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
KCNA3	3738	hgsc.bcm.edu	hg19	1	111217151	111217151	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	KCNA3	NM_002232	exon1	c.C281A	p.P94Q	GCGGCCGGCAGTG	.	99.0	4.0	103.0	0.0	.	91	.	.	Atlas-SNP
TCHH	7062	hgsc.bcm.edu	hg19	1	152084323	152084323	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	TCHH	NM_007113	exon3	c.G1370T	p.W457L	TTCAGCCAATCGC	.	56.0	10.0	44.0	0.0	.	275	.	.	Atlas-SNP
DCST1	149095	hgsc.bcm.edu	hg19	1	155011941	155011941	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	DCST1	NM_152494	exon5	c.C325T	p.P109S	CTAGTACCCAAGA	.	111.0	6.0	70.0	0.0	.	69	.	.	Atlas-SNP
ARHGAP30	257106	hgsc.bcm.edu	hg19	1	161018501	161018501	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	ARHGAP30	NM_001025598	exon12	c.G2310A	p.E770E	CCCTTGCTCTAGG	.	189.0	135.0	122.0	0.0	.	105	.	.	Atlas-SNP
SLC30A1	7779	hgsc.bcm.edu	hg19	1	211751728	211751728	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	SLC30A1,NS,carcinoma,0,1	SLC30A1	NM_021194	exon1	c.G227T	p.R76L	TCGGCTCGGATCC	.	212.0	148.0	167.0	0.0	.	27	.	.	Atlas-SNP
RAB3GAP2	25782	hgsc.bcm.edu	hg19	1	220340743	220340743	+	Splice_Site	SNP	T	T	C	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	RAB3GAP2	NM_012414	exon27	c.2981-2A>G	.	TAAGTCTGAAAGT	.	267.0	183.0	183.0	1.0	.	120	.	.	Atlas-SNP
HIST3H2A	92815	hgsc.bcm.edu	hg19	1	228645397	228645397	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	HIST3H2A	NM_033445	exon1	c.C122T	p.S41L	CGCTCCGAATAGT	.	324.0	18.0	175.0	0.0	.	13	.	.	Atlas-SNP
CEP170	9859	hgsc.bcm.edu	hg19	1	243354614	243354614	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	CEP170	NM_001042405	exon8	c.A814T	p.I272L	CTGTTATATGGGA	.	167.0	108.0	117.0	0.0	.	153	.	.	Atlas-SNP
RPS27A	6233	hgsc.bcm.edu	hg19	2	55460543	55460543	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	RPS27A	NM_001135592	exon3	c.G93A	p.Q31Q	GATCCAGGATAAG	.	92.0	4.0	99.0	0.0	.	12	.	.	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	hg19	2	73613036	73613036	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	ALMS1	NM_015120	exon1	c.G40C	p.E14Q	CTGGAGGAGGAGG	.	263.0	19.0	186.0	0.0	.	384	.	.	Atlas-SNP
SLC9A2	6549	hgsc.bcm.edu	hg19	2	103236548	103236548	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	SLC9A2	NM_003048	exon1	c.C241A	p.P81T	CAGATCCCCTTCG	.	211.0	67.0	196.0	0.0	.	112	.	.	Atlas-SNP
PSD4	23550	hgsc.bcm.edu	hg19	2	113940649	113940649	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	PSD4	NM_012455	exon2	c.C616T	p.P206S	AGCCCACCTGAGA	.	72.0	5.0	78.0	0.0	.	74	.	.	Atlas-SNP
COL4A4	1286	hgsc.bcm.edu	hg19	2	227919329	227919329	+	Silent	SNP	C	C	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	COL4A4	NM_000092	exon31	c.G2841T	p.R947R	CAGTCCCCGGTCT	.	152.0	9.0	123.0	0.0	.	215	.	.	Atlas-SNP
