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
CALML6	163688	hgsc.bcm.edu	hg19	1	1848609	1848609	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CALML6	NM_138705	exon6	c.G523T	p.E175X	ACGGGGGAGTCCT	.	82.0	35.0	89.0	0.0	.	18	.	.	Atlas-SNP
KIF1B	23095	hgsc.bcm.edu	hg19	1	10316355	10316355	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	KIF1B	NM_183416	exon3	c.G157A	p.D53N	AGCTTCGACTATT	.	64.0	9.0	50.0	0.0	.	242	.	.	Atlas-SNP
FAM46B	115572	hgsc.bcm.edu	hg19	1	27333377	27333377	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	FAM46B	NM_052943	exon2	c.C336T	p.S112S	CACGTGGCTGGCA	.	112.0	51.0	84.0	0.0	.	44	.	.	Atlas-SNP
EIF2B3	8891	hgsc.bcm.edu	hg19	1	45345676	45345676	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	EIF2B3	NM_020365	exon8	c.C789T	p.I263I	ACTGTAGATATCT	.	124.0	49.0	117.0	0.0	.	43	.	.	Atlas-SNP
COL11A1	1301	hgsc.bcm.edu	hg19	1	103496781	103496781	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.,2	COL11A1	NM_001854	exon5	c.T671C	p.L224S	GTGATCAAAAACT	.	25.0	7.0	46.0	0.0	.	972	.	.	Atlas-SNP
CRB1	23418	hgsc.bcm.edu	hg19	1	197313448	197313448	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CRB1	NM_001257966	exon3	c.C690T	p.S230S	TTGGTCCCAGCCT	.	80.0	52.0	126.0	0.0	.	284	.	.	Atlas-SNP
WNT9A	7483	hgsc.bcm.edu	hg19	1	228111870	228111870	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	WNT9A	NM_003395	exon3	c.T584G	p.V195G	AAGTCCACACGGG	.	197.0	73.0	185.0	0.0	.	39	.	.	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	hg19	1	240256917	240256917	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	FMN2	NM_020066	exon1	c.T1508A	p.L503Q	ACCTGCTGGAGCG	.	39.0	4.0	41.0	0.0	.	451	.	.	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	hg19	1	240371332	240371332	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	FMN2	NM_020066	exon5	c.A3220T	p.I1074L	GCGGGCATACCCC	.	143.0	28.0	122.0	0.0	.	451	.	.	Atlas-SNP
MYT1L	23040	hgsc.bcm.edu	hg19	2	1893081	1893081	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	MYT1L	NM_015025	exon16	c.G2446T	p.D816Y	GCAAGTCCCAGCA	.	52.0	23.0	55.0	0.0	.	241	.	.	Atlas-SNP
SCN5A	6331	hgsc.bcm.edu	hg19	3	38651412	38651412	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	SCN5A	NM_001160160	exon7	c.G747C	p.K249N	AGCCAGCTTCTTC	.	139.0	40.0	144.0	0.0	.	634	.	.	Atlas-SNP
MCM2	4171	hgsc.bcm.edu	hg19	3	127338035	127338035	+	Missense_Mutation	SNP	G	G	T	rs2307313	bycluster;byfrequency;byhapmap;by1000genomes;alternate_allele	TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	MCM2	NM_004526	exon13	c.G2179T	p.A727S	ATCTACGCCAAGG	.	168.0	74.0	168.0	0.0	.	79	.	G|0.994;A|0.006	Atlas-SNP
PRR23A	729627	hgsc.bcm.edu	hg19	3	138724398	138724398	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	PRR23A	NM_001134659	exon1	c.C713T	p.P238L	ACGCGCGGAGAGG	.	191.0	11.0	158.0	0.0	.	35	.	.	Atlas-SNP
