.	269.0	21.0	242.0	0.0	.	66	.	.	Atlas-SNP
MGLL	11343	hgsc.bcm.edu	hg19	3	127441397	127441397	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MGLL	NM_007283	exon4	c.A275G	p.Q92R	TCGCTCTGTCCGT	.	329.0	120.0	245.0	0.0	.	19	.	.	Atlas-SNP
CPNE4	131034	hgsc.bcm.edu	hg19	3	131418758	131418758	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CPNE4	NM_130808	exon4	c.A427T	p.I143F	CCGTGATGGAAGA	.	133.0	9.0	97.0	0.0	.	112	.	.	Atlas-SNP
ZIC4	84107	hgsc.bcm.edu	hg19	3	147108887	147108887	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ZIC4	NM_001168378	exon4	c.A985T	p.S329C	GCGAGCTGGGGTG	.	80.0	7.0	172.0	0.0	.	174	.	.	Atlas-SNP
FAM194A	131831	hgsc.bcm.edu	hg19	3	150398678	150398678	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	FAM194A	NM_152394	exon8	c.A922T	p.I308F	CATAGATATAGTC	.	91.0	5.0	94.0	0.0	.	91	.	.	Atlas-SNP
KIAA0226	9711	hgsc.bcm.edu	hg19	3	197427705	197427705	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	KIAA0226	NM_014687	exon7	c.A1040T	p.E347V	CTGCTCTCGGCAT	.	178.0	18.0	189.0	0.0	.	136	.	.	Atlas-SNP
MAEA	10296	hgsc.bcm.edu	hg19	4	1332275	1332275	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MAEA	NM_001017405	exon8	c.A965T	p.N322I	CCCTGAACAAGCT	.	102.0	7.0	112.0	0.0	.	39	.	.	Atlas-SNP
CD38	952	hgsc.bcm.edu	hg19	4	15841652	15841652	+	Silent	SNP	T	T	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CD38	NM_001775	exon6	c.T663G	p.T221T	TAGCACTTTTGGG	.	106.0	13.0	96.0	0.0	.	36	.	.	Atlas-SNP
PPARGC1A	10891	hgsc.bcm.edu	hg19	4	23797512	23797512	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	PPARGC1A	NM_013261	exon13	c.A2330T	p.K777M	TTGCTCTTGGTGG	.	99.0	5.0	69.0	0.0	.	129	.	.	Atlas-SNP
UGT2B7	7364	hgsc.bcm.edu	hg19	4	69962549	69962549	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	UGT2B7	NM_001074	exon1	c.C311A	p.T104K	AAGATACATTTTG	.	66.0	28.0	67.0	0.0	.	79	.	.	Atlas-SNP
ALPK1	80216	hgsc.bcm.edu	hg19	4	113353386	113353386	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ALPK1	NM_001102406	exon11	c.A2683G	p.N895D	AGCGGTAACATCC	.	145.0	75.0	224.0	0.0	.	125	.	.	Atlas-SNP
C4orf21	55345	hgsc.bcm.edu	hg19	4	113461976	113461976	+	Splice_Site	SNP	C	C	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	C4orf21	NM_018392	exon27	c.5910+1G>T	.	TACCAACCTTGTA	.	94.0	48.0	146.0	0.0	.	223	.	.	Atlas-SNP
ADAMTS12	81792	hgsc.bcm.edu	hg19	5	33648938	33648938	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ADAMTS12	NM_030955	exon9	c.C1468T	p.Q490X	CTTCCTGGCAGAA	.	219.0	80.0	179.0	0.0	.	464	.	.	Atlas-SNP
LIFR	3977	hgsc.bcm.edu	hg19	5	38490325	38490325	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	LIFR	NM_002310	exon15	c.T2134A	p.L712I	AGCGTAATAATTG	.	148.0	20.0	129.0	0.0	.	348	.	.	Atlas-SNP
MAN2A1	4124	hgsc.bcm.edu	hg19	5	109026191	109026191	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MAN2A1	NM_002372	exon1	c.A73G	p.M25V	TACCTGATGCTGG	.	253.0	69.0	158.0	0.0	.	136	.	.	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	hg19	5	112889035	112889035	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	YTHDC2	NM_022828	exon13	c.A1846T	p.I616F	TACAATATCTGCC	.	112.0	7.0	79.0	0.0	.	118	.	.	Atlas-SNP
DDX46	9879	hgsc.bcm.edu	hg19	5	134117757	134117757	+	Silent	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	DDX46	NM_014829	exon8	c.A1026T	p.L342L	AGAACTAGCAAAA	.	202.0	13.0	177.0	0.0	.	77	.	.	Atlas-SNP
SPOCK1	6695	hgsc.bcm.edu	hg19	5	136324224	136324224	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SPOCK1	NM_004598	exon8	c.T815A	p.I272N	AGGTAGATGGCAT	.	395.0	137.0	349.0	0.0	.	58	.	.	Atlas-SNP
PKD2L2	27039	hgsc.bcm.edu	hg19	5	137226191	137226191	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	PKD2L2	NM_001258448	exon2	c.A53G	p.H18R	AGTTGCATTACAG	.	195.0	61.0	194.0	0.0	.	68	.	.	Atlas-SNP
DPYSL3	1809	hgsc.bcm.edu	hg19	5	146792244	146792244	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	DPYSL3	NM_001197294	exon6	c.A890T	p.E297V	AAGATCTCATAGA	.	112.0	11.0	114.0	0.0	.	58	.	.	Atlas-SNP
SPDL1	54908	hgsc.bcm.edu	hg19	5	169023605	169023605	+	Missense_Mutation	SNP	C	C	T	rs145815866	alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	.	NM_017785	exon8	c.C932T	p.T311I	CTCAAACTGAATT	.	226.0	70.0	207.0	0.0	.	.	.	C|1.000;G|0.000	Atlas-SNP
BTN2A2	10385	hgsc.bcm.edu	hg19	6	26392974	26392974	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	BTN2A2	NM_006995	exon8	c.G1351T	p.D451Y	TTCCTGGACTATG	.	408.0	134.0	397.0	1.0	.	87	.	.	Atlas-SNP
DPCR1	135656	hgsc.bcm.edu	hg19	6	30917142	30917142	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	DPCR1	NM_080870	exon2	c.C901T	p.P301S	CCATCCCCAGCAG	.	207.0	71.0	170.0	0.0	.	99	.	.	Atlas-SNP
