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
ACTRT2	140625	hgsc.bcm.edu	hg19	1	2938945	2938945	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	ACTRT2	NM_080431	exon1	c.C695T	p.S232F	AGCTTTCCCGGAG	.	152.0	25.0	171.0	0.0	.	69	.	.	Atlas-SNP
UBXN10	127733	hgsc.bcm.edu	hg19	1	20517360	20517360	+	Silent	SNP	A	A	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	UBXN10	NM_152376	exon2	c.A306G	p.Q102Q	GCAGCAAGTACCC	.	151.0	27.0	137.0	0.0	.	29	.	.	Atlas-SNP
FAM69A	388650	hgsc.bcm.edu	hg19	1	93309540	93309540	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	FAM69A	NM_001006605	exon5	c.A687T	p.E229D	AACACTTTCCATC	.	125.0	27.0	127.0	0.0	.	30	.	.	Atlas-SNP
CLK2	1196	hgsc.bcm.edu	hg19	1	155238148	155238148	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CLK2	NM_003993	exon5	c.G487T	p.E163X	CGATTTCATCTGA	.	109.0	17.0	122.0	0.0	.	55	.	.	Atlas-SNP
IQGAP3	128239	hgsc.bcm.edu	hg19	1	156498714	156498714	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	IQGAP3	NM_178229	exon35	c.A4565G	p.D1522G	TTGGAGTCGGGGG	.	73.0	45.0	69.0	0.0	.	146	.	.	Atlas-SNP
DARS2	55157	hgsc.bcm.edu	hg19	1	173806173	173806173	+	Silent	SNP	C	C	T	rs149916824	bycluster;alternate_allele	TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	DARS2	NM_018122	exon8	c.C759T	p.G253G	GGTTGGCGGTTTA	.	105.0	22.0	111.0	0.0	.	61	.	C|1.000;A|0.000	Atlas-SNP
FAM5C	339479	hgsc.bcm.edu	hg19	1	190250737	190250737	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	FAM5C	NM_199051	exon3	c.T380A	p.L127H	TTGATAAGGTTTT	.	270.0	173.0	293.0	0.0	.	343	.	.	Atlas-SNP
CHRM3	1131	hgsc.bcm.edu	hg19	1	240071289	240071289	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CHRM3	NM_000740	exon5	c.C538G	p.R180G	GCCAAACGAACAA	.	94.0	18.0	79.0	0.0	.	118	.	.	Atlas-SNP
APOB	338	hgsc.bcm.edu	hg19	2	21229519	21229519	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	APOB	NM_000384	exon26	c.G10221T	p.E3407D	ACTACCCTCCACA	.	86.0	53.0	95.0	0.0	.	761	.	.	Atlas-SNP
CLIP4	79745	hgsc.bcm.edu	hg19	2	29366802	29366802	+	Silent	SNP	A	A	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CLIP4	NM_024692	exon7	c.A876T	p.A292A	TATTGCAGGACAG	.	144.0	86.0	144.0	0.0	.	69	.	.	Atlas-SNP
DHX57	90957	hgsc.bcm.edu	hg19	2	39053721	39053721	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	DHX57	NM_198963	exon15	c.A2750T	p.E917V	GATGTCTCAGCAA	.	99.0	53.0	116.0	0.0	.	127	.	.	Atlas-SNP
R3HDM1	23518	hgsc.bcm.edu	hg19	2	136481727	136481727	+	Silent	SNP	C	C	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	R3HDM1	NM_015361	exon26	c.C3165G	p.V1055V	CACCGTCTTAGCC	.	206.0	48.0	170.0	0.0	.	84	.	.	Atlas-SNP
DARS	1615	hgsc.bcm.edu	hg19	2	136691481	136691481	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	DARS	NM_001349	exon6	c.A503T	p.E168V	TTTACCTCTTCTC	.	347.0	212.0	331.0	0.0	.	44	.	.	Atlas-SNP
COBLL1	22837	hgsc.bcm.edu	hg19	2	165559721	165559721	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	COBLL1	NM_014900	exon9	c.A1235G	p.H412R	CCAGGGTGAAAGG	.	51.0	11.0	85.0	0.0	.	122	.	.	Atlas-SNP
ARMC9	80210	hgsc.bcm.edu	hg19	2	232123721	232123721	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	ARMC9_ENST00000359743,NS,neuroblastoma,0,2	ARMC9	NM_025139	exon11	c.C932T	p.P311L	ATGTCCCATTACT	.	91.0	59.0	76.0	0.0	.	129	.	.	Atlas-SNP