GYG1	2992	hgsc.bcm.edu	hg19	3	148714621	148714621	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	GYG1	NM_004130	exon4	c.C411T	p.F137F	AGTCTTCGTTTAT	.	83.0	5.0	69.0	0.0	.	29	.	.	Atlas-SNP
IGSF10	285313	hgsc.bcm.edu	hg19	3	151161667	151161667	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	IGSF10,NS,carcinoma,0,1	IGSF10	NM_178822	exon5	c.G5068A	p.D1690N	ATAAATCAAGTCC	.	104.0	34.0	93.0	0.0	.	279	.	.	Atlas-SNP
CC2D2A	57545	hgsc.bcm.edu	hg19	4	15482406	15482406	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CC2D2A	NM_020785	exon6	c.C308G	p.A103G	GAGGAGCCCAAGA	.	347.0	119.0	292.0	0.0	.	158	.	.	Atlas-SNP
TBC1D1	23216	hgsc.bcm.edu	hg19	4	38055878	38055878	+	Missense_Mutation	SNP	C	C	T	rs140253816	bycluster	TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	TBC1D1	NM_001253912	exon14	c.C2251T	p.R751W	AAGACCCGGAGGC	.	99.0	31.0	92.0	0.0	.	94	.	C|1.000;G|0.000	Atlas-SNP
ADAD1	132612	hgsc.bcm.edu	hg19	4	123301299	123301299	+	Silent	SNP	A	A	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	ADAD1	NM_139243	exon3	c.A75T	p.P25P	CCTGCCAGTTCAA	.	197.0	83.0	186.0	0.0	.	94	.	.	Atlas-SNP
ADAD1	132612	hgsc.bcm.edu	hg19	4	123305084	123305084	+	Silent	SNP	A	A	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	ADAD1	NM_139243	exon5	c.A492G	p.Q164Q	TCTACAACTGGAT	.	227.0	92.0	236.0	0.0	.	94	.	.	Atlas-SNP
BBS12	166379	hgsc.bcm.edu	hg19	4	123663998	123663998	+	Silent	SNP	T	T	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	BBS12	NM_001178007	exon3	c.T951A	p.T317T	TTTCACTTGCTGT	.	159.0	57.0	152.0	0.0	.	63	.	.	Atlas-SNP
FAM198B	51313	hgsc.bcm.edu	hg19	4	159048727	159048727	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	FAM198B	NM_001031700	exon6	c.C1416G	p.H472Q	CCGTAAGTGCTGG	.	119.0	55.0	89.0	0.0	.	134	.	.	Atlas-SNP
GALNT7	51809	hgsc.bcm.edu	hg19	4	174223196	174223196	+	Splice_Site	SNP	A	A	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	GALNT7	NM_017423	exon7	c.1149-2A>T	.	TTTCTTAGGTCCC	.	104.0	38.0	89.0	0.0	.	61	.	.	Atlas-SNP
MAST4	375449	hgsc.bcm.edu	hg19	5	66386029	66386029	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	MAST4	NM_001164664	exon6	c.G803C	p.S268T	CCCCCAGTGCCTC	.	72.0	29.0	68.0	0.0	.	218	.	.	Atlas-SNP
TRPC7	57113	hgsc.bcm.edu	hg19	5	135693062	135693062	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	TRPC7,NS,carcinoma,0,2	TRPC7	NM_001167576	exon2	c.G14C	p.S5T	AAGGTGCTGTTCC	.	25.0	6.0	12.0	0.0	.	126	.	.	Atlas-SNP
CDC25C	995	hgsc.bcm.edu	hg19	5	137627755	137627755	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CDC25C	NM_001790	exon8	c.C666A	p.N222K	TGGCCTGTTCAAG	.	121.0	48.0	108.0	0.0	.	37	.	.	Atlas-SNP
CTNNA1	1495	hgsc.bcm.edu	hg19	5	138223237	138223237	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CTNNA1	NM_001903	exon9	c.T1202C	p.L401P	TTCCACTTTTGGT	.	190.0	89.0	202.0	0.0	.	114	.	.	Atlas-SNP