TNF	7124	hgsc.bcm.edu	hg19	6	31544903	31544903	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TNF	NM_000594	exon4	c.A291T	p.Q97H	CCCTCAAGCTGAG	.	64.0	4.0	65.0	0.0	.	15	.	.	Atlas-SNP
RGL2	5863	hgsc.bcm.edu	hg19	6	33263466	33263466	+	Missense_Mutation	SNP	T	T	A	rs201427428	by1000genomes;alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	RGL2	NM_004761	exon7	c.A839T	p.H280L	TGAGAATGTCCTG	.	190.0	13.0	163.0	0.0	.	58	.	T|0.999;C|0.001	Atlas-SNP
SYNGAP1	8831	hgsc.bcm.edu	hg19	6	33403036	33403036	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SYNGAP1	NM_006772	exon6	c.T617C	p.I206T	CCATTATCAAGCC	.	176.0	50.0	147.0	0.0	.	202	.	.	Atlas-SNP
TAF8	129685	hgsc.bcm.edu	hg19	6	42036240	42036240	+	Silent	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TAF8	NM_138572	exon7	c.A675T	p.T225T	CCTGACAGCTCTT	.	302.0	20.0	221.0	0.0	.	25	.	.	Atlas-SNP
AARS2	57505	hgsc.bcm.edu	hg19	6	44279864	44279864	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	AARS2	NM_020745	exon2	c.A380T	p.H127L	GTATGATGGGAAA	.	208.0	11.0	165.0	0.0	.	77	.	.	Atlas-SNP
RIMS1	22999	hgsc.bcm.edu	hg19	6	72967855	72967855	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	RIMS1	NM_014989	exon17	c.G2798T	p.S933I	GAGAAAGTAAATC	.	78.0	23.0	78.0	0.0	.	278	.	.	Atlas-SNP
RIMS1	22999	hgsc.bcm.edu	hg19	6	72967911	72967911	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	RIMS1	NM_014989	exon17	c.C2854A	p.R952S	CGCTCACGTTCAG	.	121.0	30.0	122.0	0.0	.	278	.	.	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	hg19	6	90380710	90380710	+	Silent	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MDN1	NM_014611	exon83	c.T13884C	p.S4628S	TGCTAAAGACATG	.	175.0	50.0	188.0	0.0	.	478	.	.	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	hg19	6	90381952	90381952	+	Silent	SNP	C	C	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MDN1	NM_014611	exon82	c.G13761T	p.S4587S	ACCGTACGATTTC	.	87.0	21.0	77.0	0.0	.	478	.	.	Atlas-SNP
GRIK2	2898	hgsc.bcm.edu	hg19	6	102250278	102250278	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	GRIK2	NM_021956	exon8	c.G1168A	p.D390N	GATTTGGATGTGA	.	112.0	29.0	104.0	0.0	.	487	.	.	Atlas-SNP
AMZ1	155185	hgsc.bcm.edu	hg19	7	2740227	2740227	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	AMZ1	NM_133463	exon2	c.T142A	p.Y48N	GAGGCCTACAACC	.	45.0	5.0	92.0	0.0	.	41	.	.	Atlas-SNP
NPC1L1	29881	hgsc.bcm.edu	hg19	7	44578770	44578770	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	NPC1L1	NM_001101648	exon2	c.A1226T	p.Q409L	ATCACCTGGTTGG	.	226.0	15.0	193.0	0.0	.	141	.	.	Atlas-SNP
ZPBP	11055	hgsc.bcm.edu	hg19	7	50129226	50129226	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ZPBP	NM_007009	exon2	c.A207T	p.P69P	AATACCTGGAAAA	.	103.0	10.0	97.0	0.0	.	65	.	.	Atlas-SNP
FIS1	51024	hgsc.bcm.edu	hg19	7	100884160	100884160	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	FIS1,right_upper_lobe,carcinoma,0,1	FIS1	NM_016068	exon3	c.A206T	p.E69V	CGCTGTTCCTCCT	.	461.0	31.0	351.0	0.0	.	11	.	.	Atlas-SNP
PRKAR2B	5577	hgsc.bcm.edu	hg19	7	106781395	106781395	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	PRKAR2B	NM_002736	exon5	c.A584T	p.D195V	TAATTGATAGGTA	.	199.0	10.0	146.0	0.0	.	34	.	.	Atlas-SNP
LRRN3	54674	hgsc.bcm.edu	hg19	7	110763113	110763113	+	Silent	SNP	T	T	A	rs151294396	alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	LRRN3	NM_018334	exon2	c.T285A	p.T95T	CCTTACTGGCCTG	.	64.0	4.0	33.0	0.0	.	132	.	T|1.000;C|0.000	Atlas-SNP
LRGUK	136332	hgsc.bcm.edu	hg19	7	133881819	133881819	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	LRGUK	NM_144648	exon13	c.A1507T	p.R503X	ATCGCAAGAGATG	.	186.0	15.0	112.0	0.0	.	113	.	.	Atlas-SNP
CNTNAP2	26047	hgsc.bcm.edu	hg19	7	147675070	147675070	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CNTNAP2	NM_014141	exon15	c.G2372T	p.C791F	TGCGCTGCCAAGG	.	260.0	18.0	173.0	0.0	.	392	.	.	Atlas-SNP
CNTNAP2	26047	hgsc.bcm.edu	hg19	7	147675071	147675071	+	Silent	SNP	C	C	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CNTNAP2	NM_014141	exon15	c.C2373T	p.C791C	GCGCTGCCAAGGA	.	257.0	17.0	172.0	0.0	.	392	.	.	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	hg19	7	151878935	151878935	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MLL3	NM_170606	exon36	c.A6010T	p.S2004C	GATCACTGGTTCC	.	248.0	66.0	120.0	0.0	.	1564	.	.	Atlas-SNP
LMBR1	64327	hgsc.bcm.edu	hg19	7	156556491	156556491	+	Splice_Site	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	LMBR1	NM_022458	exon7	c.424-2A>T	.	ATTCCCTGAAAAA	.	159.0	7.0	90.0	0.0	.	35	.	.	Atlas-SNP
TEX15	56154	hgsc.bcm.edu	hg19	8	30703652	30703652	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TEX15	NM_031271	exon1	c.A2882T	p.Q961L	CGTCCTTGGGATA	.	109.0	11.0	103.0	0.0	.	350	.	.	Atlas-SNP
