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
FAM132A	388581	hgsc.bcm.edu	hg19	1	1179473	1179473	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	FAM132A	NM_001014980	exon4	c.G392A	p.R131H	AACCGGCGCTCCG	.	90.0	27.0	92.0	0.0	.	12	.	.	Atlas-SNP
SPSB1	80176	hgsc.bcm.edu	hg19	1	9416228	9416228	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SPSB1	NM_025106	exon2	c.A278G	p.Y93C	TCGGGTATACCCG	.	81.0	24.0	94.0	0.0	.	22	.	.	Atlas-SNP
UBE4B	10277	hgsc.bcm.edu	hg19	1	10190648	10190648	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	UBE4B	NM_001105562	exon13	c.A1786T	p.S596C	TTCTTTAGCTTCT	.	74.0	20.0	102.0	0.0	.	233	.	.	Atlas-SNP
ERMAP	114625	hgsc.bcm.edu	hg19	1	43300793	43300793	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ERMAP	NM_001017922	exon5	c.T518G	p.L173R	TGTGCCTTTGCCT	.	79.0	23.0	125.0	0.0	.	30	.	.	Atlas-SNP
SLC1A7	6512	hgsc.bcm.edu	hg19	1	53580429	53580429	+	Splice_Site	SNP	C	C	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SLC1A7	NM_006671	exon4	c.431+1G>T	.	TAGTTACCGGATG	.	61.0	38.0	79.0	0.0	.	65	.	.	Atlas-SNP
PALMD	54873	hgsc.bcm.edu	hg19	1	100155039	100155039	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	PALMD	NM_017734	exon7	c.A1223G	p.N408S	ACATAAATGATAC	.	75.0	15.0	128.0	0.0	.	64	.	.	Atlas-SNP
COL11A1	1301	hgsc.bcm.edu	hg19	1	103385871	103385871	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	COL11A1	NM_080629	exon49	c.A3794T	p.E1265V	ACCTTTTCTCCAA	.	56.0	13.0	71.0	0.0	.	972	.	.	Atlas-SNP
GSTM5	2949	hgsc.bcm.edu	hg19	1	110256136	110256136	+	Missense_Mutation	SNP	A	A	C	rs146232109	bycluster;by1000genomes;alternate_allele	TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	GSTM5	NM_000851	exon4	c.A208C	p.I70L	CACAAGATCACCC	.	175.0	7.0	177.0	0.0	.	89	.	A|1.000;G|0.000	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	hg19	1	145367777	145367777	+	Missense_Mutation	SNP	G	G	T	rs200743139	bycluster	TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	NBPF10,NS,carcinoma,0,1	NBPF10	NM_001039703	exon83	c.G10373T	p.R3458M	GAAGAAGGGGAAG	.	4.0	3.0	3.0	0.0	.	221	.	.	Atlas-SNP
TXNIP	10628	hgsc.bcm.edu	hg19	1	145439791	145439791	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	TXNIP	NM_006472	exon3	c.T337A	p.S113T	GGAACATCCTTCA	.	130.0	30.0	128.0	0.0	.	51	.	.	Atlas-SNP
SDE2	163859	hgsc.bcm.edu	hg19	1	226180658	226180658	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	.	NM_152608	exon3	c.C284T	p.T95I	TTGGTTGTCTTCT	.	102.0	17.0	126.0	0.0	.	.	.	.	Atlas-SNP
CDC42BPA	8476	hgsc.bcm.edu	hg19	1	227222414	227222414	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	CDC42BPA	NM_003607	exon25	c.A3313G	p.I1105V	CAGCAATATCGTA	.	76.0	6.0	73.0	0.0	.	528	.	.	Atlas-SNP
LYST	1130	hgsc.bcm.edu	hg19	1	235922871	235922871	+	Silent	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	LYST	NM_000081	exon23	c.A6282G	p.Q2094Q	CATCTGTTGTGGA	.	39.0	6.0	70.0	0.0	.	370	.	.	Atlas-SNP
ERO1LB	56605	hgsc.bcm.edu	hg19	1	236415384	236415384	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ERO1LB	NM_019891	exon4	c.T314G	p.I105S	ACCGGAATTTTAC	.	284.0	49.0	442.0	0.0	.	48	.	.	Atlas-SNP
OR2B11	127623	hgsc.bcm.edu	hg19	1	247615038	247615038	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	OR2B11	NM_001004492	exon1	c.C247G	p.P83A	TCTGAGGGACTGT	.	52.0	7.0	64.0	0.0	.	102	.	.	Atlas-SNP
TSSC1	7260	hgsc.bcm.edu	hg19	2	3193108	3193108	+	Silent	SNP	T	T	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	TSSC1	NM_003310	exon9	c.A1161C	p.L387L	GAGTCATAGCAGG	.	155.0	37.0	131.0	0.0	.	39	.	.	Atlas-SNP
SOX11	6664	hgsc.bcm.edu	hg19	2	5832874	5832874	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SOX11	NM_003108	exon1	c.C21T	p.S7S	GGAGAGCTTGGAA	.	155.0	27.0	166.0	0.0	.	69	.	.	Atlas-SNP
CEP68	23177	hgsc.bcm.edu	hg19	2	65305030	65305030	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	CEP68	NM_015147	exon5	c.A2036C	p.Q679P	AACATCAGTCTCT	.	59.0	11.0	76.0	0.0	.	69	.	.	Atlas-SNP
ASTL	431705	hgsc.bcm.edu	hg19	2	96789942	96789942	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ASTL	NM_001002036	exon9	c.G943T	p.A315S	ACAGTGCCTCCAA	.	203.0	9.0	179.0	0.0	.	59	.	.	Atlas-SNP
C1QL2	165257	hgsc.bcm.edu	hg19	2	119915526	119915526	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	C1QL2	NM_182528	exon1	c.A320C	p.E107A	CCCTTCTCTCCCG	.	149.0	29.0	108.0	0.0	.	25	.	.	Atlas-SNP
SF3B1	23451	hgsc.bcm.edu	hg19	2	198273248	198273248	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SF3B1	NM_012433	exon8	c.A962T	p.D321V	ATAGAATCTCCAC	.	57.0	25.0	88.0	0.0	.	1038	.	.	Atlas-SNP
ABCA12	26154	hgsc.bcm.edu	hg19	2	215901702	215901702	+	Silent	SNP	C	C	G	rs375880439	alternate_allele	TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ABCA12	NM_173076	exon8	c.G960C	p.L320L	AGTGTACAGCAGA	.	81.0	19.0	102.0	0.0	.	368	.	.	Atlas-SNP