SLC6A11	6538	hgsc.bcm.edu	hg19	3	10970945	10970945	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	SLC6A11,NS,adenocarcinoma,-1,1	SLC6A11	NM_014229	exon10	c.C1291T	p.R431W	GTTTTCCGGAGGG	.	173.0	58.0	148.0	0.0	.	87	.	.	Atlas-SNP
COLQ	8292	hgsc.bcm.edu	hg19	3	15507879	15507879	+	Silent	SNP	G	G	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	COLQ	NM_005677	exon12	c.C783A	p.G261G	CGGACGGCCAGGT	.	376.0	62.0	298.0	0.0	.	82	.	.	Atlas-SNP
TOP2B	7155	hgsc.bcm.edu	hg19	3	25686805	25686805	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	TOP2B	NM_001068	exon2	c.G211C	p.E71Q	ATGGCTCCACTGA	.	934.0	334.0	188.0	0.0	.	98	.	.	Atlas-SNP
SCN11A	11280	hgsc.bcm.edu	hg19	3	38904741	38904741	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	SCN11A	NM_014139	exon24	c.A4001T	p.N1334I	ATTGCATTATAGT	.	82.0	36.0	54.0	0.0	.	296	.	.	Atlas-SNP
ZNF502	91392	hgsc.bcm.edu	hg19	3	44763599	44763599	+	Silent	SNP	T	T	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	ZNF502	NM_001134440	exon4	c.T1290A	p.T430T	TCACACTGGAGAA	.	146.0	58.0	122.0	0.0	.	58	.	.	Atlas-SNP
SETD2	29072	hgsc.bcm.edu	hg19	3	47165225	47165225	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	SETD2	NM_014159	exon3	c.A901T	p.S301C	TACAGCTCAGACT	.	87.0	34.0	102.0	0.0	.	721	.	.	Atlas-SNP
SPICE1	152185	hgsc.bcm.edu	hg19	3	113212129	113212129	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	SPICE1	NM_144718	exon6	c.C416A	p.S139Y	TGAGAGGAATCAG	.	104.0	43.0	82.0	0.0	.	130	.	.	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	hg19	3	129282004	129282004	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	PLXND1	NM_015103	exon26	c.C4601G	p.T1534R	TTGCCTGTGATGG	.	51.0	22.0	66.0	0.0	.	149	.	.	Atlas-SNP
ACPP	55	hgsc.bcm.edu	hg19	3	132086623	132086623	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	ACPP_ENST00000351273,NS,carcinoma,0,1	ACPP	NM_001134194	exon11	c.G1214C	p.R405P	ACATTCGCCGTGG	.	73.0	8.0	53.0	0.0	.	118	.	.	Atlas-SNP
ZNF518B	85460	hgsc.bcm.edu	hg19	4	10446373	10446373	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	ZNF518B,colon,carcinoma,0,1	ZNF518B	NM_053042	exon3	c.T1580A	p.L527X	GGGAGTAACTGCT	.	164.0	58.0	247.0	0.0	.	116	.	.	Atlas-SNP
N4BP2	55728	hgsc.bcm.edu	hg19	4	40154482	40154482	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	N4BP2	NM_018177	exon17	c.C5226G	p.I1742M	TCGCATCAAACCA	.	172.0	42.0	121.0	0.0	.	166	.	.	Atlas-SNP
GYPE	2996	hgsc.bcm.edu	hg19	4	144796663	144796663	+	Splice_Site	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	GYPE	NM_002102	exon5	c.247-1G>T	.	TCATGCCTGTGAT	.	127.0	41.0	186.0	0.0	.	21	.	.	Atlas-SNP
PRDM9	56979	hgsc.bcm.edu	hg19	5	23526821	23526821	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	PRDM9	NM_020227	exon11	c.C1624A	p.H542N	ATTACACACCAAA	.	304.0	79.0	174.0	0.0	.	344	.	.	Atlas-SNP
PLCXD3	345557	hgsc.bcm.edu	hg19	5	41382470	41382470	+	Silent	SNP	A	A	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	PLCXD3	NM_001005473	exon2	c.T270A	p.A90A	AATTCCAGCTCCT	.	220.0	129.0	134.0	0.0	.	86	.	.	Atlas-SNP