RP1	6101	hgsc.bcm.edu	hg19	8	55541215	55541215	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	RP1	NM_006269	exon4	c.G4773A	p.W1591X	TGATTGGTCAGAC	.	63.0	34.0	55.0	0.0	.	429	.	.	Atlas-SNP
TRPA1	8989	hgsc.bcm.edu	hg19	8	72958812	72958812	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TRPA1	NM_007332	exon17	c.C1997A	p.P666Q	TCTAATGGACATT	.	39.0	4.0	37.0	0.0	.	256	.	.	Atlas-SNP
SLC26A7	115111	hgsc.bcm.edu	hg19	8	92352644	92352644	+	Silent	SNP	T	T	A	rs373170016	alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SLC26A7	NM_134266	exon8	c.T891A	p.P297P	CTCACCTAGAGCT	.	219.0	13.0	152.0	0.0	.	207	.	.	Atlas-SNP
TRHR	7201	hgsc.bcm.edu	hg19	8	110099893	110099893	+	Missense_Mutation	SNP	T	T	C	rs144587571	alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TRHR	NM_003301	exon1	c.T152C	p.M51T	TTGTCATGAGAAC	.	237.0	101.0	183.0	0.0	.	74	.	T|1.000;G|0.000	Atlas-SNP
TSNARE1	203062	hgsc.bcm.edu	hg19	8	143425738	143425738	+	Missense_Mutation	SNP	G	G	A	rs199897318	bycluster	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	TSNARE1,caecum,carcinoma,0,1	TSNARE1	NM_145003	exon4	c.C334T	p.R112W	CCATCCGGCCATG	.	65.0	3.0	83.0	0.0	.	59	.	.	Atlas-SNP
TAF1L	138474	hgsc.bcm.edu	hg19	9	32630489	32630489	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TAF1L	NM_153809	exon1	c.A5089G	p.T1697A	TGGCAGTGGAAAT	.	215.0	36.0	281.0	0.0	.	382	.	.	Atlas-SNP
NOL6	65083	hgsc.bcm.edu	hg19	9	33466415	33466415	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	NOL6	NM_022917	exon17	c.A2100T	p.P700P	AGTTGGTGGGAAC	.	169.0	72.0	186.0	0.0	.	85	.	.	Atlas-SNP
ZNF462	58499	hgsc.bcm.edu	hg19	9	109734475	109734475	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ZNF462	NM_021224	exon8	c.T6617A	p.I2206N	AGAGCATCAGGCG	.	229.0	16.0	323.0	0.0	.	322	.	.	Atlas-SNP
TNC	3371	hgsc.bcm.edu	hg19	9	117844994	117844994	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TNC	NM_002160	exon5	c.T2224A	p.W742R	TCTCCCAGGTTTC	.	146.0	61.0	198.0	0.0	.	282	.	.	Atlas-SNP
LHX6	26468	hgsc.bcm.edu	hg19	9	124979380	124979380	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	LHX6	NM_014368	exon5	c.A649T	p.M217L	CAATCATGGTGTC	.	126.0	8.0	200.0	0.0	.	73	.	.	Atlas-SNP
GLE1	2733	hgsc.bcm.edu	hg19	9	131287658	131287658	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	GLE1	NM_001499	exon7	c.A1085G	p.E362G	ACAAAGAGCCCCC	.	82.0	28.0	102.0	0.0	.	42	.	.	Atlas-SNP
CRAT	1384	hgsc.bcm.edu	hg19	9	131860591	131860591	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CRAT	NM_000755	exon10	c.C1265T	p.P422L	GACTTGGGGAAGT	.	179.0	28.0	202.0	0.0	.	43	.	.	Atlas-SNP
AK8	158067	hgsc.bcm.edu	hg19	9	135739158	135739158	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	AK8	NM_152572	exon4	c.G227A	p.W76X	CAGAGCCACATTG	.	127.0	17.0	136.0	0.0	.	45	.	.	Atlas-SNP
ITIH5	80760	hgsc.bcm.edu	hg19	10	7627889	7627889	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	ITIH5_ENST00000397145,NS,carcinoma,0,2	ITIH5	NM_001001851	exon8	c.C1083A	p.Y361X	GTGAATGTACACT	.	410.0	79.0	305.0	1.0	.	343	.	.	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	hg19	10	26462749	26462749	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MYO3A	NM_017433	exon30	c.T3556A	p.Y1186N	AGAGTGTATCAGA	.	122.0	11.0	109.0	0.0	.	371	.	.	Atlas-SNP
PDSS1	23590	hgsc.bcm.edu	hg19	10	27024491	27024491	+	Silent	SNP	C	C	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	PDSS1	NM_014317	exon10	c.C1009T	p.L337L	CCTGTCCTGTTTG	.	331.0	85.0	199.0	0.0	.	36	.	.	Atlas-SNP
OIT3	170392	hgsc.bcm.edu	hg19	10	74660156	74660156	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	OIT3	NM_152635	exon3	c.A458T	p.E153V	GCGACGAGGACTG	.	120.0	35.0	113.0	0.0	.	62	.	.	Atlas-SNP
ANXA7	310	hgsc.bcm.edu	hg19	10	75147463	75147463	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ANXA7	NM_004034	exon8	c.A683T	p.K228M	GAGGTCTTAAATG	.	255.0	31.0	213.0	0.0	.	50	.	.	Atlas-SNP
MYOF	26509	hgsc.bcm.edu	hg19	10	95116494	95116494	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MYOF	NM_013451	exon30	c.A3232T	p.R1078X	TTTTTCTCCTCCA	.	213.0	14.0	218.0	0.0	.	177	.	.	Atlas-SNP
SFXN4	119559	hgsc.bcm.edu	hg19	10	120914639	120914639	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SFXN4	NM_213649	exon11	c.A667T	p.K223X	TCCCCTTAATGGA	.	204.0	15.0	251.0	0.0	.	24	.	.	Atlas-SNP
UBQLNL	143630	hgsc.bcm.edu	hg19	11	5537570	5537570	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	UBQLNL	NM_145053	exon1	c.A102T	p.I34I	CTTCACTATCACT	.	138.0	10.0	110.0	0.0	.	74	.	.	Atlas-SNP