ABCA12	26154	hgsc.bcm.edu	hg19	2	215901716	215901716	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	ABCA12,NS,carcinoma,0,1	ABCA12	NM_173076	exon8	c.G946T	p.V316F	GTTTAACAGACTT	.	80.0	20.0	114.0	2.0	.	368	.	.	Atlas-SNP
ABCA12	26154	hgsc.bcm.edu	hg19	2	215901718	215901718	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ABCA12	NM_173076	exon8	c.C944A	p.S315Y	TTAACAGACTTCT	.	79.0	19.0	114.0	0.0	.	368	.	.	Atlas-SNP
KLHL30	377007	hgsc.bcm.edu	hg19	2	239049437	239049437	+	Silent	SNP	G	G	A	rs374999323		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	KLHL30	NM_198582	exon2	c.G42A	p.S14S	GCCCTCGCATGCC	.	104.0	21.0	100.0	0.0	.	79	.	.	Atlas-SNP
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41266101	41266101	+	Missense_Mutation	SNP	C	C	G	rs121913400	bycluster	TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	CTNNB1,gallbladder,other,0,359	CTNNB1	NM_001098209	exon3	c.C98G	p.S33C	TGGACTCTGGAAT	.	98.0	14.0	125.0	0.0	.	4904	.	.	Atlas-SNP
KCTD6	200845	hgsc.bcm.edu	hg19	3	58487086	58487086	+	Silent	SNP	T	T	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	KCTD6	NM_001128214	exon3	c.T441G	p.T147T	CACCACTAAGGTC	.	135.0	29.0	162.0	0.0	.	14	.	.	Atlas-SNP
CRYBG3	131544	hgsc.bcm.edu	hg19	3	97660086	97660086	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	CRYBG3	NM_153605	exon20	c.T8600C	p.I2867T	TGTGCATTTCTCC	.	80.0	15.0	121.0	0.0	.	86	.	.	Atlas-SNP
OR5K1	26339	hgsc.bcm.edu	hg19	3	98188512	98188512	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	OR5K1	NM_001004736	exon1	c.T92A	p.F31Y	TGGTGTTCTTTGC	.	110.0	23.0	135.0	0.0	.	51	.	.	Atlas-SNP
EPHB3	2049	hgsc.bcm.edu	hg19	3	184290389	184290389	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	EPHB3,colon,carcinoma,0,1	EPHB3	NM_004443	exon3	c.C281T	p.T94M	TTCGCACGGGGTT	.	89.0	10.0	75.0	0.0	.	114	.	.	Atlas-SNP
MAN2B2	23324	hgsc.bcm.edu	hg19	4	6598950	6598950	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MAN2B2	NM_015274	exon8	c.C1168T	p.L390L	CGCTACCTGTGGC	.	135.0	24.0	92.0	0.0	.	80	.	.	Atlas-SNP
CPZ	8532	hgsc.bcm.edu	hg19	4	8607787	8607787	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	CPZ	NM_001014447	exon5	c.C781T	p.L261L	ATCTACCTAGCCC	.	82.0	32.0	115.0	0.0	.	95	.	.	Atlas-SNP
REST	5978	hgsc.bcm.edu	hg19	4	57797908	57797908	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	REST	NM_001193508	exon4	c.A2884G	p.I962V	ACTGGTATAAATT	.	166.0	32.0	187.0	0.0	.	104	.	.	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	hg19	4	79204050	79204050	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	FRAS1	NM_001166133	exon12	c.C1184T	p.S395F	AGCCCTCTTGCCC	.	82.0	37.0	84.0	0.0	.	779	.	.	Atlas-SNP
ADH4	127	hgsc.bcm.edu	hg19	4	100047761	100047761	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ADH4	NM_000670	exon8	c.A1102G	p.M368V	GGTTCATTAGGTC	.	39.0	10.0	57.0	0.0	.	35	.	.	Atlas-SNP
TENM3	55714	hgsc.bcm.edu	hg19	4	183721241	183721241	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	.	NM_001080477	exon27	c.C7837T	p.L2613L	ATGACCCTGGACG	.	74.0	15.0	59.0	0.0	.	.	.	.	Atlas-SNP
CCT5	22948	hgsc.bcm.edu	hg19	5	10258287	10258287	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	CCT5	NM_012073	exon5	c.A595G	p.M199V	GCAGATATGGAGC	.	111.0	16.0	87.0	0.0	.	49	.	.	Atlas-SNP
RAI14	26064	hgsc.bcm.edu	hg19	5	34823676	34823676	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	RAI14	NM_001145525	exon17	c.G1738A	p.E580K	GAGTACGAGGAAA	.	259.0	59.0	219.0	0.0	.	100	.	.	Atlas-SNP
NUP155	9631	hgsc.bcm.edu	hg19	5	37292009	37292009	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	NUP155	NM_153485	exon35	c.T4169G	p.L1390R	TAATGAAGCCGTT	.	385.0	52.0	318.0	0.0	.	116	.	.	Atlas-SNP
GHR	2690	hgsc.bcm.edu	hg19	5	42688998	42688998	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	GHR	NM_001242399	exon4	c.C164T	p.S55F	ATTCTTCTAAGGA	.	99.0	11.0	86.0	0.0	.	94	.	.	Atlas-SNP
HCN1	348980	hgsc.bcm.edu	hg19	5	45262400	45262400	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	HCN1	NM_021072	exon8	c.G2296A	p.E766K	GCACTTCATTTTT	.	70.0	6.0	43.0	0.0	.	298	.	.	Atlas-SNP
PJA2	9867	hgsc.bcm.edu	hg19	5	108714751	108714751	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	PJA2	NM_014819	exon4	c.A437G	p.Y146C	GGAATATACTCTC	.	120.0	9.0	79.0	0.0	.	53	.	.	Atlas-SNP
APC	324	hgsc.bcm.edu	hg19	5	112175960	112175960	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.,1	APC	NM_001127510	exon17	c.A4669G	p.I1557V	AAAACTATTGATT	.	291.0	38.0	200.0	0.0	.	4158	.	.	Atlas-SNP