NEU2	4759	hgsc.bcm.edu	hg19	2	233897434	233897434	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	NEU2	NM_005383	exon1	c.A53T	p.H18L	GAGCCCATGCCTA	.	125.0	30.0	128.0	0.0	.	42	.	.	Atlas-SNP
MYH15	22989	hgsc.bcm.edu	hg19	3	108179187	108179187	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	MYH15	NM_014981	exon18	c.A1952T	p.K651M	CCTTTCTTTCGTT	.	283.0	20.0	269.0	0.0	.	223	.	.	Atlas-SNP
VWA5B2	90113	hgsc.bcm.edu	hg19	3	183959046	183959046	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	VWA5B2	NM_138345	exon18	c.G3034A	p.D1012N	TTGGGGGACCCTG	.	178.0	16.0	166.0	0.0	.	47	.	.	Atlas-SNP
ACOX3	8310	hgsc.bcm.edu	hg19	4	8418225	8418225	+	Silent	SNP	G	G	A	rs146635266		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	ACOX3	NM_001101667	exon2	c.C24T	p.G8G	TGTGTCGCCTCCT	.	112.0	32.0	80.0	0.0	.	70	.	G|1.000;A|0.000	Atlas-SNP
MMRN1	22915	hgsc.bcm.edu	hg19	4	90856570	90856570	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	MMRN1	NM_007351	exon6	c.C1739A	p.S580Y	CCGTCTCTTTGGA	.	193.0	45.0	215.0	0.0	.	174	.	.	Atlas-SNP
KIAA1109	84162	hgsc.bcm.edu	hg19	4	123260512	123260512	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	KIAA1109	NM_015312	exon70	c.A12301G	p.N4101D	GGAGGTAATGCTA	.	162.0	46.0	157.0	0.0	.	424	.	.	Atlas-SNP
ARHGAP10	79658	hgsc.bcm.edu	hg19	4	148743969	148743969	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	ARHGAP10	NM_024605	exon2	c.C246G	p.C82W	ACGATGCATAGGT	.	203.0	38.0	156.0	0.0	.	92	.	.	Atlas-SNP
MAST4	375449	hgsc.bcm.edu	hg19	5	66460639	66460639	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.,1	MAST4	NM_001164664	exon29	c.C5632T	p.P1878S	TTCCTGCCCCCCA	.	103.0	19.0	86.0	0.0	.	218	.	.	Atlas-SNP
AQPEP	0	hgsc.bcm.edu	hg19	5	115327845	115327845	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	.	NM_173800	exon5	c.C1131A	p.D377E	TTTTGACAACCAT	.	114.0	23.0	109.0	0.0	.	.	.	.	Atlas-SNP
RAPGEF6	51735	hgsc.bcm.edu	hg19	5	130797637	130797637	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	RAPGEF6	NM_001164387	exon20	c.G2640A	p.L880L	ACGAAACAAATCA	.	146.0	46.0	124.0	0.0	.	361	.	.	Atlas-SNP
KLHL3	26249	hgsc.bcm.edu	hg19	5	136974747	136974747	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	KLHL3	NM_017415	exon10	c.G1114C	p.D372H	ACTGGTCCTTCAC	.	87.0	7.0	77.0	0.0	.	54	.	.	Atlas-SNP
HBEGF	1839	hgsc.bcm.edu	hg19	5	139714267	139714267	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	HBEGF	NM_001945	exon5	c.C621T	p.S207S	TCAGTGGGAATTA	.	108.0	5.0	99.0	0.0	.	12	.	.	Atlas-SNP
ARAP3	64411	hgsc.bcm.edu	hg19	5	141034964	141034964	+	Nonsense_Mutation	SNP	G	G	A	rs372420144		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	ARAP3	NM_022481	exon32	c.C4114T	p.R1372X	GTAGTCGCCGCTG	.	197.0	55.0	172.0	0.0	.	139	.	.	Atlas-SNP