CCKBR	887	hgsc.bcm.edu	hg19	11	6291552	6291552	+	Missense_Mutation	SNP	G	G	A	rs200729292		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	CCKBR_ENST00000525462,right_upper_lobe,carcinoma,0,2	CCKBR	NM_176875	exon3	c.G638A	p.R213Q	GTGCGCGGGTCCG	.	97.0	48.0	113.0	0.0	.	232	.	.	Atlas-SNP
DENND5A	23258	hgsc.bcm.edu	hg19	11	9182408	9182408	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	DENND5A	NM_015213	exon12	c.A2288C	p.K763T	ATCCTCTTGGTCT	.	286.0	17.0	224.0	0.0	.	84	.	.	Atlas-SNP
TPH1	7166	hgsc.bcm.edu	hg19	11	18057649	18057649	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TPH1	NM_004179	exon2	c.C158G	p.S53X	CTTTTTGATTTTC	.	58.0	13.0	51.0	0.0	.	44	.	.	Atlas-SNP
METTL15	196074	hgsc.bcm.edu	hg19	11	28135039	28135039	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	METTL15	NM_152636	exon3	c.A158C	p.Q53P	AAACTCAAGCCCA	.	152.0	53.0	124.0	0.0	.	63	.	.	Atlas-SNP
PATL1	219988	hgsc.bcm.edu	hg19	11	59420493	59420493	+	Splice_Site	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	PATL1	NM_152716	exon11	c.1122-2A>T	.	GCTGACTGAAAAA	.	117.0	12.0	92.0	0.0	.	92	.	.	Atlas-SNP
MS4A2	2206	hgsc.bcm.edu	hg19	11	59857913	59857913	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MS4A2	NM_000139	exon3	c.A291T	p.K97N	ATTTAAAGCAGGT	.	50.0	9.0	43.0	0.0	.	41	.	.	Atlas-SNP
CD6	923	hgsc.bcm.edu	hg19	11	60777231	60777231	+	Silent	SNP	C	C	G	rs150066453	alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CD6	NM_006725	exon5	c.C969G	p.S323S	CTTGTCCGGCAGG	.	127.0	39.0	120.0	0.0	.	122	.	C|1.000;T|0.000	Atlas-SNP
VWCE	220001	hgsc.bcm.edu	hg19	11	61026645	61026645	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	VWCE	NM_152718	exon20	c.A2370T	p.S790S	CGAGGGTGATGCT	.	145.0	8.0	112.0	0.0	.	84	.	.	Atlas-SNP
PLCB3	5331	hgsc.bcm.edu	hg19	11	64023034	64023034	+	Silent	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	PLCB3	NM_000932	exon7	c.A543T	p.A181A	CTCAGCAGACAAG	.	136.0	7.0	134.0	0.0	.	103	.	.	Atlas-SNP
SLC22A12	116085	hgsc.bcm.edu	hg19	11	64366298	64366298	+	Silent	SNP	C	C	A	rs150255373	bycluster;byfrequency;alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SLC22A12	NM_144585	exon6	c.C973A	p.R325R	GCCATGCGGGAGG	.	34.0	19.0	46.0	0.0	.	68	.	C|1.000;T|0.000	Atlas-SNP
FAU	2197	hgsc.bcm.edu	hg19	11	64888161	64888161	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	FAU	NM_001997	exon5	c.A394T	p.N132Y	AAGAGTTGGCATT	.	137.0	7.0	118.0	0.0	.	17	.	.	Atlas-SNP
SPDYC	387778	hgsc.bcm.edu	hg19	11	64939933	64939933	+	Silent	SNP	C	C	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SPDYC	NM_001008778	exon5	c.C373T	p.L125L	GAGGACCTGGAGG	.	263.0	17.0	206.0	0.0	.	31	.	.	Atlas-SNP
TAF1D	79101	hgsc.bcm.edu	hg19	11	93471382	93471382	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TAF1D	NM_024116	exon3	c.T352C	p.S118P	TTAGTGAGTATAT	.	22.0	8.0	31.0	0.0	.	18	.	.	Atlas-SNP
KIAA1377	57562	hgsc.bcm.edu	hg19	11	101834387	101834387	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	KIAA1377	NM_020802	exon6	c.C2621T	p.S874L	TACCATCACTGCC	.	183.0	55.0	127.0	0.0	.	111	.	.	Atlas-SNP
IL10RA	3587	hgsc.bcm.edu	hg19	11	117869879	117869879	+	Silent	SNP	G	G	T	rs199604463	bycluster;by1000genomes;alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	IL10RA	NM_001558	exon7	c.G1260T	p.S420S	TGGCTCGGCCTTG	.	126.0	42.0	130.0	0.0	.	46	.	G|1.000;A|0.000	Atlas-SNP
ITFG2	55846	hgsc.bcm.edu	hg19	12	2927434	2927434	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ITFG2	NM_018463	exon4	c.A397T	p.S133C	CTGATCAGCGACA	.	144.0	54.0	142.0	0.0	.	38	.	.	Atlas-SNP
PRH1	5554	hgsc.bcm.edu	hg19	12	11036772	11036772	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	PRH1	NM_006250	exon1	c.A45T	p.S15S	CTGAGCTGAGCTG	.	218.0	15.0	214.0	0.0	.	17	.	.	Atlas-SNP
NELL2	4753	hgsc.bcm.edu	hg19	12	44913954	44913954	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	NELL2	NM_001145107	exon20	c.T2384A	p.I795N	GGGAGAATGCTGA	.	171.0	48.0	125.0	0.0	.	286	.	.	Atlas-SNP
KRT86	3892	hgsc.bcm.edu	hg19	12	52699941	52699941	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	KRT86	NM_002284	exon7	c.T1124A	p.L375Q	GTGCCCTGCAGAA	.	116.0	6.0	204.0	0.0	.	33	.	.	Atlas-SNP
ANKRD52	283373	hgsc.bcm.edu	hg19	12	56636966	56636966	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ANKRD52	NM_173595	exon28	c.G3191T	p.R1064L	CCGGGCCGCTCCT	.	18.0	5.0	24.0	0.0	.	81	.	.	Atlas-SNP
NACA	4666	hgsc.bcm.edu	hg19	12	57114439	57114439	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	NACA	NM_001113203	exon3	c.C875A	p.T292N	CCCGCAGTCTTTT	.	37.0	4.0	30.0	0.0	.	131	.	.	Atlas-SNP
SDR9C7	121214	hgsc.bcm.edu	hg19	12	57324233	57324233	+	Silent	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SDR9C7	NM_148897	exon2	c.C337T	p.L113L	TGGGCAGGCCCAC	.	196.0	11.0	141.0	0.0	.	31	.	.	Atlas-SNP