DDX46	9879	hgsc.bcm.edu	hg19	5	134116885	134116885	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	DDX46	NM_014829	exon7	c.T828G	p.D276E	TGTGGATTCTGAT	.	164.0	28.0	90.0	0.0	.	77	.	.	Atlas-SNP
KDM3B	51780	hgsc.bcm.edu	hg19	5	137733999	137733999	+	Silent	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	KDM3B	NM_016604	exon10	c.A2964G	p.K988K	CTCAAAATACATC	.	164.0	21.0	132.0	0.0	.	177	.	.	Atlas-SNP
AFAP1L1	134265	hgsc.bcm.edu	hg19	5	148719573	148719573	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	AFAP1L1	NM_152406	exon19	c.T2287A	p.W763R	CAGGAATGGGAAA	.	94.0	38.0	68.0	0.0	.	86	.	.	Atlas-SNP
GEMIN5	25929	hgsc.bcm.edu	hg19	5	154311736	154311736	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	GEMIN5,colon,carcinoma,0,1	GEMIN5	NM_015465	exon4	c.A584G	p.D195G	TCATCATCATGGC	.	192.0	21.0	142.0	0.0	.	120	.	.	Atlas-SNP
ITK	3702	hgsc.bcm.edu	hg19	5	156649918	156649918	+	Missense_Mutation	SNP	G	G	C	rs369289895	alternate_allele	TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ITK	NM_005546	exon6	c.G541C	p.D181H	TTATATGACTACC	.	138.0	15.0	125.0	0.0	.	136	.	.	Atlas-SNP
FAM196B	100131897	hgsc.bcm.edu	hg19	5	169310508	169310508	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	FAM196B	NM_001129891	exon2	c.T395C	p.I132T	ACCTGGATGGCAC	.	84.0	25.0	36.0	0.0	.	28	.	.	Atlas-SNP
ZNF346	23567	hgsc.bcm.edu	hg19	5	176449747	176449747	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ZNF346	NM_012279	exon1	c.A8G	p.Y3C	TGGAGTATCCCGC	.	159.0	19.0	64.0	0.0	.	24	.	.	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	hg19	6	33651106	33651106	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ITPR3	NM_002224	exon35	c.C4720T	p.R1574W	ACCACGCGGGCCT	.	188.0	70.0	129.0	0.0	.	409	.	.	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	hg19	6	33654876	33654876	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ITPR3	NM_002224	exon44	c.G6070C	p.E2024Q	CCCCAGGAGCTGG	.	101.0	9.0	80.0	0.0	.	409	.	.	Atlas-SNP
TREML4	285852	hgsc.bcm.edu	hg19	6	41196730	41196730	+	Silent	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	TREML4	NM_198153	exon2	c.T342C	p.A114A	CAACGCTTCCGAA	.	49.0	38.0	62.0	0.0	.	25	.	.	Atlas-SNP
SUPT3H	8464	hgsc.bcm.edu	hg19	6	45289589	45289589	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SUPT3H	NM_181356	exon4	c.A78T	p.K26N	AACTGATTTTCCA	.	103.0	18.0	74.0	0.0	.	75	.	.	Atlas-SNP
GPR115	221393	hgsc.bcm.edu	hg19	6	47681896	47681896	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	GPR115	NM_153838	exon6	c.C915T	p.A305A	AGAAGCCCACTTG	.	147.0	23.0	104.0	0.0	.	140	.	.	Atlas-SNP
RIMS1	22999	hgsc.bcm.edu	hg19	6	73102484	73102484	+	Silent	SNP	C	C	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	RIMS1	NM_014989	exon31	c.C4590A	p.G1530G	TGTTGGCCGCCAA	.	113.0	11.0	93.0	0.0	.	278	.	.	Atlas-SNP
RWDD2A	112611	hgsc.bcm.edu	hg19	6	83905923	83905923	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	RWDD2A,NS,carcinoma,0,1	RWDD2A	NM_033411	exon3	c.A811T	p.K271X	TTTCTCAAGAAGC	.	178.0	76.0	128.0	1.0	.	12	.	.	Atlas-SNP
EGFR	1956	hgsc.bcm.edu	hg19	7	55242460	55242460	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	EGFR,NS,carcinoma,-1,1	EGFR	NM_005228	exon19	c.A2230G	p.I744V	GTCGCTATCAAGG	.	99.0	12.0	79.0	0.0	.	20426	.	.	Atlas-SNP
SLC25A40	55972	hgsc.bcm.edu	hg19	7	87477196	87477196	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	SLC25A40,NS,carcinoma,0,1	SLC25A40	NM_018843	exon7	c.A429G	p.I143M	AATTGGTATGCAG	.	154.0	30.0	152.0	0.0	.	32	.	.	Atlas-SNP
TRRAP	8295	hgsc.bcm.edu	hg19	7	98513492	98513492	+	Silent	SNP	C	C	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	TRRAP	NM_001244580	exon19	c.C2346A	p.L782L	GCCTCTCCTTCCA	.	75.0	11.0	103.0	0.0	.	863	.	.	Atlas-SNP
EXOC4	60412	hgsc.bcm.edu	hg19	7	132990717	132990717	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	EXOC4	NM_021807	exon4	c.G558T	p.M186I	GAAGATGAACCTT	.	90.0	15.0	93.0	0.0	.	118	.	.	Atlas-SNP
EXOC4	60412	hgsc.bcm.edu	hg19	7	132990718	132990718	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	EXOC4	NM_021807	exon4	c.A559T	p.N187Y	AAGATGAACCTTC	.	89.0	14.0	93.0	0.0	.	118	.	.	Atlas-SNP
EXOC4	60412	hgsc.bcm.edu	hg19	7	132990719	132990719	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	EXOC4	NM_021807	exon4	c.A560T	p.N187I	AGATGAACCTTCA	.	89.0	14.0	93.0	0.0	.	118	.	.	Atlas-SNP
EXOC4	60412	hgsc.bcm.edu	hg19	7	132990720	132990720	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	EXOC4	NM_021807	exon4	c.C561T	p.N187N	GATGAACCTTCAC	.	88.0	14.0	94.0	0.0	.	118	.	.	Atlas-SNP
CNTNAP2	26047	hgsc.bcm.edu	hg19	7	146829531	146829531	+	Silent	SNP	C	C	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	CNTNAP2	NM_014141	exon8	c.C1278A	p.L426L	TGACCTCACTGAA	.	102.0	25.0	120.0	0.0	.	392	.	.	Atlas-SNP