CTNNA1	1495	hgsc.bcm.edu	hg19	5	138223240	138223240	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CTNNA1	NM_001903	exon9	c.T1205A	p.L402X	CACTTTTGGTATT	.	194.0	91.0	203.0	0.0	.	114	.	.	Atlas-SNP
PCDHB3	56132	hgsc.bcm.edu	hg19	5	140482111	140482111	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	PCDHB3,NS,carcinoma,0,1	PCDHB3	NM_018937	exon1	c.C1878T	p.T626T	GCGCACCGCCAGG	.	60.0	5.0	54.0	0.0	.	208	.	.	Atlas-SNP
PCDHB10	56126	hgsc.bcm.edu	hg19	5	140574260	140574260	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	PCDHB10	NM_018930	exon1	c.C2135T	p.A712V	TCGTGGCGGTGCG	.	70.0	30.0	60.0	0.0	.	177	.	.	Atlas-SNP
PCDHGA10	56106	hgsc.bcm.edu	hg19	5	140794696	140794696	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	PCDHGA10	NM_032090	exon1	c.G1954T	p.D652Y	GTCCAGGACCACG	.	146.0	12.0	135.0	0.0	.	114	.	.	Atlas-SNP
PHF3	23469	hgsc.bcm.edu	hg19	6	64395611	64395611	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	PHF3	NM_015153	exon3	c.T1988A	p.L663Q	TGAAACTGAAAAA	.	166.0	70.0	192.0	0.0	.	191	.	.	Atlas-SNP
PTPRK	5796	hgsc.bcm.edu	hg19	6	128540089	128540089	+	Silent	SNP	A	A	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	PTPRK_ENST00000368213,caecum,carcinoma,0,2	PTPRK	NM_001135648	exon6	c.T846C	p.N282N	AGCAAAATTGGAC	.	114.0	50.0	133.0	0.0	.	330	.	.	Atlas-SNP
EPDR1	54749	hgsc.bcm.edu	hg19	7	37989827	37989827	+	Silent	SNP	A	A	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	EPDR1	NM_017549	exon3	c.A504T	p.T168T	CTATACAGTCAAG	.	131.0	48.0	165.0	0.0	.	48	.	.	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	hg19	7	48313535	48313535	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	ABCA13	NM_152701	exon17	c.C4272A	p.F1424L	GAATTTCAGAGAT	.	150.0	51.0	165.0	0.0	.	1192	.	.	Atlas-SNP
VKORC1L1	154807	hgsc.bcm.edu	hg19	7	65338522	65338522	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	VKORC1L1	NM_173517	exon1	c.G164T	p.W55L	GGCCCTGGGTGAA	.	75.0	26.0	65.0	0.0	.	14	.	.	Atlas-SNP
CYP3A5	1577	hgsc.bcm.edu	hg19	7	99247819	99247819	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CYP3A5	NM_000777	exon12	c.A1290G	p.I430M	TGTGTATATGTAA	.	194.0	50.0	197.0	0.0	.	46	.	.	Atlas-SNP
HBP1	26959	hgsc.bcm.edu	hg19	7	106827063	106827063	+	Silent	SNP	T	T	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	HBP1	NM_001244262	exon6	c.T732G	p.V244V	AGATGTTGAAGAT	.	216.0	99.0	230.0	0.0	.	31	.	.	Atlas-SNP
HBP1	26959	hgsc.bcm.edu	hg19	7	106827072	106827072	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	HBP1	NM_001244262	exon6	c.T741G	p.F247L	AGATTTTGCTAGA	.	218.0	98.0	239.0	0.0	.	31	.	.	Atlas-SNP
HBP1	26959	hgsc.bcm.edu	hg19	7	106827075	106827075	+	Silent	SNP	T	T	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	HBP1	NM_001244262	exon6	c.T744C	p.A248A	TTTTGCTAGAGCT	.	214.0	96.0	243.0	0.0	.	31	.	.	Atlas-SNP