SLC6A15	55117	hgsc.bcm.edu	hg19	12	85279337	85279337	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SLC6A15	NM_018057	exon4	c.T451C	p.C151R	AATAGCACACCTG	.	135.0	45.0	115.0	0.0	.	159	.	.	Atlas-SNP
LRRIQ1	84125	hgsc.bcm.edu	hg19	12	85449747	85449747	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	LRRIQ1	NM_001079910	exon8	c.A1176T	p.Q392H	AAGCCAACAGCTA	.	45.0	5.0	27.0	0.0	.	512	.	.	Atlas-SNP
NTS	4922	hgsc.bcm.edu	hg19	12	86276027	86276027	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	NTS	NM_006183	exon4	c.T387A	p.T129T	TGATACTGGAAAT	.	127.0	9.0	107.0	0.0	.	25	.	.	Atlas-SNP
KITLG	4254	hgsc.bcm.edu	hg19	12	88900157	88900157	+	Splice_Site	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	KITLG	NM_000899	exon9	c.715-2A>T	.	CTCTTCTGGAAAA	.	96.0	10.0	80.0	0.0	.	26	.	.	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	hg19	12	104067722	104067722	+	Silent	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	STAB2	NM_017564	exon23	c.A2409T	p.I803I	CAGGATAGACAGC	.	141.0	13.0	150.0	0.0	.	370	.	.	Atlas-SNP
ALKBH2	121642	hgsc.bcm.edu	hg19	12	109526088	109526088	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ALKBH2	NM_001001655	exon4	c.A709C	p.S237R	GAAGACTGTGGTA	.	63.0	23.0	67.0	0.0	.	16	.	.	Atlas-SNP
OASL	8638	hgsc.bcm.edu	hg19	12	121458369	121458369	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	OASL	NM_003733	exon6	c.A1540T	p.S514C	ACTAACTGGCTGG	.	58.0	8.0	72.0	0.0	.	49	.	.	Atlas-SNP
OASL	8638	hgsc.bcm.edu	hg19	12	121458371	121458371	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	OASL	NM_003733	exon6	c.C1538G	p.A513G	TAACTGGCTGGAA	.	58.0	8.0	74.0	0.0	.	49	.	.	Atlas-SNP
B3GNT4	79369	hgsc.bcm.edu	hg19	12	122691677	122691677	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	B3GNT4	NM_030765	exon3	c.T879A	p.A293A	CCAGGCTATCATG	.	95.0	11.0	142.0	0.0	.	35	.	.	Atlas-SNP
MMP17	4326	hgsc.bcm.edu	hg19	12	132334436	132334436	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	MMP17_ENST00000360564,NS,carcinoma,0,2	MMP17	NM_016155	exon9	c.G1294A	p.D432N	GGCATCGACGCTG	.	188.0	26.0	311.0	1.0	.	77	.	.	Atlas-SNP
SLITRK5	26050	hgsc.bcm.edu	hg19	13	88330413	88330413	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SLITRK5	NM_015567	exon2	c.T2770A	p.F924I	GCTGTCTTTGTAG	.	97.0	8.0	88.0	0.0	.	192	.	.	Atlas-SNP
SLITRK5	26050	hgsc.bcm.edu	hg19	13	88330414	88330414	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SLITRK5	NM_015567	exon2	c.T2771A	p.F924Y	CTGTCTTTGTAGA	.	97.0	7.0	87.0	0.0	.	192	.	.	Atlas-SNP
RALGAPA1	253959	hgsc.bcm.edu	hg19	14	36154285	36154285	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	RALGAPA1	NM_194301	exon19	c.A2626G	p.N876D	GCTTGTTTAGAAT	.	80.0	37.0	104.0	0.0	.	289	.	.	Atlas-SNP
BTBD7	55727	hgsc.bcm.edu	hg19	14	93714872	93714872	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	BTBD7,colon,carcinoma,0,1	BTBD7	NM_001002860	exon9	c.C2071T	p.R691X	GCACTCGAATCTG	.	89.0	25.0	93.0	0.0	.	112	.	.	Atlas-SNP
TRPM1	4308	hgsc.bcm.edu	hg19	15	31325077	31325077	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TRPM1	NM_001252020	exon21	c.A2818T	p.I940F	CTGTGATGTTCCA	.	236.0	10.0	253.0	0.0	.	183	.	.	Atlas-SNP
RASGRP1	10125	hgsc.bcm.edu	hg19	15	38818572	38818572	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	RASGRP1	NM_001128602	exon3	c.T254A	p.L85Q	TGCAACAGTTGGT	.	99.0	26.0	85.0	0.0	.	50	.	.	Atlas-SNP
KNSTRN	90417	hgsc.bcm.edu	hg19	15	40675114	40675114	+	Silent	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	.	NM_033286	exon1	c.A78T	p.P26P	CCACCCACTTCCG	.	122.0	9.0	108.0	0.0	.	.	.	.	Atlas-SNP
CASC5	57082	hgsc.bcm.edu	hg19	15	40917526	40917526	+	Silent	SNP	G	G	T	rs369221746	alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CASC5	NM_170589	exon11	c.G5142T	p.P1714P	TCAGCCGGTCTCT	.	82.0	5.0	66.0	0.0	.	269	.	.	Atlas-SNP
TGM7	116179	hgsc.bcm.edu	hg19	15	43571320	43571320	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TGM7	NM_052955	exon11	c.A1834G	p.I612V	CCTCAATAGACAA	.	113.0	6.0	90.0	0.0	.	86	.	.	Atlas-SNP
MAP1A	4130	hgsc.bcm.edu	hg19	15	43819173	43819173	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MAP1A	NM_002373	exon4	c.T5502A	p.T1834T	ACCCACTACTCCC	.	139.0	8.0	145.0	0.0	.	189	.	.	Atlas-SNP
USP8	9101	hgsc.bcm.edu	hg19	15	50782610	50782610	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	USP8	NM_001128610	exon14	c.A2122G	p.R708G	CGGGATAGGGAAC	.	146.0	43.0	137.0	0.0	.	90	.	.	Atlas-SNP
AP4E1	23431	hgsc.bcm.edu	hg19	15	51285722	51285722	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	AP4E1	NM_007347	exon17	c.A2246T	p.D749V	AAAAGGATCAATC	.	95.0	8.0	76.0	0.0	.	78	.	.	Atlas-SNP