CNTNAP2	26047	hgsc.bcm.edu	hg19	7	147259228	147259228	+	Splice_Site	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	CNTNAP2	NM_014141	exon12	c.1778-2A>G	.	TGTTCTAGCTATC	.	76.0	18.0	80.0	0.0	.	392	.	.	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	hg19	7	151842365	151842365	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MLL3	NM_170606	exon54	c.G14047C	p.A4683P	CACATGCCTCAAC	.	56.0	10.0	68.0	0.0	.	1564	.	.	Atlas-SNP
GNRH1	2796	hgsc.bcm.edu	hg19	8	25276942	25276942	+	Missense_Mutation	SNP	T	T	G	rs185185508	by1000genomes;alternate_allele	TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	GNRH1	NM_000825	exon3	c.A284C	p.K95T	TAAATCTTCTTCT	.	86.0	12.0	79.0	0.0	.	8	.	T|1.000;A|0.000	Atlas-SNP
GNRH1	2796	hgsc.bcm.edu	hg19	8	25276963	25276963	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	GNRH1	NM_000825	exon3	c.A263C	p.E88A	TCCTCTTCAATCA	.	93.0	10.0	78.0	0.0	.	8	.	.	Atlas-SNP
SLC20A2	6575	hgsc.bcm.edu	hg19	8	42297137	42297137	+	Silent	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SLC20A2	NM_001257181	exon7	c.A765G	p.V255V	GTCAGATACTCGT	.	104.0	18.0	59.0	0.0	.	64	.	.	Atlas-SNP
RB1CC1	9821	hgsc.bcm.edu	hg19	8	53540718	53540718	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	RB1CC1	NM_001083617	exon22	c.G4510T	p.G1504X	AATCTCCCACCTG	.	106.0	54.0	105.0	0.0	.	163	.	.	Atlas-SNP
RB1CC1	9821	hgsc.bcm.edu	hg19	8	53540719	53540719	+	Silent	SNP	C	C	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	RB1CC1	NM_001083617	exon22	c.G4509T	p.V1503V	ATCTCCCACCTGA	.	105.0	54.0	104.0	0.0	.	163	.	.	Atlas-SNP
SLC26A7	115111	hgsc.bcm.edu	hg19	8	92330492	92330492	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SLC26A7	NM_134266	exon5	c.G526T	p.E176X	GTCACAGAGCCTG	.	72.0	13.0	77.0	0.0	.	207	.	.	Atlas-SNP
VPS13B	157680	hgsc.bcm.edu	hg19	8	100115280	100115280	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	VPS13B	NM_152564	exon5	c.T512A	p.V171D	TTTCCGTCAATAT	.	160.0	22.0	150.0	0.0	.	811	.	.	Atlas-SNP
MRPL13	28998	hgsc.bcm.edu	hg19	8	121455467	121455467	+	Missense_Mutation	SNP	T	T	C	rs145547223		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MRPL13	NM_014078	exon2	c.A109G	p.I37V	GTCTTATAGATGC	.	129.0	20.0	118.0	0.0	.	18	.	T|1.000;C|0.000	Atlas-SNP
KIAA0020	9933	hgsc.bcm.edu	hg19	9	2837227	2837227	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	KIAA0020	NM_014878	exon3	c.A257G	p.N86S	AATTTATTTGCCG	.	60.0	12.0	101.0	0.0	.	56	.	.	Atlas-SNP
RUSC2	9853	hgsc.bcm.edu	hg19	9	35557957	35557957	+	Silent	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	RUSC2	NM_014806	exon6	c.T3030C	p.H1010H	GGCTCATTTTGGC	.	59.0	17.0	61.0	0.0	.	88	.	.	Atlas-SNP
RNF20	56254	hgsc.bcm.edu	hg19	9	104314807	104314807	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	RNF20	NM_019592	exon13	c.A1673G	p.N558S	ATGCCAATGAAAT	.	104.0	19.0	117.0	0.0	.	110	.	.	Atlas-SNP
FAM69B	138311	hgsc.bcm.edu	hg19	9	139617509	139617509	+	Silent	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	FAM69B	NM_152421	exon5	c.A579G	p.E193E	GGCGGAAGCCAAG	.	97.0	5.0	83.0	0.0	.	22	.	.	Atlas-SNP
GDI2	2665	hgsc.bcm.edu	hg19	10	5808025	5808025	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	GDI2	NM_001494	exon11	c.G1282T	p.E428X	CAAACTCTGATCC	.	99.0	17.0	94.0	0.0	.	26	.	.	Atlas-SNP
SGMS1	259230	hgsc.bcm.edu	hg19	10	52071136	52071136	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SGMS1	NM_147156	exon9	c.A781C	p.K261Q	TGAGCTTCATTAT	.	42.0	10.0	64.0	0.0	.	40	.	.	Atlas-SNP
JMJD1C	221037	hgsc.bcm.edu	hg19	10	64936130	64936130	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	JMJD1C	NM_032776	exon24	c.A7328G	p.Y2443C	ACTCCATATTCTT	.	156.0	36.0	166.0	0.0	.	347	.	.	Atlas-SNP
GHITM	27069	hgsc.bcm.edu	hg19	10	85909910	85909910	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	GHITM	NM_014394	exon7	c.C692T	p.T231I	TCTCCACTGTGGC	.	83.0	40.0	74.0	0.0	.	30	.	.	Atlas-SNP
CDHR1	92211	hgsc.bcm.edu	hg19	10	85958825	85958825	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	CDHR1	NM_001171971	exon5	c.A386G	p.N129S	ATGCCAATGATGA	.	66.0	13.0	94.0	0.0	.	122	.	.	Atlas-SNP
IDE	3416	hgsc.bcm.edu	hg19	10	94239137	94239137	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	IDE	NM_004969	exon15	c.A1781G	p.Y594C	TACAAATAGGCCA	.	90.0	21.0	122.0	0.0	.	77	.	.	Atlas-SNP
COPB1	1315	hgsc.bcm.edu	hg19	11	14490346	14490346	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	COPB1	NM_001144062	exon16	c.C2026G	p.L676V	CAGTTAGTTGCAT	.	36.0	12.0	81.0	0.0	.	81	.	.	Atlas-SNP