COG5	10466	hgsc.bcm.edu	hg19	7	106843989	106843989	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	COG5	NM_006348	exon22	c.T2555A	p.L852H	TTTTGAAGCAGCT	.	88.0	27.0	93.0	0.0	.	78	.	.	Atlas-SNP
TUSC3	7991	hgsc.bcm.edu	hg19	8	15508269	15508269	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	TUSC3	NM_178234	exon3	c.C372G	p.N124K	TTGTAACAAGCTC	.	91.0	46.0	97.0	0.0	.	98	.	.	Atlas-SNP
IMPA1	3612	hgsc.bcm.edu	hg19	8	82598148	82598148	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	IMPA1	NM_001144878	exon2	c.G3A	p.M1I	CTGCCCCATCACT	.	144.0	53.0	140.0	0.0	.	46	.	.	Atlas-SNP
DCAF13	25879	hgsc.bcm.edu	hg19	8	104427489	104427489	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	DCAF13	NM_015420	exon1	c.C271T	p.L91F	CCGCCCCTTGCTA	.	173.0	10.0	181.0	0.0	.	66	.	.	Atlas-SNP
COL14A1	7373	hgsc.bcm.edu	hg19	8	121228707	121228707	+	Missense_Mutation	SNP	C	C	A	rs150549316	alternate_allele	TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	COL14A1,NS,carcinoma,0,1	COL14A1	NM_021110	exon14	c.C1715A	p.A572E	ACAATGCAGATGG	.	131.0	35.0	121.0	0.0	.	292	.	C|1.000;T|0.000	Atlas-SNP
CNTLN	54875	hgsc.bcm.edu	hg19	9	17416135	17416135	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CNTLN	NM_017738	exon18	c.A3062G	p.H1021R	TCCTCCATCAACA	.	274.0	112.0	276.0	0.0	.	128	.	.	Atlas-SNP
STXBP1	6812	hgsc.bcm.edu	hg19	9	130434340	130434340	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	STXBP1	NM_001032221	exon12	c.G974A	p.R325Q	CCATGCGGGACCT	.	89.0	43.0	73.0	0.0	.	99	.	.	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	hg19	10	26359123	26359123	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	MYO3A	NM_017433	exon13	c.G1254A	p.M418I	ATCTATGATAACA	.	237.0	18.0	199.0	0.0	.	371	.	.	Atlas-SNP
CPEB3	22849	hgsc.bcm.edu	hg19	10	94000049	94000049	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CPEB3	NM_014912	exon2	c.A59G	p.Q20R	TGCCGCTGCTGCT	.	120.0	6.0	134.0	0.0	.	43	.	.	Atlas-SNP
FAM196A	642938	hgsc.bcm.edu	hg19	10	128974496	128974496	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	FAM196A	NM_001039762	exon4	c.C164T	p.A55V	TTCTGTGCCTCGC	.	46.0	37.0	78.0	0.0	.	55	.	.	Atlas-SNP
PSMC3	5702	hgsc.bcm.edu	hg19	11	47441913	47441913	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	PSMC3	NM_002804	exon10	c.C1029T	p.L343L	CGAGCGGAGGAGG	.	50.0	20.0	54.0	0.0	.	35	.	.	Atlas-SNP
DAGLA	747	hgsc.bcm.edu	hg19	11	61511629	61511629	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	DAGLA	NM_006133	exon20	c.C2797G	p.L933V	CAAGACCTCTACT	.	142.0	61.0	98.0	0.0	.	109	.	.	Atlas-SNP
C2CD3	26005	hgsc.bcm.edu	hg19	11	73824881	73824881	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	C2CD3	NM_015531	exon11	c.A1787T	p.K596M	GCTGTCTTTCCCA	.	92.0	22.0	93.0	0.0	.	288	.	.	Atlas-SNP