LMAN1L	79748	hgsc.bcm.edu	hg19	15	75115899	75115899	+	Splice_Site	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	LMAN1L	NM_021819	exon12	c.1200-1G>T	.	CGGTTAGGGATGC	.	51.0	7.0	81.0	0.0	.	43	.	.	Atlas-SNP
LINGO1	84894	hgsc.bcm.edu	hg19	15	77907675	77907675	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	LINGO1	NM_032808	exon2	c.A574C	p.S192R	CCAGGCTGTTGAG	.	138.0	57.0	133.0	0.0	.	76	.	.	Atlas-SNP
ALPK3	57538	hgsc.bcm.edu	hg19	15	85401062	85401062	+	Silent	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ALPK3	NM_020778	exon6	c.G3699T	p.L1233L	CCTGCTGCTGAGC	.	24.0	7.0	32.0	0.0	.	289	.	.	Atlas-SNP
TPSD1	23430	hgsc.bcm.edu	hg19	16	1308140	1308140	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TPSD1	NM_012217	exon4	c.A601T	p.T201S	TATCACACCGGCC	.	275.0	14.0	244.0	0.0	.	47	.	.	Atlas-SNP
CLCN7	1186	hgsc.bcm.edu	hg19	16	1510832	1510832	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CLCN7	NM_001287	exon5	c.A469T	p.R157W	TGACCCTGTACTT	.	156.0	13.0	169.0	0.0	.	53	.	.	Atlas-SNP
PGP	283871	hgsc.bcm.edu	hg19	16	2263817	2263817	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	PGP	NM_001042371	exon2	c.A878T	p.Q293L	CTTTCCTGATTAT	.	273.0	15.0	201.0	0.0	.	6	.	.	Atlas-SNP
VWA3A	146177	hgsc.bcm.edu	hg19	16	22126671	22126671	+	Silent	SNP	C	C	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	VWA3A	NM_173615	exon9	c.C693T	p.L231L	CAGCCTCCAGGAA	.	173.0	36.0	116.0	0.0	.	115	.	.	Atlas-SNP
ZNF629	23361	hgsc.bcm.edu	hg19	16	30793613	30793613	+	Missense_Mutation	SNP	T	T	A	rs200655215	by1000genomes;alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ZNF629	NM_001080417	exon3	c.A2036T	p.Q679L	TGATGCTGGAGGA	.	186.0	13.0	140.0	0.0	.	44	.	T|1.000;C|0.000	Atlas-SNP
NIP7	51388	hgsc.bcm.edu	hg19	16	69375171	69375171	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	NIP7	NM_016101	exon4	c.A371G	p.N124S	CTGAAAATACTTC	.	136.0	73.0	208.0	0.0	.	20	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7578190	7578190	+	Missense_Mutation	SNP	T	T	C	rs121912666	alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	TP53_ENST00000545858,NS,carcinoma,0,1	TP53	NM_000546	exon6	c.A659G	p.Y220C	GGCTCATAGGGCA	.	158.0	75.0	212.0	0.0	.	33396	.	.	Atlas-SNP
MYH8	4626	hgsc.bcm.edu	hg19	17	10317595	10317595	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MYH8	NM_002472	exon11	c.A922T	p.T308S	GGTTGGTGGTGAT	.	257.0	26.0	332.0	0.0	.	346	.	.	Atlas-SNP
COPS3	8533	hgsc.bcm.edu	hg19	17	17179373	17179373	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	COPS3	NM_003653	exon2	c.A161T	p.H54L	AAGGAGTGTTCTT	.	126.0	14.0	164.0	0.0	.	41	.	.	Atlas-SNP
CCR7	1236	hgsc.bcm.edu	hg19	17	38711882	38711882	+	Silent	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CCR7	NM_001838	exon3	c.T249C	p.Y83Y	ATAGATATAGGTC	.	173.0	23.0	150.0	0.0	.	31	.	.	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	hg19	17	39135187	39135187	+	Silent	SNP	C	C	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	KRT40	NM_182497	exon8	c.G1065A	p.E355E	CTGGTTCTCCAGG	.	152.0	49.0	176.0	0.0	.	27	.	.	Atlas-SNP
STAT3	6774	hgsc.bcm.edu	hg19	17	40474482	40474482	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	STAT3,NS,lymphoid_neoplasm,0,46	STAT3	NM_003150	exon21	c.A1919T	p.Y640F	TTTGTGTATGGTT	.	390.0	22.0	343.0	0.0	.	268	.	.	Atlas-SNP
SLC25A39	51629	hgsc.bcm.edu	hg19	17	42398495	42398495	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	SLC25A39,NS,carcinoma,0,1	SLC25A39	NM_001143780	exon8	c.G622A	p.A208T	CCTGAGCCACTGC	.	86.0	23.0	119.0	0.0	.	24	.	.	Atlas-SNP
CACNA1G	8913	hgsc.bcm.edu	hg19	17	48668930	48668930	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CACNA1G	NM_001256360	exon11	c.A2588G	p.D863G	CCATGGACAACGT	.	99.0	32.0	128.0	0.0	.	659	.	.	Atlas-SNP
STXBP4	252983	hgsc.bcm.edu	hg19	17	53077023	53077023	+	Silent	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	STXBP4	NM_178509	exon6	c.A318T	p.I106I	ATTCATAAGACAA	.	144.0	8.0	125.0	0.0	.	41	.	.	Atlas-SNP
RNF43	54894	hgsc.bcm.edu	hg19	17	56435407	56435407	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	RNF43	NM_017763	exon9	c.A1730T	p.Q577L	CTGGACTGGGGGA	.	121.0	14.0	125.0	0.0	.	157	.	.	Atlas-SNP
BCAS3	54828	hgsc.bcm.edu	hg19	17	59155891	59155891	+	Splice_Site	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	BCAS3	NM_001099432	exon22	c.2372+1G>A	.	TCTCAGGTAGGAA	.	154.0	44.0	138.0	0.0	.	90	.	.	Atlas-SNP
BPTF	2186	hgsc.bcm.edu	hg19	17	65920668	65920668	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	BPTF	NM_004459	exon17	c.A6092G	p.E2031G	GAGTGGAGAAAGA	.	293.0	105.0	261.0	0.0	.	415	.	.	Atlas-SNP