PTTG1	9232	hgsc.bcm.edu	hg19	5	159855662	159855662	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	PTTG1	NM_004219	exon6	c.C583A	p.P195T	TTGCCACCTGTTT	.	75.0	10.0	66.0	0.0	.	15	.	.	Atlas-SNP
FARS2	10667	hgsc.bcm.edu	hg19	6	5369227	5369227	+	Missense_Mutation	SNP	G	G	A	rs145555213		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	FARS2	NM_006567	exon2	c.G424A	p.D142N	AAGGGGGACAACT	.	763.0	183.0	752.0	1.0	.	33	.	G|1.000;A|0.000	Atlas-SNP
HSD17B8	7923	hgsc.bcm.edu	hg19	6	33172866	33172866	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	HSD17B8	NM_014234	exon2	c.G240T	p.R80S	GGCCAGGGCCGCC	.	68.0	20.0	57.0	0.0	.	20	.	.	Atlas-SNP
ARMC12	221481	hgsc.bcm.edu	hg19	6	35715163	35715163	+	Silent	SNP	G	G	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	.	NM_145028	exon4	c.G651T	p.V217V	ACGGGTGATGCCT	.	87.0	25.0	72.0	0.0	.	.	.	.	Atlas-SNP
SENP6	26054	hgsc.bcm.edu	hg19	6	76344460	76344460	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	SENP6	NM_001100409	exon5	c.G391T	p.V131L	GGAACTGTAGTTC	.	122.0	29.0	84.0	0.0	.	189	.	.	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	hg19	6	90460121	90460121	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	MDN1	NM_014611	exon24	c.A3358G	p.I1120V	AACCAATGTACTC	.	122.0	39.0	121.0	0.0	.	478	.	.	Atlas-SNP
FSCN1	6624	hgsc.bcm.edu	hg19	7	5633032	5633032	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	FSCN1	NM_003088	exon1	c.G465A	p.L155L	GCACCTGAGCGCG	.	244.0	74.0	200.0	0.0	.	29	.	.	Atlas-SNP
SEMA3C	10512	hgsc.bcm.edu	hg19	7	80374511	80374511	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	SEMA3C	NM_006379	exon18	c.A1955G	p.Q652R	ATGGTCTGCTTGA	.	116.0	24.0	126.0	0.0	.	106	.	.	Atlas-SNP
SEMA3A	10371	hgsc.bcm.edu	hg19	7	83610774	83610774	+	Silent	SNP	T	T	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	SEMA3A	NM_006080	exon14	c.A1515T	p.S505S	AGCCGTTGAACCA	.	161.0	33.0	135.0	0.0	.	121	.	.	Atlas-SNP
PODXL	5420	hgsc.bcm.edu	hg19	7	131241029	131241029	+	Silent	SNP	G	G	C	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	PODXL	NM_001018111	exon1	c.C90G	p.P30P	CTGGGAGGGCGAC	.	127.0	10.0	92.0	0.0	.	53	.	.	Atlas-SNP
PODXL	5420	hgsc.bcm.edu	hg19	7	131241055	131241055	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	PODXL	NM_001018111	exon1	c.T64C	p.S22P	GCGACGACGGCAG	.	130.0	9.0	101.0	0.0	.	53	.	.	Atlas-SNP
BNIP3L	665	hgsc.bcm.edu	hg19	8	26265768	26265768	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	BNIP3L	NM_004331	exon5	c.C487T	p.R163C	CCTAAACGTTCTG	.	127.0	38.0	139.0	0.0	.	7	.	.	Atlas-SNP
RIMS2	9699	hgsc.bcm.edu	hg19	8	104778484	104778484	+	Silent	SNP	A	A	G	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	RIMS2	NM_001100117	exon3	c.A417G	p.K139K	CCGAAAACAACAA	.	199.0	30.0	132.0	0.0	.	1357	.	.	Atlas-SNP