OR9I1	219954	hgsc.bcm.edu	hg19	11	57886028	57886028	+	Missense_Mutation	SNP	C	C	T	rs372541402		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	OR9I1	NM_001005211	exon1	c.G889A	p.V297I	CTTTTACATCTTT	.	36.0	13.0	36.0	0.0	.	53	.	.	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	hg19	11	62291791	62291791	+	Silent	SNP	T	T	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	AHNAK	NM_001620	exon5	c.A10098T	p.T3366T	TTCAGGTGTCTGA	.	56.0	19.0	71.0	0.0	.	532	.	.	Atlas-SNP
C11orf80	79703	hgsc.bcm.edu	hg19	11	66512287	66512287	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	C11orf80	NM_024650	exon1	c.A74C	p.E25A	CTGAGGAGGGGGC	.	36.0	6.0	35.0	0.0	.	31	.	.	Atlas-SNP
MED17	9440	hgsc.bcm.edu	hg19	11	93521276	93521276	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MED17	NM_004268	exon2	c.G360C	p.R120S	TGTTAGGGATAAA	.	53.0	11.0	61.0	0.0	.	37	.	.	Atlas-SNP
DDI1	414301	hgsc.bcm.edu	hg19	11	103908223	103908223	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	DDI1	NM_001001711	exon1	c.G673C	p.E225Q	ATTGAAGAAAACA	.	92.0	18.0	96.0	0.0	.	222	.	.	Atlas-SNP
OPCML	4978	hgsc.bcm.edu	hg19	11	132812840	132812840	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	OPCML	NM_002545	exon1	c.G148C	p.G50R	TCTCCCCCTGCCG	.	55.0	25.0	68.0	0.0	.	166	.	.	Atlas-SNP
SLCO1B3	28234	hgsc.bcm.edu	hg19	12	21013982	21013982	+	Missense_Mutation	SNP	C	C	A	rs374152690		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SLCO1B3	NM_019844	exon6	c.C391A	p.P131T	ATTAATCCATCAG	.	247.0	180.0	338.0	1.0	.	151	.	.	Atlas-SNP
SLC38A2	54407	hgsc.bcm.edu	hg19	12	46754959	46754959	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SLC38A2	NM_018976	exon16	c.A1456G	p.M486V	CGGTCATCACCAG	.	46.0	10.0	101.0	0.0	.	36	.	.	Atlas-SNP
DNAJC22	79962	hgsc.bcm.edu	hg19	12	49742904	49742904	+	Silent	SNP	C	C	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	DNAJC22	NM_024902	exon2	c.C249G	p.A83A	TGCTGCCCAGGTG	.	35.0	28.0	51.0	0.0	.	29	.	.	Atlas-SNP
KRT5	3852	hgsc.bcm.edu	hg19	12	52912936	52912936	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	KRT5	NM_000424	exon2	c.C564A	p.F188L	CTCCAGGAACCGC	.	90.0	63.0	112.0	0.0	.	88	.	.	Atlas-SNP
ANKRD52	283373	hgsc.bcm.edu	hg19	12	56641954	56641954	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ANKRD52	NM_173595	exon18	c.C1831T	p.L611L	CGTCCAGATTCAC	.	34.0	7.0	33.0	0.0	.	81	.	.	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	hg19	12	57532258	57532258	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	LRP1	NM_002332	exon2	c.C84G	p.S28R	TTGCAGCCCCAAG	.	94.0	13.0	109.0	0.0	.	428	.	.	Atlas-SNP
GLIPR1	11010	hgsc.bcm.edu	hg19	12	75892688	75892688	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	GLIPR1	NM_006851	exon6	c.T731C	p.I244T	CAGTAATTCTAAT	.	60.0	14.0	70.0	0.0	.	33	.	.	Atlas-SNP
ERP29	10961	hgsc.bcm.edu	hg19	12	112460383	112460383	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ERP29	NM_006817	exon3	c.A713C	p.K238T	GGAAGAAGGAGGA	.	59.0	13.0	53.0	0.0	.	17	.	.	Atlas-SNP
SPPL3	121665	hgsc.bcm.edu	hg19	12	121206182	121206182	+	Missense_Mutation	SNP	T	T	G	rs150882911	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	.	NM_139015	exon8	c.A719C	p.N240T	CCAACATTGGGCC	.	44.0	10.0	59.0	0.0	.	.	.	T|0.999;C|0.001	Atlas-SNP
SLITRK5	26050	hgsc.bcm.edu	hg19	13	88330117	88330117	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SLITRK5	NM_015567	exon2	c.G2474T	p.S825I	GGGAAAGCCACCA	.	163.0	23.0	121.0	0.0	.	192	.	.	Atlas-SNP
GPR18	2841	hgsc.bcm.edu	hg19	13	99908040	99908040	+	Silent	SNP	A	A	G	rs371441036		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	GPR18	NM_001098200	exon2	c.T87C	p.Y29Y	ACAGCTATAGAAG	.	121.0	15.0	110.0	0.0	.	23	.	.	Atlas-SNP
ANKRD10	55608	hgsc.bcm.edu	hg19	13	111567223	111567223	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ANKRD10	NM_017664	exon1	c.T59G	p.L20R	AGCGAGAGCAGCT	.	129.0	18.0	73.0	0.0	.	24	.	.	Atlas-SNP
TEP1	7011	hgsc.bcm.edu	hg19	14	20876563	20876563	+	Silent	SNP	T	T	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	TEP1,right_upper_lobe,carcinoma,0,1	TEP1	NM_007110	exon2	c.A36T	p.P12P	GATGTCTGGATGG	.	61.0	7.0	38.0	0.0	.	224	.	.	Atlas-SNP
HNRNPC	3183	hgsc.bcm.edu	hg19	14	21702133	21702133	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	HNRNPC	NM_001077443	exon2	c.A220G	p.M74V	CAATCATTCTGCC	.	227.0	27.0	204.0	0.0	.	31	.	.	Atlas-SNP
NGDN	25983	hgsc.bcm.edu	hg19	14	23945267	23945267	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	NGDN	NM_015514	exon7	c.A450C	p.E150D	AGATGAAGCAGAA	.	108.0	13.0	61.0	0.0	.	49	.	.	Atlas-SNP
BAZ1A	11177	hgsc.bcm.edu	hg19	14	35331372	35331372	+	Silent	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	BAZ1A	NM_182648	exon3	c.A270G	p.L90L	CAAGTATAAAACT	.	187.0	22.0	148.0	0.0	.	128	.	.	Atlas-SNP