CREBZF	58487	hgsc.bcm.edu	hg19	11	85375725	85375725	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CREBZF	NM_001039618	exon1	c.C195T	p.A65A	CCTCCCGGCTTCC	.	101.0	43.0	118.0	0.0	.	26	.	.	Atlas-SNP
CNTN5	53942	hgsc.bcm.edu	hg19	11	99715619	99715619	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CNTN5	NM_001243270	exon4	c.C313A	p.P105T	CAAGAACCAGATG	.	152.0	56.0	179.0	0.0	.	324	.	.	Atlas-SNP
CAPRIN2	65981	hgsc.bcm.edu	hg19	12	30863221	30863221	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CAPRIN2	NM_001002259	exon18	c.T2999G	p.F1000C	GCTGAGAAGGCAA	.	126.0	48.0	155.0	0.0	.	109	.	.	Atlas-SNP
KRT5	3852	hgsc.bcm.edu	hg19	12	52908953	52908953	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	KRT5,NS,carcinoma,0,1	KRT5	NM_000424	exon9	c.C1546T	p.L516F	CGCCAAGACCTCC	.	1449.0	550.0	1390.0	1.0	.	88	.	.	Atlas-SNP
HSD17B6	8630	hgsc.bcm.edu	hg19	12	57180920	57180920	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	HSD17B6	NM_003725	exon5	c.A748G	p.M250V	AATATCATGAAGG	.	120.0	23.0	74.0	0.0	.	26	.	.	Atlas-SNP
WSCD2	9671	hgsc.bcm.edu	hg19	12	108600076	108600076	+	Silent	SNP	C	C	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	WSCD2,NS,haematopoietic_neoplasm,+2,1	WSCD2	NM_014653	exon3	c.C393A	p.I131I	GTACATCGGCTGC	.	107.0	44.0	90.0	0.0	.	125	.	.	Atlas-SNP
ATXN2	6311	hgsc.bcm.edu	hg19	12	111951302	111951302	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	ATXN2	NM_002973	exon11	c.A1897T	p.N633Y	TGTGATTTCGAGG	.	118.0	7.0	108.0	0.0	.	99	.	.	Atlas-SNP
MAPKAPK5	8550	hgsc.bcm.edu	hg19	12	112308139	112308139	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	MAPKAPK5	NM_139078	exon6	c.A458G	p.N153S	CTGAAAATCTGCT	.	131.0	45.0	109.0	0.0	.	56	.	.	Atlas-SNP
GCN1L1	10985	hgsc.bcm.edu	hg19	12	120616729	120616729	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	GCN1L1	NM_006836	exon6	c.C451A	p.L151M	CCTCCAGCAAGAG	.	33.0	11.0	44.0	0.0	.	207	.	.	Atlas-SNP
IRG1	730249	hgsc.bcm.edu	hg19	13	77531639	77531639	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	IRG1	NM_001258406	exon4	c.C953A	p.P318H	ACAGGCCCTTTCC	.	98.0	44.0	80.0	0.0	.	1	.	.	Atlas-SNP
FARP1	10160	hgsc.bcm.edu	hg19	13	99040698	99040698	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	FARP1	NM_005766	exon9	c.A821G	p.K274R	AGAGGAAGCGCTT	.	102.0	40.0	83.0	0.0	.	207	.	.	Atlas-SNP
TM9SF1	10548	hgsc.bcm.edu	hg19	14	24661413	24661413	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	TM9SF1	NM_001014842	exon4	c.G1117A	p.V373M	TCCACACCCAACG	.	221.0	70.0	244.0	0.0	.	58	.	.	Atlas-SNP
RALGAPA1	253959	hgsc.bcm.edu	hg19	14	36017745	36017745	+	Splice_Site	SNP	C	C	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	RALGAPA1	NM_014990	exon41	c.6104-1G>T	.	AATGATCTAAAGA	.	69.0	30.0	109.0	0.0	.	289	.	.	Atlas-SNP