HAUS6	54801	hgsc.bcm.edu	hg19	9	19102558	19102558	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	HAUS6	NM_017645	exon1	c.C92T	p.A31V	CCGCAGGCAATGG	.	218.0	59.0	204.0	0.0	.	66	.	.	Atlas-SNP
CDKN2A	1029	hgsc.bcm.edu	hg19	9	21971101	21971101	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	CDKN2A,NS,carcinoma,0,1	CDKN2A	NM_058195	exon2	c.C300A	p.C100X	TCCCGGGCAGCGT	.	133.0	43.0	139.0	0.0	.	4810	.	.	Atlas-SNP
FGD3	89846	hgsc.bcm.edu	hg19	9	95780428	95780428	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	FGD3	NM_001083536	exon11	c.T1286A	p.I429N	AGGATATCGTCAA	.	65.0	19.0	80.0	0.0	.	116	.	.	Atlas-SNP
FKBP15	23307	hgsc.bcm.edu	hg19	9	115959216	115959216	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	FKBP15	NM_015258	exon9	c.G860T	p.R287M	ACCCGCCTAACCT	.	120.0	19.0	103.0	0.0	.	128	.	.	Atlas-SNP
CCDC7	221016	hgsc.bcm.edu	hg19	10	32833205	32833205	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	CCDC7,parotid,carcinoma,0,1	CCDC7	NM_145023	exon14	c.A1110G	p.I370M	TAAAATAAAAGAA	.	417.0	127.0	396.0	0.0	.	47	.	.	Atlas-SNP
DENND5A	23258	hgsc.bcm.edu	hg19	11	9225351	9225351	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	DENND5A	NM_015213	exon4	c.A805G	p.I269V	AGATTATTGGCCC	.	198.0	43.0	163.0	0.0	.	84	.	.	Atlas-SNP
ABCC8	6833	hgsc.bcm.edu	hg19	11	17496563	17496563	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	ABCC8	NM_000352	exon2	c.C160T	p.Q54X	AGCTCTGACTTCC	.	114.0	22.0	92.0	0.0	.	170	.	.	Atlas-SNP
CHST1	8534	hgsc.bcm.edu	hg19	11	45672282	45672282	+	Silent	SNP	G	G	A	rs200379237		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	CHST1	NM_003654	exon4	c.C192T	p.L64L	CAGGATGAGGATG	.	132.0	6.0	113.0	0.0	.	81	.	G|0.999;A|0.001	Atlas-SNP
OR5L2	26338	hgsc.bcm.edu	hg19	11	55594822	55594822	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	OR5L2	NM_001004739	exon1	c.T128A	p.L43Q	CCAATCTGGGCAT	.	94.0	23.0	102.0	0.0	.	135	.	.	Atlas-SNP
DCUN1D5	84259	hgsc.bcm.edu	hg19	11	102935046	102935046	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	DCUN1D5	NM_032299	exon7	c.A616T	p.T206S	GGACTGTTCTGCT	.	74.0	20.0	55.0	0.0	.	11	.	.	Atlas-SNP
OR8D4	338662	hgsc.bcm.edu	hg19	11	123777473	123777473	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	OR8D4	NM_001005197	exon1	c.G335A	p.C112Y	CTGAATGCTACAT	.	79.0	19.0	86.0	0.0	.	62	.	.	Atlas-SNP
AMHR2	269	hgsc.bcm.edu	hg19	12	53825147	53825147	+	Missense_Mutation	SNP	G	G	T	rs116281343	bycluster;by1000genomes;alternate_allele	TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	AMHR2	NM_020547	exon11	c.G1612T	p.A538S	ATTCCTGCCCCTA	.	85.0	22.0	86.0	0.0	.	61	.	G|0.999;A|0.001	Atlas-SNP