PLEKHG3	26030	hgsc.bcm.edu	hg19	14	65208353	65208353	+	Silent	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	PLEKHG3	NM_015549	exon14	c.A1950G	p.E650E	GAAGGAATCAGCA	.	80.0	14.0	56.0	0.0	.	89	.	.	Atlas-SNP
PCNX	22990	hgsc.bcm.edu	hg19	14	71413714	71413714	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	PCNX	NM_014982	exon2	c.A236G	p.Y79C	TCAACTATCGACT	.	120.0	14.0	93.0	0.0	.	198	.	.	Atlas-SNP
VRTN	55237	hgsc.bcm.edu	hg19	14	74824495	74824495	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	VRTN	NM_018228	exon2	c.C1009G	p.Q337E	TTCCTCCAGCGGT	.	83.0	44.0	48.0	0.0	.	79	.	.	Atlas-SNP
ZC2HC1C	79696	hgsc.bcm.edu	hg19	14	75537802	75537802	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	.	NM_024643	exon2	c.A526G	p.R176G	TCATCTAGGAACT	.	144.0	27.0	84.0	0.0	.	.	.	.	Atlas-SNP
ATG2B	55102	hgsc.bcm.edu	hg19	14	96770845	96770845	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ATG2B	NM_018036	exon32	c.T4829C	p.I1610T	AGCTGTATTTCCA	.	124.0	16.0	105.0	0.0	.	169	.	.	Atlas-SNP
SNRPN	6638	hgsc.bcm.edu	hg19	15	25222034	25222034	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SNRPN	NM_022807	exon10	c.C278A	p.A93D	GCATTGCTCGGGT	.	91.0	9.0	51.0	0.0	.	58	.	.	Atlas-SNP
FAM98B	283742	hgsc.bcm.edu	hg19	15	38766446	38766446	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	FAM98B	NM_001042429	exon6	c.A676G	p.M226V	ATGTTAATGAAAC	.	75.0	14.0	91.0	0.0	.	53	.	.	Atlas-SNP
MGA	23269	hgsc.bcm.edu	hg19	15	41988901	41988901	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MGA	NM_001080541	exon3	c.A1693G	p.I565V	GAAAGAATACTCG	.	144.0	17.0	147.0	0.0	.	264	.	.	Atlas-SNP
MAPK6	5597	hgsc.bcm.edu	hg19	15	52356215	52356215	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MAPK6	NM_002748	exon6	c.A1184G	p.Q395R	AAGTACAAGTTGA	.	44.0	10.0	43.0	0.0	.	70	.	.	Atlas-SNP
CGNL1	84952	hgsc.bcm.edu	hg19	15	57734582	57734582	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	CGNL1	NM_001252335	exon5	c.A1709G	p.N570S	CTGATAATGACGA	.	62.0	10.0	64.0	0.0	.	125	.	.	Atlas-SNP
DENND4A	10260	hgsc.bcm.edu	hg19	15	65995317	65995317	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	DENND4A	NM_001144823	exon16	c.A2117G	p.N706S	AATAAATTGTTCC	.	57.0	13.0	67.0	0.0	.	217	.	.	Atlas-SNP
IREB2	3658	hgsc.bcm.edu	hg19	15	78782771	78782771	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	IREB2	NM_004136	exon17	c.A2084G	p.N695S	TGGGGAATAAACG	.	183.0	30.0	193.0	0.0	.	106	.	.	Atlas-SNP
KIAA1199	57214	hgsc.bcm.edu	hg19	15	81199078	81199078	+	Silent	SNP	C	C	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	KIAA1199	NM_018689	exon12	c.C1486A	p.R496R	CTGAGCCGGAACA	.	119.0	38.0	141.0	0.0	.	118	.	.	Atlas-SNP
NTRK3	4916	hgsc.bcm.edu	hg19	15	88690618	88690618	+	Silent	SNP	G	G	T	rs149623569	bycluster;by1000genomes;alternate_allele	TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	NTRK3	NM_001243101	exon6	c.C412A	p.R138R	TGAGCCGGTTACT	.	110.0	35.0	122.0	0.0	.	587	.	G|1.000;A|0.000	Atlas-SNP
DNASE1L2	1775	hgsc.bcm.edu	hg19	16	2287636	2287636	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	DNASE1L2	NM_001374	exon5	c.A577C	p.K193Q	ATCGACAAGTGGG	.	200.0	43.0	158.0	0.0	.	14	.	.	Atlas-SNP
COG7	91949	hgsc.bcm.edu	hg19	16	23430073	23430073	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	COG7	NM_153603	exon8	c.A1085T	p.Y362F	TCGCCATACTTCA	.	85.0	21.0	80.0	0.0	.	62	.	.	Atlas-SNP
UBFD1	56061	hgsc.bcm.edu	hg19	16	23578364	23578364	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	UBFD1	NM_019116	exon6	c.G793T	p.E265X	CCTATCGAAGGAC	.	72.0	16.0	53.0	0.0	.	16	.	.	Atlas-SNP
CDH1	999	hgsc.bcm.edu	hg19	16	68856096	68856096	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	CDH1	NM_004360	exon12	c.G1904T	p.S635I	GGGCGAGTGCCAA	.	91.0	59.0	118.0	0.0	.	535	.	.	Atlas-SNP
MVD	4597	hgsc.bcm.edu	hg19	16	88721693	88721693	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MVD	NM_002461	exon7	c.T811G	p.F271V	GCGGGAAGGTGTC	.	56.0	11.0	53.0	0.0	.	27	.	.	Atlas-SNP
CDRT1	374286	hgsc.bcm.edu	hg19	17	15516062	15516062	+	Missense_Mutation	SNP	C	C	A	rs151267443	bycluster;by1000genomes;alternate_allele	TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	CDRT1	NM_006382	exon5	c.G1075T	p.G359W	TCTTCCCGTCATC	.	76.0	13.0	88.0	0.0	.	83	.	C|0.998;T|0.002	Atlas-SNP
TOP3A	7156	hgsc.bcm.edu	hg19	17	18193904	18193904	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	TOP3A	NM_004618	exon13	c.G1564C	p.D522H	TGAGGTCGGCCTC	.	61.0	8.0	45.0	0.0	.	85	.	.	Atlas-SNP
KRT26	353288	hgsc.bcm.edu	hg19	17	38926350	38926350	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	KRT26	NM_181539	exon4	c.G706T	p.A236S	CCCCAGCTGTATA	.	70.0	17.0	81.0	0.0	.	49	.	.	Atlas-SNP