C5orf28	64417	hgsc.bcm.edu	hg19	5	43446574	43446574	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	C5orf28	NM_022483	exon3	c.A398G	p.H133R	AAAAGGTGCATAG	.	174.0	108.0	104.0	0.0	.	25	.	.	Atlas-SNP
CEP120	153241	hgsc.bcm.edu	hg19	5	122754208	122754208	+	Silent	SNP	A	A	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CEP120	NM_153223	exon3	c.T51G	p.G17G	ATGCCGACCTGGA	.	79.0	16.0	85.0	0.0	.	72	.	.	Atlas-SNP
PDE6A	5145	hgsc.bcm.edu	hg19	5	149247346	149247346	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	PDE6A	NM_000440	exon19	c.C2216A	p.A739D	TCAGCAGCCACCA	.	60.0	14.0	53.0	0.0	.	98	.	.	Atlas-SNP
DDX39B	7919	hgsc.bcm.edu	hg19	6	31507007	31507007	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	DDX39B	NM_004640	exon3	c.C256G	p.L86V	GGCACAGGACATC	.	81.0	40.0	102.0	0.0	.	38	.	.	Atlas-SNP
LST1	7940	hgsc.bcm.edu	hg19	6	31555456	31555456	+	Silent	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	LST1	NM_205840	exon2	c.C58T	p.L20L	GGGCTCCTGCTTC	.	42.0	12.0	46.0	0.0	.	6	.	.	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	hg19	6	37139141	37139141	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	PIM1	NM_001243186	exon4	c.T754A	p.C252S	CACAACTGCGGGG	.	174.0	69.0	165.0	0.0	.	71	.	.	Atlas-SNP
XPO5	57510	hgsc.bcm.edu	hg19	6	43492327	43492327	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	XPO5	NM_020750	exon31	c.A3359T	p.E1120V	TGTATTTCAGGGA	.	120.0	48.0	112.0	0.0	.	79	.	.	Atlas-SNP
TFAP2B	7021	hgsc.bcm.edu	hg19	6	50803905	50803905	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	TFAP2B	NM_003221	exon4	c.A733G	p.K245E	ACTTCGAAGTACA	.	83.0	36.0	74.0	0.0	.	91	.	.	Atlas-SNP
SIM1	6492	hgsc.bcm.edu	hg19	6	100896528	100896528	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	SIM1	NM_005068	exon6	c.G570T	p.K190N	GCGGATCTTCAAG	.	24.0	7.0	21.0	0.0	.	173	.	.	Atlas-SNP
PTPRK	5796	hgsc.bcm.edu	hg19	6	128403764	128403764	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	PTPRK	NM_001135648	exon10	c.G1595T	p.R532I	AATGATCTTATAC	.	118.0	26.0	97.0	0.0	.	330	.	.	Atlas-SNP
WIPF3	644150	hgsc.bcm.edu	hg19	7	29874406	29874406	+	Silent	SNP	C	C	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	WIPF3	NM_001080529	exon2	c.C66G	p.P22P	TCCTCCCCCTCCC	.	332.0	81.0	288.0	0.0	.	46	.	.	Atlas-SNP
MYO1G	64005	hgsc.bcm.edu	hg19	7	45016656	45016656	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	MYO1G	NM_033054	exon2	c.G110A	p.R37H	TAGATGCGGCCCT	.	82.0	5.0	68.0	0.0	.	86	.	.	Atlas-SNP
POM121L12	285877	hgsc.bcm.edu	hg19	7	53104142	53104142	+	Missense_Mutation	SNP	G	G	A	rs202031574	bycluster;alternate_allele	TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	POM121L12,NS,carcinoma,0,1	POM121L12	NM_182595	exon1	c.G778A	p.A260T	CAGCCCGCCCCAT	.	37.0	15.0	26.0	0.0	.	146	.	.	Atlas-SNP
CPA4	51200	hgsc.bcm.edu	hg19	7	129962512	129962512	+	Missense_Mutation	SNP	A	A	T	rs376985428	alternate_allele	TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CPA4	NM_016352	exon11	c.A1262T	p.Y421F	ACCTCTACTAGGC	.	61.0	24.0	70.0	0.0	.	47	.	.	Atlas-SNP
CREB3L2	64764	hgsc.bcm.edu	hg19	7	137567230	137567230	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CREB3L2	NM_194071	exon11	c.A1415T	p.D472V	GGAAGATCCACAT	.	180.0	74.0	129.0	0.0	.	62	.	.	Atlas-SNP