HECTD4	283450	hgsc.bcm.edu	hg19	12	112721009	112721009	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	.	NM_001109662	exon8	c.T1001C	p.L334P	CTACTTAGAAGCA	.	174.0	43.0	154.0	0.0	.	.	.	.	Atlas-SNP
TMEM132D	121256	hgsc.bcm.edu	hg19	12	130185090	130185090	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	TMEM132D	NM_133448	exon2	c.G233A	p.R78Q	TCCACCCGGGACT	.	144.0	36.0	156.0	0.0	.	299	.	.	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	hg19	14	20296452	20296452	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	OR4N2	NM_001004723	exon1	c.T845C	p.L282S	CTTTGTTGAATCC	.	152.0	32.0	125.0	0.0	.	125	.	.	Atlas-SNP
ITPK1	3705	hgsc.bcm.edu	hg19	14	93408041	93408041	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	ITPK1	NM_001142593	exon11	c.G1110A	p.A370A	CCAGGGCGCGTCC	.	45.0	10.0	29.0	0.0	.	53	.	.	Atlas-SNP
NEO1	4756	hgsc.bcm.edu	hg19	15	73552722	73552722	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	NEO1	NM_001172623	exon15	c.G2314A	p.A772T	GGTTACGCCATTG	.	150.0	12.0	129.0	0.0	.	102	.	.	Atlas-SNP
UNC45A	55898	hgsc.bcm.edu	hg19	15	91493443	91493443	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	UNC45A	NM_018671	exon16	c.C2133T	p.A711A	CCAGGCCCTTGCC	.	134.0	10.0	97.0	0.0	.	57	.	.	Atlas-SNP
ABCC6	368	hgsc.bcm.edu	hg19	16	16248587	16248587	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	ABCC6	NM_001171	exon29	c.A4106C	p.E1369A	ATAGCCTCGTCCG	.	137.0	47.0	148.0	0.0	.	110	.	.	Atlas-SNP
FAM57B	83723	hgsc.bcm.edu	hg19	16	30041827	30041827	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	FAM57B	NM_031478	exon1	c.G22T	p.G8W	CCCCCCCGGCCAC	.	156.0	41.0	143.0	0.0	.	26	.	.	Atlas-SNP
NFATC3	4775	hgsc.bcm.edu	hg19	16	68160388	68160388	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	NFATC3	NM_173163	exon3	c.G1276T	p.A426S	TTACCAGCTCATT	.	143.0	39.0	122.0	0.0	.	190	.	.	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	hg19	17	4580066	4580066	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	PELP1	NM_014389	exon6	c.G684T	p.L228F	AGGGCTCAAGGCA	.	196.0	28.0	186.0	0.0	.	102	.	.	Atlas-SNP
SLFN12L	100506736	hgsc.bcm.edu	hg19	17	33806550	33806550	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	SLFN12L	NM_001195790	exon2	c.T679G	p.F227V	TCGAGAAGTTTTT	.	119.0	19.0	93.0	0.0	.	140	.	.	Atlas-SNP
HOXB4	3214	hgsc.bcm.edu	hg19	17	46655393	46655393	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	HOXB4	NM_024015	exon1	c.C289T	p.P97S	CGGGTGGCGGCGC	.	30.0	7.0	17.0	0.0	.	16	.	.	Atlas-SNP
DCXR	51181	hgsc.bcm.edu	hg19	17	79995521	79995521	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	DCXR	NM_001195218	exon1	c.C38T	p.T13I	GCCCCGGTGACCA	.	94.0	18.0	78.0	0.0	.	10	.	.	Atlas-SNP
FASN	2194	hgsc.bcm.edu	hg19	17	80051184	80051184	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	FASN	NM_004104	exon5	c.A566C	p.N189T	AGGACATTGATGC	.	191.0	68.0	155.0	0.0	.	154	.	.	Atlas-SNP