KIF19	124602	hgsc.bcm.edu	hg19	17	72349367	72349367	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	KIF19	NM_153209	exon16	c.G2147T	p.G716V	GTACTGGGGCCTG	.	192.0	88.0	201.0	0.0	.	102	.	.	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	hg19	18	7013887	7013887	+	Missense_Mutation	SNP	G	G	T	rs377575918	alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	LAMA1	NM_005559	exon23	c.C3290A	p.T1097K	CCCGACGTCCCCC	.	196.0	88.0	259.0	0.0	.	458	.	.	Atlas-SNP
MATK	4145	hgsc.bcm.edu	hg19	19	3779601	3779601	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MATK	NM_002378	exon10	c.A860T	p.E287V	AGGTTCTCGTGTT	.	34.0	7.0	55.0	0.0	.	108	.	.	Atlas-SNP
DNMT1	1786	hgsc.bcm.edu	hg19	19	10251564	10251564	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	DNMT1	NM_001130823	exon32	c.A3416C	p.Q1139P	CAGGCTTGGGACT	.	65.0	27.0	60.0	0.0	.	148	.	.	Atlas-SNP
DNM2	1785	hgsc.bcm.edu	hg19	19	10906053	10906053	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	DNM2	NM_001005361	exon9	c.G1134C	p.E378D	GATGGAGTTTGAC	.	131.0	42.0	110.0	0.0	.	175	.	.	Atlas-SNP
UPF1	5976	hgsc.bcm.edu	hg19	19	18967008	18967008	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	UPF1	NM_002911	exon13	c.C1723T	p.Q575X	GAGCTGCAGAAGC	.	130.0	8.0	120.0	0.0	.	88	.	.	Atlas-SNP
CILP2	148113	hgsc.bcm.edu	hg19	19	19656087	19656087	+	Silent	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	CILP2	NM_153221	exon8	c.G2733A	p.V911V	CAACGTGGTCCCC	.	115.0	26.0	142.0	0.0	.	84	.	.	Atlas-SNP
ZNF85	7639	hgsc.bcm.edu	hg19	19	21132284	21132284	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ZNF85	NM_001256171	exon5	c.G1054T	p.A352S	GGCAAAGCCTTTA	.	18.0	12.0	32.0	0.0	.	72	.	.	Atlas-SNP
TSHZ3	57616	hgsc.bcm.edu	hg19	19	31768845	31768845	+	Silent	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TSHZ3	NM_020856	exon2	c.T1854A	p.T618T	TTTCTCAGTGACC	.	192.0	14.0	169.0	0.0	.	549	.	.	Atlas-SNP
ZNF585B	92285	hgsc.bcm.edu	hg19	19	37677114	37677114	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ZNF585B	NM_152279	exon5	c.A1325T	p.H442L	CCACAGTGACCAC	.	128.0	11.0	139.0	0.0	.	91	.	.	Atlas-SNP
KCNK6	9424	hgsc.bcm.edu	hg19	19	38817261	38817261	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	KCNK6	NM_004823	exon2	c.T351A	p.D117E	GACTGATGCGGGC	.	58.0	4.0	56.0	0.0	.	37	.	.	Atlas-SNP
LRFN1	57622	hgsc.bcm.edu	hg19	19	39805513	39805513	+	Missense_Mutation	SNP	G	G	A	rs201576239	bycluster	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	LRFN1,NS,carcinoma,0,1	LRFN1	NM_020862	exon1	c.C464T	p.A155V	AAGGCCGCCGACT	.	72.0	5.0	87.0	0.0	.	59	.	.	Atlas-SNP
ZNF613	79898	hgsc.bcm.edu	hg19	19	52448896	52448896	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ZNF613	NM_001031721	exon6	c.A1760T	p.N587I	TAACTAACAGTGC	.	226.0	80.0	165.0	0.0	.	62	.	.	Atlas-SNP
LENG8	114823	hgsc.bcm.edu	hg19	19	54962528	54962528	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	LENG8	NM_052925	exon2	c.G7A	p.A3T	ATGGCGGCCAACG	.	188.0	65.0	179.0	0.0	.	73	.	.	Atlas-SNP
ZNF547	284306	hgsc.bcm.edu	hg19	19	57889239	57889239	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ZNF547	NM_173631	exon4	c.A895T	p.S299C	GGTTGCAGTGAAT	.	130.0	9.0	117.0	0.0	.	45	.	.	Atlas-SNP
ZNF211	10520	hgsc.bcm.edu	hg19	19	58152706	58152706	+	Silent	SNP	T	T	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ZNF211	NM_001265597	exon5	c.T1047G	p.P349P	AAGGCCTTATGAA	.	77.0	23.0	94.0	0.0	.	78	.	.	Atlas-SNP
MYH7B	57644	hgsc.bcm.edu	hg19	20	33582028	33582028	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MYH7B	NM_020884	exon27	c.A2650G	p.K884E	TTTTTCAAGATGA	.	320.0	116.0	285.0	0.0	.	145	.	.	Atlas-SNP
AURKA	6790	hgsc.bcm.edu	hg19	20	54961584	54961584	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	AURKA	NM_198437	exon3	c.A48T	p.T16T	TGGAGCTGTAGCC	.	126.0	7.0	99.0	0.0	.	42	.	.	Atlas-SNP
DNAJC5	80331	hgsc.bcm.edu	hg19	20	62562355	62562355	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	DNAJC5	NM_025219	exon4	c.A473T	p.Q158L	AGGCACAGCTGCA	.	143.0	10.0	155.0	0.0	.	16	.	.	Atlas-SNP
DSCAM	1826	hgsc.bcm.edu	hg19	21	41384983	41384983	+	Missense_Mutation	SNP	G	G	A	rs200591095	by1000genomes;alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	DSCAM	NM_001389	exon33	c.C6017T	p.A2006V	GATTTTGCGTAAG	.	134.0	26.0	172.0	0.0	.	347	.	G|1.000;C|0.000	Atlas-SNP
DSCAM	1826	hgsc.bcm.edu	hg19	21	41384984	41384984	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	DSCAM,colon,carcinoma,0,1	DSCAM	NM_001389	exon33	c.G6016C	p.A2006P	ATTTTGCGTAAGG	.	136.0	26.0	173.0	0.0	.	347	.	.	Atlas-SNP
HMOX1	3162	hgsc.bcm.edu	hg19	22	35789564	35789564	+	Silent	SNP	A	A	T	rs140740892	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	HMOX1	NM_002133	exon5	c.A840T	p.T280T	GGCGACAGTTGCT	.	141.0	8.0	179.0	0.0	.	32	.	A|0.997;G|0.003	Atlas-SNP