KLRG2	346689	hgsc.bcm.edu	hg19	7	139168233	139168233	+	Silent	SNP	C	C	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	KLRG2	NM_198508	exon1	c.G156C	p.G52G	CACGGCCCCGGCC	.	63.0	10.0	47.0	0.0	.	22	.	.	Atlas-SNP
ZNF282	8427	hgsc.bcm.edu	hg19	7	148907790	148907790	+	Missense_Mutation	SNP	A	A	G	rs141109561		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	ZNF282	NM_003575	exon5	c.A946G	p.I316V	GAATCCATTACCG	.	275.0	127.0	260.0	0.0	.	42	.	A|1.000;G|0.000	Atlas-SNP
NUDT18	79873	hgsc.bcm.edu	hg19	8	21965221	21965221	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	NUDT18	NM_024815	exon5	c.G562A	p.V188I	GGCAGACCAGATC	.	28.0	15.0	94.0	0.0	.	13	.	.	Atlas-SNP
EYA1	2138	hgsc.bcm.edu	hg19	8	72182014	72182014	+	Silent	SNP	G	G	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	EYA1	NM_000503	exon11	c.C1011T	p.H337H	CAAGGAGTGGAAA	.	130.0	31.0	94.0	0.0	.	108	.	.	Atlas-SNP
KIAA2026	158358	hgsc.bcm.edu	hg19	9	5921873	5921873	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	KIAA2026	NM_001017969	exon8	c.C4123T	p.H1375Y	TGGTGTGGCCTAA	.	54.0	45.0	79.0	0.0	.	231	.	.	Atlas-SNP
MVB12B	89853	hgsc.bcm.edu	hg19	9	129148868	129148868	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	.	NM_001011703	exon4	c.A340G	p.M114V	GTAGATATGAAGC	.	58.0	18.0	51.0	0.0	.	.	.	.	Atlas-SNP
RALGDS	5900	hgsc.bcm.edu	hg19	9	135985072	135985072	+	Silent	SNP	T	T	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	RALGDS	NM_006266	exon4	c.A525G	p.R175R	GCCGTATCTAGAG	.	90.0	34.0	88.0	0.0	.	75	.	.	Atlas-SNP
KCNT1	57582	hgsc.bcm.edu	hg19	9	138660742	138660742	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	KCNT1	NM_020822	exon15	c.A1469G	p.Q490R	ACGTCCAGATCCT	.	33.0	13.0	39.0	0.0	.	139	.	.	Atlas-SNP
GBF1	8729	hgsc.bcm.edu	hg19	10	104140434	104140434	+	Missense_Mutation	SNP	G	G	C	rs142268101	bycluster;by1000genomes;alternate_allele	TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	GBF1	NM_004193	exon38	c.G5161C	p.V1721L	CAGACCGTCATCC	.	53.0	34.0	69.0	0.0	.	142	.	G|1.000;A|0.000	Atlas-SNP
ARL3	403	hgsc.bcm.edu	hg19	10	104465227	104465227	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	ARL3	NM_004311	exon2	c.G23A	p.R8H	AACTTGCGCAAAA	.	61.0	31.0	84.0	0.0	.	13	.	.	Atlas-SNP
DMBT1	1755	hgsc.bcm.edu	hg19	10	124336218	124336218	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	DMBT1	NM_007329	exon7	c.A587G	p.D196G	GTGAAGATGCTGG	.	84.0	20.0	95.0	0.0	.	677	.	.	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	hg19	10	129913465	129913465	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	MKI67	NM_002417	exon7	c.G1207C	p.A403P	CTTTAGCTGGTGT	.	110.0	31.0	118.0	0.0	.	363	.	.	Atlas-SNP
CYP2E1	1571	hgsc.bcm.edu	hg19	10	135352460	135352460	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CYP2E1	NM_000773	exon9	c.C1474T	p.R492C	ATTCCCCGCTCAT	.	53.0	23.0	77.0	0.0	.	69	.	.	Atlas-SNP
HBD	3045	hgsc.bcm.edu	hg19	11	5254217	5254217	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	HBD	NM_000519	exon3	c.G421T	p.A141S	CCAGGGCATTAGC	.	87.0	18.0	91.0	0.0	.	35	.	.	Atlas-SNP