CDH7	1005	hgsc.bcm.edu	hg19	18	63481780	63481780	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	CDH7	NM_004361	exon4	c.G565A	p.A189T	AACAGTGCCAGAG	.	130.0	39.0	109.0	0.0	.	362	.	.	Atlas-SNP
C19orf21	126353	hgsc.bcm.edu	hg19	19	758004	758004	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	C19orf21	NM_173481	exon2	c.G1058A	p.R353Q	TGCAGCGGGACAT	.	37.0	8.0	38.0	0.0	.	56	.	.	Atlas-SNP
NFIC	4782	hgsc.bcm.edu	hg19	19	3452573	3452573	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	NFIC,colon,carcinoma,0,1	NFIC	NM_001245004	exon8	c.C1178T	p.A393V	ACACGGCCATCCG	.	79.0	9.0	74.0	0.0	.	36	.	.	Atlas-SNP
ZNF99	7652	hgsc.bcm.edu	hg19	19	22941303	22941303	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	ZNF99	NM_001080409	exon4	c.A1408G	p.K470E	CATGTTTTCTAAG	.	105.0	29.0	67.0	0.0	.	273	.	.	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	hg19	19	40434029	40434029	+	Silent	SNP	G	G	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	FCGBP	NM_003890	exon2	c.C240A	p.V80V	CACTGTGACCTTC	.	146.0	34.0	131.0	0.0	.	416	.	.	Atlas-SNP
HAS1	3036	hgsc.bcm.edu	hg19	19	52220241	52220241	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	HAS1	NM_001523	exon3	c.C908T	p.S303F	ATGCAGGATACAC	.	83.0	19.0	67.0	0.0	.	61	.	.	Atlas-SNP
LILRB5	10990	hgsc.bcm.edu	hg19	19	54757883	54757883	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	LILRB5	NM_001081442	exon8	c.G1355T	p.S452I	TCACCACTCTGGG	.	212.0	9.0	210.0	0.0	.	176	.	.	Atlas-SNP
ZNF787	126208	hgsc.bcm.edu	hg19	19	56600216	56600216	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	ZNF787	NM_001002836	exon3	c.C325G	p.L109V	GCACCAGGTGCGA	.	90.0	20.0	80.0	0.0	.	20	.	.	Atlas-SNP
DDX27	55661	hgsc.bcm.edu	hg19	20	47855523	47855523	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	DDX27,NS,carcinoma,0,1	DDX27	NM_017895	exon15	c.G1818T	p.M606I	GAAAATGGAGAAA	.	106.0	5.0	64.0	0.0	.	74	.	.	Atlas-SNP
CTCFL	140690	hgsc.bcm.edu	hg19	20	56090848	56090848	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	CTCFL	NM_001269044	exon5	c.C1102A	p.R368S	AGGGGCGCTCCCC	.	61.0	14.0	65.0	0.0	.	97	.	.	Atlas-SNP
KAL1	3730	hgsc.bcm.edu	hg19	X	8503661	8503661	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	KAL1	NM_000216	exon12	c.A1813T	p.I605F	AAATAATGCTGTT	.	196.0	106.0	186.0	0.0	.	78	.	.	Atlas-SNP
PHEX	5251	hgsc.bcm.edu	hg19	X	22263484	22263484	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	PHEX	NM_000444	exon21	c.G2105A	p.R702Q	CTGCCCGAGAACA	.	107.0	11.0	106.0	0.0	.	95	.	.	Atlas-SNP
KCND1	3750	hgsc.bcm.edu	hg19	X	48823176	48823176	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	KCND1	NM_004979	exon3	c.G1360A	p.G454S	CAAGGCCCCCATT	.	28.0	10.0	26.0	0.0	.	63	.	.	Atlas-SNP