KPNB1	3837	hgsc.bcm.edu	hg19	17	45752005	45752005	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	KPNB1	NM_002265	exon15	c.A1769G	p.D590G	CACAGAATGTTCT	.	46.0	7.0	50.0	0.0	.	58	.	.	Atlas-SNP
COX11	1353	hgsc.bcm.edu	hg19	17	53040188	53040188	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	COX11	NM_004375	exon4	c.A737C	p.D246A	CTTGGATCTTCAG	.	187.0	29.0	197.0	0.0	.	16	.	.	Atlas-SNP
KPNA2	3838	hgsc.bcm.edu	hg19	17	66040111	66040111	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	KPNA2	NM_002266	exon8	c.C1088G	p.T363R	ACATCACAGCCGG	.	330.0	148.0	243.0	0.0	.	55	.	.	Atlas-SNP
MEX3D	399664	hgsc.bcm.edu	hg19	19	1555353	1555353	+	Missense_Mutation	SNP	A	A	C	rs200558166		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MEX3D	NM_001174118	exon3	c.T1978G	p.S660A	GGGCTGAGGCGCC	.	214.0	12.0	194.0	0.0	.	11	.	A|0.998;C|0.002	Atlas-SNP
MEX3D	399664	hgsc.bcm.edu	hg19	19	1555356	1555356	+	Missense_Mutation	SNP	C	C	G	rs201107400		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MEX3D	NM_001174118	exon3	c.G1975C	p.A659P	CTGAGGCGCCGCC	.	208.0	13.0	187.0	0.0	.	11	.	C|0.998;G|0.002	Atlas-SNP
MEX3D	399664	hgsc.bcm.edu	hg19	19	1555358	1555358	+	Missense_Mutation	SNP	C	C	T	rs202194196		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MEX3D	NM_001174118	exon3	c.G1973A	p.G658D	GAGGCGCCGCCGG	.	205.0	13.0	181.0	0.0	.	11	.	C|0.998;T|0.002	Atlas-SNP
MEX3D	399664	hgsc.bcm.edu	hg19	19	1555360	1555360	+	Silent	SNP	G	G	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MEX3D	NM_001174118	exon3	c.C1971A	p.G657G	GGCGCCGCCGGGC	.	202.0	13.0	173.0	0.0	.	11	.	.	Atlas-SNP
MEX3D	399664	hgsc.bcm.edu	hg19	19	1555380	1555380	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	MEX3D,NS,carcinoma,0,1	MEX3D	NM_001174118	exon3	c.A1951C	p.T651P	TCTCCGTCTCCAC	.	189.0	38.0	140.0	0.0	.	11	.	.	Atlas-SNP
C3	718	hgsc.bcm.edu	hg19	19	6713480	6713480	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	C3	NM_000064	exon8	c.A814G	p.I272V	CGAAGATGACAAA	.	90.0	10.0	80.0	0.0	.	192	.	.	Atlas-SNP
PPAN	56342	hgsc.bcm.edu	hg19	19	10218695	10218695	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	PPAN	NM_020230	exon5	c.A398T	p.Q133L	ACGAGCAGCAGTT	.	103.0	22.0	80.0	0.0	.	43	.	.	Atlas-SNP
ZNF763	284390	hgsc.bcm.edu	hg19	19	12089392	12089392	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ZNF763	NM_001012753	exon4	c.A662G	p.H221R	TTATCCATGAAAG	.	143.0	38.0	129.0	0.0	.	31	.	.	Atlas-SNP
ZNF563	147837	hgsc.bcm.edu	hg19	19	12430381	12430381	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ZNF563	NM_145276	exon4	c.A458G	p.H153R	GAGTGATGGTAAC	.	122.0	23.0	105.0	0.0	.	77	.	.	Atlas-SNP
ATP13A1	57130	hgsc.bcm.edu	hg19	19	19767906	19767906	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ATP13A1	NM_020410	exon5	c.T803G	p.F268C	AGCGTAAAGACGC	.	53.0	4.0	47.0	0.0	.	82	.	.	Atlas-SNP
ZNF85	7639	hgsc.bcm.edu	hg19	19	21132307	21132307	+	Silent	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ZNF85	NM_001256171	exon5	c.T1077C	p.L359L	AAACCTTACTACA	.	82.0	32.0	99.0	0.0	.	72	.	.	Atlas-SNP
TGFB1	7040	hgsc.bcm.edu	hg19	19	41850715	41850715	+	Missense_Mutation	SNP	C	C	T	rs201383660		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	TGFB1	NM_000660	exon3	c.G571A	p.D191N	GCGAGTCGCTGGG	.	86.0	14.0	89.0	0.0	.	27	.	.	Atlas-SNP
CEACAM4	1089	hgsc.bcm.edu	hg19	19	42128109	42128109	+	Missense_Mutation	SNP	C	C	T	rs368076616		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	CEACAM4,NS,carcinoma,0,1	CEACAM4	NM_001817	exon3	c.G457A	p.V153I	CAGCGACGGCCCC	.	167.0	67.0	219.0	0.0	.	42	.	.	Atlas-SNP
SYMPK	8189	hgsc.bcm.edu	hg19	19	46326692	46326692	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SYMPK	NM_004819	exon20	c.C2638G	p.L880V	GGTAGAGATCCCG	.	50.0	13.0	75.0	0.0	.	104	.	.	Atlas-SNP
ZNF837	116412	hgsc.bcm.edu	hg19	19	58879429	58879429	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ZNF837	NM_138466	exon3	c.G1271T	p.C424F	TTTTCGCACAGTG	.	34.0	15.0	31.0	0.0	.	16	.	.	Atlas-SNP
SIGLEC1	6614	hgsc.bcm.edu	hg19	20	3675089	3675089	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SIGLEC1	NM_023068	exon12	c.C3035T	p.P1012L	TGGGCCGGAGGGT	.	127.0	12.0	70.0	0.0	.	210	.	.	Atlas-SNP
PCK1	5105	hgsc.bcm.edu	hg19	20	56138214	56138214	+	Silent	SNP	T	T	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	PCK1	NM_002591	exon5	c.T741G	p.A247A	CTTTGCTCTCAGG	.	76.0	38.0	60.0	0.0	.	95	.	.	Atlas-SNP
KRTAP24-1	643803	hgsc.bcm.edu	hg19	21	31654629	31654629	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	KRTAP24-1	NM_001085455	exon1	c.T622A	p.Y208N	AGTGATAATTTCT	.	55.0	11.0	97.0	0.0	.	44	.	.	Atlas-SNP
URB1	9875	hgsc.bcm.edu	hg19	21	33705673	33705673	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	URB1	NM_014825	exon30	c.A4913G	p.Y1638C	GGGTCATAGAGGC	.	54.0	14.0	77.0	0.0	.	176	.	.	Atlas-SNP