CD44	960	hgsc.bcm.edu	hg19	11	35208383	35208383	+	Silent	SNP	A	A	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CD44	NM_001001391	exon4	c.A372T	p.P124P	AGCTCCACCTGAA	.	78.0	29.0	79.0	0.0	.	48	.	.	Atlas-SNP
GLYATL1	92292	hgsc.bcm.edu	hg19	11	58723497	58723497	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	GLYATL1	NM_080661	exon7	c.T999G	p.F333L	TCCATTTTAGACA	.	80.0	36.0	75.0	0.0	.	89	.	.	Atlas-SNP
MS4A7	58475	hgsc.bcm.edu	hg19	11	60157018	60157018	+	Silent	SNP	T	T	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	MS4A7	NM_021201	exon5	c.T495C	p.Y165Y	GTACTATTATCCA	.	58.0	18.0	60.0	0.0	.	38	.	.	Atlas-SNP
AMOTL1	154810	hgsc.bcm.edu	hg19	11	94603926	94603926	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	AMOTL1	NM_130847	exon13	c.T2837C	p.F946S	CCGAGTTCCCTGA	.	45.0	17.0	47.0	0.0	.	95	.	.	Atlas-SNP
USP2	9099	hgsc.bcm.edu	hg19	11	119243744	119243744	+	Silent	SNP	A	A	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	USP2	NM_004205	exon2	c.T447C	p.D149D	GGAGAAATCCCGG	.	70.0	26.0	84.0	0.0	.	71	.	.	Atlas-SNP
VWF	7450	hgsc.bcm.edu	hg19	12	6182863	6182863	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	VWF,NS,carcinoma,0,1	VWF	NM_000552	exon8	c.C919T	p.P307S	CGCAAGGGGACAC	.	39.0	18.0	28.0	0.0	.	338	.	.	Atlas-SNP
CLEC9A	283420	hgsc.bcm.edu	hg19	12	10205329	10205329	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CLEC9A	NM_207345	exon4	c.C43G	p.P15A	GATAGCCCAGCAC	.	54.0	26.0	103.0	0.0	.	41	.	.	Atlas-SNP
KIAA1551	55196	hgsc.bcm.edu	hg19	12	32136720	32136720	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	.	NM_018169	exon4	c.A2831G	p.D944G	AATTAGATAATAC	.	42.0	19.0	79.0	0.0	.	.	.	.	Atlas-SNP
PDZRN4	29951	hgsc.bcm.edu	hg19	12	41900359	41900359	+	Silent	SNP	T	T	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	PDZRN4	NM_001164595	exon4	c.T945C	p.P315P	AACACCTCTTAGT	.	59.0	39.0	87.0	0.0	.	346	.	.	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	hg19	12	57594875	57594875	+	Silent	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	LRP1	NM_002332	exon65	c.C10284T	p.P3428P	TATTCCCGGCATC	.	60.0	15.0	55.0	0.0	.	428	.	.	Atlas-SNP
CIT	11113	hgsc.bcm.edu	hg19	12	120220408	120220408	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CIT	NM_001206999	exon13	c.G1579A	p.E527K	ACACCTCCATCCG	.	49.0	27.0	65.0	0.0	.	535	.	.	Atlas-SNP
CCDC169	728591	hgsc.bcm.edu	hg19	13	36827982	36827982	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CCDC169	NM_001144981	exon6	c.G426T	p.K142N	GTTGATCTTCTGG	.	56.0	20.0	119.0	0.0	.	20	.	.	Atlas-SNP
IRG1	730249	hgsc.bcm.edu	hg19	13	77531898	77531898	+	Silent	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	IRG1	NM_001258406	exon4	c.C1212T	p.H404H	TGGGCACTGGAGA	.	60.0	27.0	120.0	0.0	.	1	.	.	Atlas-SNP
TMTC4	84899	hgsc.bcm.edu	hg19	13	101289831	101289831	+	Silent	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	TMTC4	NM_032813	exon9	c.G960T	p.V320V	GTTGTCCACCTCG	.	65.0	24.0	88.0	0.0	.	103	.	.	Atlas-SNP
PRPF39	55015	hgsc.bcm.edu	hg19	14	45571737	45571737	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	PRPF39	NM_017922	exon5	c.T575G	p.F192C	GAACTTTTGAGCA	.	43.0	23.0	74.0	0.0	.	46	.	.	Atlas-SNP
PRPF39	55015	hgsc.bcm.edu	hg19	14	45571769	45571769	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	PRPF39	NM_017922	exon5	c.T607G	p.F203V	ACAGATTTCCGTT	.	58.0	23.0	106.0	0.0	.	46	.	.	Atlas-SNP