ATP7A	538	hgsc.bcm.edu	hg19	X	77245380	77245380	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	ATP7A	NM_000052	exon4	c.A1262G	p.Y421C	TTGAGTATGATCC	.	258.0	138.0	284.0	0.0	.	248	.	.	Atlas-SNP
CXorf57	55086	hgsc.bcm.edu	hg19	X	105879772	105879772	+	Splice_Site	SNP	G	G	T	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	CXorf57	NM_001184782	exon7	c.1304-1G>T	.	TCTCTAGTGGCAT	.	74.0	39.0	64.0	0.0	.	107	.	.	Atlas-SNP
RPP14	11102	hgsc.bcm.edu	hg19	3	58303188	58303189	+	Frame_Shift_Del	DEL	TT	TT	-	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	RPP14	NM_007042	exon6	c.339_340del	p.113_114del	.	.	89.0	20.0	57.0	0.0	.	6	.	.	Atlas-Indel,Pindel
NEFH	4744	hgsc.bcm.edu	hg19	22	29885585	29885586	+	In_Frame_Ins	INS	-	-	AAGTCCCCTGAGAAGGCC	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.,1	NEFH	NM_021076	exon4	c.1956_1957insAAGTCCCCTGAGAAGGCC	p.A652delinsAKSPEKA	.	.	274.0	136.0	247.0	0.0	.	178	.	.	Atlas-INDEL
AFF4	27125	hgsc.bcm.edu	hg19	5	132216770	132216771	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	AFF4	NM_014423	exon21	c.3473_3474insG	p.D1158fs	.	.	212.0	47.0	190.0	0.0	.	120	.	.	Atlas-Indel,Pindel
PCDHB14	56122	hgsc.bcm.edu	hg19	5	140603901	140603910	+	Frame_Shift_Del	DEL	GAAAAATATC	GAAAAATATC	-	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	GAAAAATATC	GAAAAATATC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	PCDHB14	NM_018934	exon1	c.823_832del	p.275_278del	.	.	87.0	17.0	102.0	0.0	.	132	.	.	Atlas-Indel,Pindel
USH2A	7399	hgsc.bcm.edu	hg19	1	216595468	216595469	+	In_Frame_Ins	INS	-	-	AGA	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	USH2A	NM_206933	exon2	c.211_212insTCT	p.A71delinsSA	.	.	244.0	109.0	142.0	0.0	.	1168	.	.	Atlas-Indel,Pindel
ZNF626	199777	hgsc.bcm.edu	hg19	19	20807134	20807300	+	Frame_Shift_Del	DEL	GCTTTGCCACATTCTTCACATTTGTAGAATTTCTCTCCAGTATGATTCTCTCATGTGTAGTAAGGATTGAGGACTGGTTGAAGGCTTTGCCACATTCTTCACATTTGTAGGGTCTCTCTCCAGTATGAATTTTCTTATGTGTAGTAAGGTTAGAGGAGCACTTAAAA	GCTTTGCCACATTCTTCACATTTGTAGAATTTCTCTCCAGTATGATTCTCTCATGTGTAGTAAGGATTGAGGACTGGTTGAAGGCTTTGCCACATTCTTCACATTTGTAGGGTCTCTCTCCAGTATGAATTTTCTTATGTGTAGTAAGGTTAGAGGAGCACTTAAAA	-	novel		TCGA-DD-AAC9-01A-11D-A40R-10	TCGA-DD-AAC9-10A-01D-A40U-10	GCTTTGCCACATTCTTCACATTTGTAGAATTTCTCTCCAGTATGATTCTCTCATGTGTAGTAAGGATTGAGGACTGGTTGAAGGCTTTGCCACATTCTTCACATTTGTAGGGTCTCTCTCCAGTATGAATTTTCTTATGTGTAGTAAGGTTAGAGGAGCACTTAAAA	GCTTTGCCACATTCTTCACATTTGTAGAATTTCTCTCCAGTATGATTCTCTCATGTGTAGTAAGGATTGAGGACTGGTTGAAGGCTTTGCCACATTCTTCACATTTGTAGGGTCTCTCTCCAGTATGAATTTTCTTATGTGTAGTAAGGTTAGAGGAGCACTTAAAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4211b22d-de83-4dba-b4f6-846ab2aeba13	c2e6366d-0283-4200-b9eb-0f2a11942592	.	ZNF626	NM_001076675	exon4	c.1384_1550del	p.462_517del	.	.	23.0	10.0	29.0	0.0	.	121	.	.	Pindel