SDF2L1	23753	hgsc.bcm.edu	hg19	22	21996797	21996797	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	SDF2L1	NM_022044	exon1	c.A172G	p.I58V	CACGACATCAAAT	.	71.0	15.0	100.0	0.0	.	5	.	.	Atlas-SNP
TFIP11	24144	hgsc.bcm.edu	hg19	22	26902861	26902861	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	TFIP11	NM_001008697	exon6	c.C243T	p.I81I	TGCGCTGATGAAG	.	54.0	16.0	79.0	0.0	.	72	.	.	Atlas-SNP
DEPDC5	9681	hgsc.bcm.edu	hg19	22	32215183	32215183	+	Silent	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	DEPDC5	NM_001242897	exon22	c.A1842G	p.R614R	CAACAGAAGGCGC	.	45.0	8.0	86.0	0.0	.	266	.	.	Atlas-SNP
PNPLA5	150379	hgsc.bcm.edu	hg19	22	44282314	44282314	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	PNPLA5	NM_138814	exon6	c.C818T	p.P273L	TCAGCCGGGGCTG	.	43.0	12.0	53.0	0.0	.	46	.	.	Atlas-SNP
GLRA2	2742	hgsc.bcm.edu	hg19	X	14550455	14550455	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	GLRA2	NM_001118885	exon3	c.A163T	p.T55S	GGAAGGACATCAG	.	168.0	81.0	246.0	0.0	.	140	.	.	Atlas-SNP
MED12	9968	hgsc.bcm.edu	hg19	X	70352248	70352248	+	Silent	SNP	A	A	G	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MED12	NM_005120	exon31	c.A4275G	p.V1425V	TGGTGTATGGCTG	.	78.0	22.0	77.0	0.0	.	984	.	.	Atlas-SNP
ATRX	546	hgsc.bcm.edu	hg19	X	76776919	76776919	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ATRX	NM_000489	exon33	c.G7033A	p.V2345M	TCCTCACTGCTGT	.	19.0	9.0	62.0	0.0	.	833	.	.	Atlas-SNP
FMR1	2332	hgsc.bcm.edu	hg19	X	147011692	147011692	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	FMR1	NM_002024	exon7	c.A559T	p.M187L	ATTGACATGCACT	.	51.0	19.0	90.0	0.0	.	93	.	.	Atlas-SNP
NOVA1	4857	hgsc.bcm.edu	hg19	14	26917256	26917256	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	NOVA1	NM_002515	exon5	c.1434delA	p.P478fs	.	.	219.0	27.0	146.0	0.0	.	146	.	.	Atlas-INDEL
MICALL2	79778	hgsc.bcm.edu	hg19	7	1479677	1479694	+	In_Frame_Del	DEL	GCCCTCGGCTCTGCCAGG	GCCCTCGGCTCTGCCAGG	-	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	GCCCTCGGCTCTGCCAGG	GCCCTCGGCTCTGCCAGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MICALL2	NM_182924	exon9	c.1834_1851del	p.612_617del	.	.	130.0	29.0	133.0	0.0	.	63	.	.	Atlas-INDEL
ZBTB12	221527	hgsc.bcm.edu	hg19	6	31868471	31868472	+	In_Frame_Ins	INS	-	-	TCCTCA	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	ZBTB12	NM_181842	exon2	c.612_613insTGAGGA	p.D204delinsDED	.	.	48.0	12.0	29.0	0.0	.	25	.	.	Atlas-INDEL
DNAH5	1767	hgsc.bcm.edu	hg19	5	13870897	13870898	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	DNAH5	NM_001369	exon24	c.3813_3814insT	p.D1271fs	.	.	113.0	13.0	78.0	0.0	.	868	.	.	Atlas-INDEL
TAF4B	6875	hgsc.bcm.edu	hg19	18	23872237	23872237	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	TAF4B	NM_005640	exon8	c.1617delT	p.N539fs	.	.	91.0	28.0	104.0	0.0	.	71	.	.	Atlas-INDEL
PTPRK	5796	hgsc.bcm.edu	hg19	6	128540097	128540097	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	PTPRK	NM_001135648	exon6	c.839delT	p.V280fs	.	.	64.0	22.0	125.0	0.0	.	330	.	.	Atlas-INDEL
IRF2BPL	64207	hgsc.bcm.edu	hg19	14	77493779	77493780	+	In_Frame_Ins	INS	-	-	TGCTGCTGT	rs71125518	alternate_allele	TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	IRF2BPL	NM_024496	exon1	c.357_358insACAGCAGCA	p.Q119delinsQQQQ	.	.	70.0	46.0	29.0	0.0	.	40	.	CTG|1.000;|0.000	Atlas-INDEL
B3GALNT2	148789	hgsc.bcm.edu	hg19	1	235617616	235617628	+	Frame_Shift_Del	DEL	TTCAGTCTGAAAC	TTCAGTCTGAAAC	-	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	TTCAGTCTGAAAC	TTCAGTCTGAAAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	B3GALNT2	NM_152490	exon10	c.1152_1164del	p.384_388del	.	.	173.0	18.0	199.0	0.0	.	36	.	.	Atlas-INDEL
TSHZ2	128553	hgsc.bcm.edu	hg19	20	51871290	51871292	+	In_Frame_Del	DEL	GTT	GTT	-	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	GTT	GTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	TSHZ2,NS,carcinoma,+1,1	TSHZ2	NM_173485	exon2	c.1292_1294del	p.431_432del	.	.	155.0	15.0	130.0	0.0	.	209	.	.	Atlas-INDEL
MEX3D	399664	hgsc.bcm.edu	hg19	19	1555363	1555363	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	MEX3D	NM_001174118	exon3	c.1969delG	p.G657fs	.	.	193.0	13.0	171.0	0.0	.	11	.	.	Atlas-INDEL
NELFCD	51497	hgsc.bcm.edu	hg19	20	57569232	57569250	+	Frame_Shift_Del	DEL	ATGACAGCATCGCAGGTAC	ATGACAGCATCGCAGGTAC	-	novel		TCGA-DD-AAE3-01A-11D-A40R-10	TCGA-DD-AAE3-10A-01D-A40U-10	ATGACAGCATCGCAGGTAC	ATGACAGCATCGCAGGTAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	56734b6f-386f-4da6-b5de-8321f1231570	a236100b-e8a3-4ffa-99db-6332dada6d98	.	.	NM_198976	exon14	c.1702_1720del	p.568_574del	.	.	138.0	13.0	97.0	0.0	.	.	.	.	Atlas-INDEL