NPAP1	23742	hgsc.bcm.edu	hg19	15	24922750	24922750	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	.	NM_018958	exon1	c.A1736T	p.D579V	ATATGGATACTAC	.	84.0	20.0	98.0	0.0	.	.	.	.	Atlas-SNP
DUOX2	50506	hgsc.bcm.edu	hg19	15	45388244	45388244	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	DUOX2	NM_014080	exon30	c.C3862A	p.Q1288K	GGAATTGCAGGTA	.	71.0	17.0	89.0	0.0	.	137	.	.	Atlas-SNP
DIS3L	115752	hgsc.bcm.edu	hg19	15	66599227	66599227	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	DIS3L	NM_001143688	exon3	c.A359G	p.E120G	CTAATGAATTCCA	.	61.0	21.0	48.0	0.0	.	175	.	.	Atlas-SNP
ISLR2	57611	hgsc.bcm.edu	hg19	15	74426696	74426696	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	ISLR2	NM_001130138	exon4	c.C1601T	p.P534L	TGTGTCCAGCGGG	.	44.0	30.0	35.0	0.0	.	78	.	.	Atlas-SNP
ZNF592	9640	hgsc.bcm.edu	hg19	15	85327987	85327987	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	ZNF592	NM_014630	exon4	c.C2081T	p.P694L	CCCCTCCTCCAGC	.	59.0	26.0	71.0	0.0	.	95	.	.	Atlas-SNP
ARRDC4	91947	hgsc.bcm.edu	hg19	15	98512602	98512602	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	ARRDC4	NM_183376	exon5	c.C875A	p.S292Y	ACTATTCCTTAGC	.	85.0	44.0	99.0	0.0	.	30	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7578275	7578275	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	TP53_ENST00000545858,NS,carcinoma,0,1	TP53	NM_000546	exon6	c.C574T	p.Q192X	GATGCTGAGGAGG	.	87.0	64.0	153.0	0.0	.	33396	.	.	Atlas-SNP
RARA	5914	hgsc.bcm.edu	hg19	17	38508601	38508601	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	RARA	NM_000964	exon6	c.C649A	p.R217S	GAACAACGTGTCT	.	50.0	12.0	59.0	0.0	.	52	.	.	Atlas-SNP
KRT13	3860	hgsc.bcm.edu	hg19	17	39659035	39659035	+	Silent	SNP	G	G	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	KRT13,bladder,carcinoma,0,1	KRT13	NM_002274	exon5	c.C927A	p.T309T	AGTGTTGGTAGAC	.	68.0	26.0	52.0	0.0	.	72	.	.	Atlas-SNP
KRT13	3860	hgsc.bcm.edu	hg19	17	39659036	39659036	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	KRT13	NM_002274	exon5	c.C926A	p.T309N	GTGTTGGTAGACA	.	68.0	27.0	52.0	0.0	.	72	.	.	Atlas-SNP
SOX9	6662	hgsc.bcm.edu	hg19	17	70117638	70117638	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	SOX9	NM_000346	exon1	c.C106T	p.P36S	CCCTGCCCGTCGG	.	272.0	111.0	244.0	0.0	.	91	.	.	Atlas-SNP
CBX4	8535	hgsc.bcm.edu	hg19	17	77808306	77808306	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CBX4	NM_003655	exon5	c.C1135T	p.P379S	AGGGCGGGTGCGT	.	51.0	17.0	44.0	0.0	.	40	.	.	Atlas-SNP
TRAPPC8	22878	hgsc.bcm.edu	hg19	18	29488760	29488760	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	TRAPPC8	NM_014939	exon7	c.T1079C	p.L360P	GGCAAAAGGCCCC	.	86.0	4.0	82.0	0.0	.	126	.	.	Atlas-SNP
SALL3	27164	hgsc.bcm.edu	hg19	18	76755362	76755362	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	SALL3,colon,carcinoma,0,1	SALL3	NM_171999	exon2	c.C3371A	p.S1124X	TCTCCTCGGCCAG	.	28.0	10.0	23.0	0.0	.	162	.	.	Atlas-SNP
ZNF208	7757	hgsc.bcm.edu	hg19	19	22154761	22154761	+	Silent	SNP	T	T	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	ZNF208	NM_007153	exon4	c.A3075G	p.G1025G	TGTCTCTCCAGTG	.	292.0	46.0	138.0	0.0	.	817	.	.	Atlas-SNP