EIF3D	8664	hgsc.bcm.edu	hg19	22	36919311	36919311	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	EIF3D	NM_003753	exon6	c.A410T	p.Q137L	TTTTTCTGCAGTC	.	115.0	9.0	102.0	0.0	.	37	.	.	Atlas-SNP
ACO2	50	hgsc.bcm.edu	hg19	22	41911430	41911430	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ACO2	NM_001098	exon5	c.A575T	p.D192V	GCACTGACTCCCA	.	158.0	16.0	133.0	0.0	.	58	.	.	Atlas-SNP
MEI1	150365	hgsc.bcm.edu	hg19	22	42099396	42099396	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	MEI1	NM_152513	exon2	c.T236A	p.L79Q	CCTCCCTGGTCAC	.	106.0	7.0	123.0	0.0	.	87	.	.	Atlas-SNP
NLGN4X	57502	hgsc.bcm.edu	hg19	X	6069270	6069270	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	NLGN4X	NM_181332	exon2	c.T238A	p.S80T	GGGGTGAGGCATA	.	368.0	26.0	156.0	0.0	.	191	.	.	Atlas-SNP
ZNF41	7592	hgsc.bcm.edu	hg19	X	47307358	47307358	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ZNF41	NM_007130	exon5	c.A1811G	p.E604G	GGTTTCTCTCCTG	.	236.0	202.0	103.0	0.0	.	71	.	.	Atlas-SNP
HUWE1	10075	hgsc.bcm.edu	hg19	X	53672381	53672381	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	HUWE1	NM_031407	exon7	c.A386T	p.Q129L	ACCACTTGCATAT	.	127.0	7.0	53.0	0.0	.	724	.	.	Atlas-SNP
HNRNPH2	3188	hgsc.bcm.edu	hg19	X	100667970	100667970	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	HNRNPH2	NM_001032393	exon2	c.G994T	p.D332Y	GAGGCAGATGTTG	.	265.0	197.0	140.0	0.0	.	50	.	.	Atlas-SNP
IRS4	8471	hgsc.bcm.edu	hg19	X	107977707	107977707	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	IRS4	NM_003604	exon1	c.A1868T	p.K623M	TGTTGCTTGCTTT	.	79.0	4.0	32.0	0.0	.	253	.	.	Atlas-SNP
TKTL1	8277	hgsc.bcm.edu	hg19	X	153558006	153558006	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TKTL1	NM_012253	exon13	c.A1759T	p.I587L	CATATCATAGTGG	.	222.0	16.0	97.0	0.0	.	61	.	.	Atlas-SNP
F8	2157	hgsc.bcm.edu	hg19	X	154158501	154158501	+	Silent	SNP	T	T	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	F8	NM_000132	exon14	c.A3564T	p.P1188P	GCTGCTTGGAAAA	.	134.0	7.0	68.0	0.0	.	646	.	.	Atlas-SNP
ND4	0	hgsc.bcm.edu	hg19	MT	11940	11940	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	.	ENST00000361381	exon1	c.T1181C	p.L394P	CTCTCCTACTTAC	.	47.0	23.0	14.0	0.0	.	.	.	.	Atlas-SNP
ND6	0	hgsc.bcm.edu	hg19	MT	14649	14649	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	.	ENST00000361681	exon1	c.A25G	p.S9G	CCACACTCAACAG	.	140.0	130.0	36.0	0.0	.	.	.	.	Atlas-SNP
IL6ST	3572	hgsc.bcm.edu	hg19	5	55259982	55259990	+	In_Frame_Del	DEL	ACAGGATCA	ACAGGATCA	-	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	ACAGGATCA	ACAGGATCA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	IL6ST	NM_001190981	exon6	c.643_651del	p.215_217del	.	.	101.0	18.0	121.0	0.0	.	75	.	.	Atlas-Indel,Pindel
TSKU	25987	hgsc.bcm.edu	hg19	11	76506948	76506950	+	In_Frame_Del	DEL	CAC	CAC	-	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	CAC	CAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	TSKU	NM_001258210	exon2	c.287_289del	p.96_97del	.	.	211.0	22.0	212.0	0.0	.	26	.	.	Atlas-Indel,Pindel
SAA1	6288	hgsc.bcm.edu	hg19	11	18291314	18291315	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SAA1	NM_199161	exon4	c.281_282insA	p.S94fs	.	.	290.0	97.0	257.0	0.0	.	14	.	.	Atlas-INDEL
ZBED4	9889	hgsc.bcm.edu	hg19	22	50278080	50278104	+	Frame_Shift_Del	DEL	ACCTCCCTGCTCTCCATTACGATGA	ACCTCCCTGCTCTCCATTACGATGA	-	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	ACCTCCCTGCTCTCCATTACGATGA	ACCTCCCTGCTCTCCATTACGATGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	ZBED4	NM_014838	exon2	c.769_793del	p.257_265del	.	.	136.0	25.0	164.0	0.0	.	102	.	.	Atlas-Indel,Pindel
SUPT6H	6830	hgsc.bcm.edu	hg19	17	27017195	27017196	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	SUPT6H	NM_003170	exon26	c.3437_3438del	p.1146_1146del	.	.	277.0	80.0	267.0	0.0	.	165	.	.	Atlas-Indel,Pindel
NEFH	4744	hgsc.bcm.edu	hg19	22	29885288	29885292	+	Frame_Shift_Del	DEL	AGCAA	AGCAA	-	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	AGCAA	AGCAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	NEFH	NM_021076	exon4	c.1658_1662del	p.553_554del	.	.	220.0	66.0	325.0	0.0	.	178	.	.	Atlas-Indel,Pindel
FBXO42	54455	hgsc.bcm.edu	hg19	1	16578144	16578145	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-ED-A459-01A-11D-A25V-10	TCGA-ED-A459-10A-01D-A25V-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7fc7b316-f3d3-4e71-9417-423fe334e6bc	ba12fec9-e575-4fff-9119-8989b3cf1d18	.	FBXO42	NM_018994	exon10	c.1175_1176del	p.392_392del	.	.	239.0	29.0	201.0	0.0	.	53	.	.	Atlas-Indel,Pindel