SIX5	147912	hgsc.bcm.edu	hg19	19	46268971	46268971	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	SIX5	NM_175875	exon3	c.G2008T	p.E670X	TTAGTTCCAGCCC	.	112.0	79.0	56.0	0.0	.	35	.	.	Atlas-SNP
SIX5	147912	hgsc.bcm.edu	hg19	19	46268972	46268972	+	Silent	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	SIX5	NM_175875	exon3	c.G2007T	p.L669L	TAGTTCCAGCCCT	.	111.0	78.0	56.0	0.0	.	35	.	.	Atlas-SNP
SEL1L2	80343	hgsc.bcm.edu	hg19	20	13912332	13912332	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	SEL1L2	NM_001271539	exon3	c.T200C	p.L67P	TCCAGGAGATTTT	.	99.0	48.0	84.0	0.0	.	103	.	.	Atlas-SNP
ZFP64	55734	hgsc.bcm.edu	hg19	20	50781292	50781292	+	Silent	SNP	G	G	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	ZFP64	NM_018197	exon4	c.C453T	p.C151C	GAATTGGCAACCT	.	43.0	15.0	39.0	0.0	.	240	.	.	Atlas-SNP
OGFR	11054	hgsc.bcm.edu	hg19	20	61443981	61443981	+	Silent	SNP	G	G	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	OGFR	NM_007346	exon7	c.G1014T	p.G338G	GGGTGGGGGCAGG	.	110.0	41.0	142.0	0.0	.	63	.	.	Atlas-SNP
BRWD1	54014	hgsc.bcm.edu	hg19	21	40568678	40568678	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	BRWD1	NM_018963	exon41	c.A6317G	p.K2106R	GGAGCCTTTCCAT	.	42.0	11.0	58.0	0.0	.	325	.	.	Atlas-SNP
SLC37A1	54020	hgsc.bcm.edu	hg19	21	43955639	43955639	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	SLC37A1	NM_018964	exon6	c.A329G	p.Y110C	GCGCCTATGCCGT	.	69.0	29.0	93.0	0.0	.	48	.	.	Atlas-SNP
CCDC116	164592	hgsc.bcm.edu	hg19	22	21989329	21989329	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CCDC116	NM_152612	exon4	c.G977C	p.G326A	TCCGTGGCGCCCA	.	70.0	38.0	72.0	0.0	.	56	.	.	Atlas-SNP
LARGE	9215	hgsc.bcm.edu	hg19	22	33733771	33733771	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	LARGE	NM_004737	exon11	c.C1148G	p.S383C	TTGGGGGAGTTCC	.	118.0	50.0	155.0	0.0	.	98	.	.	Atlas-SNP
PRR5	55615	hgsc.bcm.edu	hg19	22	45132994	45132994	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	PRR5	NM_001198721	exon10	c.C1103T	p.P368L	CCAGCCCGGAGAA	.	85.0	40.0	93.0	0.0	.	75	.	.	Atlas-SNP
SHANK3	85358	hgsc.bcm.edu	hg19	22	51113605	51113605	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	SHANK3	NM_033517	exon2	c.G193T	p.G65C	CGCGCCGGCAAGT	.	87.0	5.0	105.0	0.0	.	96	.	.	Atlas-SNP
UBA1	7317	hgsc.bcm.edu	hg19	X	47065414	47065414	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	UBA1	NM_153280	exon15	c.A1643G	p.H548R	CAAGCCACCAGAA	.	113.0	52.0	120.0	0.0	.	89	.	.	Atlas-SNP
RBMX2	51634	hgsc.bcm.edu	hg19	X	129546795	129546795	+	Silent	SNP	G	G	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	RBMX2	NM_016024	exon6	c.G942T	p.S314S	GTCTTCGAATCCC	.	121.0	5.0	124.0	0.0	.	46	.	.	Atlas-SNP
MAGEC3	139081	hgsc.bcm.edu	hg19	X	140984732	140984732	+	Silent	SNP	C	C	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	MAGEC3	NM_138702	exon7	c.C1188A	p.P396P	TCCTCCCCAGGGT	.	44.0	39.0	48.0	0.0	.	228	.	.	Atlas-SNP
MAGEC1	9947	hgsc.bcm.edu	hg19	X	140994996	140994996	+	Silent	SNP	G	G	T	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	MAGEC1	NM_005462	exon4	c.G1806T	p.G602G	TCAGGGGGAGGAC	.	102.0	39.0	100.0	0.0	.	317	.	.	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	13633	13633	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	.	ENST00000361567	exon1	c.G1297A	p.G433S	CTAACAGGTCAAC	.	30.0	6.0	17.0	0.0	.	.	.	.	Atlas-SNP
SLFN12	55106	hgsc.bcm.edu	hg19	17	33749492	33749493	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.,3	SLFN12	NM_018042	exon2	c.556_557insT	p.D186_R187delinsX	.	.	101.0	17.0	100.0	0.0	.	56	.	.	Atlas-INDEL
SCP2	6342	hgsc.bcm.edu	hg19	1	53504627	53504637	+	Frame_Shift_Del	DEL	TGCCTTCAAGG	TGCCTTCAAGG	-	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	TGCCTTCAAGG	TGCCTTCAAGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	SCP2	NM_002979	exon14	c.1376_1386del	p.459_462del	.	.	128.0	14.0	141.0	0.0	.	44	.	.	Atlas-INDEL
ARID1A	8289	hgsc.bcm.edu	hg19	1	27023218	27023222	+	Frame_Shift_Del	DEL	CCCTA	CCCTA	-	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	CCCTA	CCCTA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	ARID1A	NM_006015	exon1	c.323_327del	p.108_109del	.	.	18.0	11.0	29.0	0.0	.	842	.	.	Atlas-INDEL
NCBP1	4686	hgsc.bcm.edu	hg19	9	100423350	100423375	+	Frame_Shift_Del	DEL	GGTAAGTGGAATTCAGTATTTCTTAA	GGTAAGTGGAATTCAGTATTTCTTAA	-	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	GGTAAGTGGAATTCAGTATTTCTTAA	GGTAAGTGGAATTCAGTATTTCTTAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	NCBP1	NM_002486	exon16	c.1599_1600del	p.533_534del	.	.	41.0	11.0	40.0	0.0	.	64	.	.	Atlas-INDEL
CEP164	22897	hgsc.bcm.edu	hg19	11	117251354	117251359	+	In_Frame_Del	DEL	GACAAG	GACAAG	-	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	GACAAG	GACAAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	CEP164	NM_001271933	exon11	c.1341_1346del	p.447_449del	.	.	54.0	19.0	68.0	0.0	.	121	.	.	Atlas-INDEL
PLEKHG1	57480	hgsc.bcm.edu	hg19	6	151161379	151161380	+	Frame_Shift_Del	DEL	AA	AA	-	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	PLEKHG1	NM_001029884	exon17	c.3504_3505del	p.1168_1169del	.	.	77.0	28.0	83.0	0.0	.	97	.	.	Atlas-INDEL
PTPMT1	114971	hgsc.bcm.edu	hg19	11	47591365	47591365	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	PTPMT1	NM_175732	exon3	c.368delC	p.S123fs	.	.	89.0	33.0	86.0	0.0	.	17	.	.	Atlas-INDEL
COL11A2	1302	hgsc.bcm.edu	hg19	6	33135050	33135051	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	COL11A2	NM_080680	exon57	c.4167_4168insC	p.P1389fs	.	.	122.0	50.0	119.0	0.0	.	124	.	.	Atlas-INDEL
ZNF317	57693	hgsc.bcm.edu	hg19	19	9271261	9271281	+	In_Frame_Del	DEL	GCTTACGGCCGGAGCTGCCAC	GCTTACGGCCGGAGCTGCCAC	-	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	GCTTACGGCCGGAGCTGCCAC	GCTTACGGCCGGAGCTGCCAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	ZNF317	NM_020933	exon7	c.939_959del	p.313_320del	.	.	26.0	18.0	64.0	0.0	.	61	.	.	Atlas-INDEL
SHB	6461	hgsc.bcm.edu	hg19	9	38068423	38068428	+	In_Frame_Del	DEL	TGTCGT	TGTCGT	-	novel		TCGA-DD-AACG-01A-11D-A40R-10	TCGA-DD-AACG-10A-01D-A40U-10	TGTCGT	TGTCGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6c6ddfbe-37e1-413a-b7f2-03b4ec624939	f02542e5-142c-4397-812e-dc8806103f40	.	SHB	NM_003028	exon1	c.216_221del	p.72_74del	.	.	72.0	26.0	81.0	0.0	.	31	.	.	Atlas-INDEL