TBPL2	387332	hgsc.bcm.edu	hg19	14	55907152	55907152	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	TBPL2	NM_199047	exon1	c.A112G	p.T38A	GGTAGGTCTCCTC	.	174.0	61.0	175.0	0.0	.	27	.	.	Atlas-SNP
ARID4A	5926	hgsc.bcm.edu	hg19	14	58830925	58830925	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	ARID4A	NM_002892	exon20	c.A2118C	p.L706F	TGCTTTAGAAAAG	.	382.0	154.0	390.0	0.0	.	222	.	.	Atlas-SNP
CATSPERB	79820	hgsc.bcm.edu	hg19	14	92185810	92185810	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CATSPERB	NM_024764	exon5	c.A322C	p.I108L	ACAAAATCCGATC	.	118.0	40.0	100.0	0.0	.	114	.	.	Atlas-SNP
TRIP11	9321	hgsc.bcm.edu	hg19	14	92470139	92470139	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	TRIP11	NM_004239	exon11	c.A4181T	p.E1394V	TTGATTTCTGAAT	.	101.0	36.0	144.0	0.0	.	184	.	.	Atlas-SNP
CHP1	11261	hgsc.bcm.edu	hg19	15	41571555	41571555	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	.	NM_007236	exon7	c.G556A	p.E186K	GATGTAGAACAGA	.	125.0	54.0	101.0	0.0	.	.	.	.	Atlas-SNP
RAB11FIP3	9727	hgsc.bcm.edu	hg19	16	532669	532669	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	RAB11FIP3	NM_014700	exon4	c.G1048A	p.V350M	TCGGCCGTGCCCT	.	86.0	4.0	87.0	0.0	.	31	.	.	Atlas-SNP
GLYR1	84656	hgsc.bcm.edu	hg19	16	4861735	4861735	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	GLYR1	NM_032569	exon14	c.A1351G	p.I451V	CGGCAATAGTGGC	.	69.0	28.0	59.0	0.0	.	49	.	.	Atlas-SNP
CDH11	1009	hgsc.bcm.edu	hg19	16	65025837	65025837	+	Silent	SNP	A	A	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CDH11	NM_001797	exon6	c.T645A	p.G215G	GATGATACCTGGA	.	129.0	51.0	98.0	0.0	.	260	.	.	Atlas-SNP
EIF1	10209	hgsc.bcm.edu	hg19	17	39847045	39847045	+	Silent	SNP	T	T	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	EIF1	NM_005801	exon4	c.T309C	p.A103A	ACTGGCTAAGGAC	.	89.0	28.0	88.0	0.0	.	10	.	.	Atlas-SNP
G6PC	2538	hgsc.bcm.edu	hg19	17	41056040	41056040	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	G6PC	NM_001270397	exon2	c.C323T	p.T108I	CTGTAACCTGTGA	.	89.0	40.0	100.0	0.0	.	48	.	.	Atlas-SNP
ITGB4	3691	hgsc.bcm.edu	hg19	17	73738423	73738423	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	ITGB4	NM_001005731	exon24	c.C2635A	p.Q879K	CCCAGGCAAGACC	.	140.0	75.0	95.0	0.0	.	165	.	.	Atlas-SNP
FASN	2194	hgsc.bcm.edu	hg19	17	80038617	80038617	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	FASN	NM_004104	exon39	c.C6777T	p.S2259S	GGCCAGGCTGTGG	.	187.0	47.0	121.0	0.0	.	154	.	.	Atlas-SNP
EPB41L3	23136	hgsc.bcm.edu	hg19	18	5410602	5410602	+	Missense_Mutation	SNP	G	G	T	rs373780287	alternate_allele	TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	EPB41L3,NS,carcinoma,0,1	EPB41L3	NM_012307	exon14	c.C2084A	p.T695K	GTGTCCGTGCGCT	.	75.0	47.0	93.0	0.0	.	222	.	.	Atlas-SNP
SLC35E1	79939	hgsc.bcm.edu	hg19	19	16664490	16664490	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	SLC35E1	NM_024881	exon6	c.G1233T	p.X411Y	TGGACTCTACACA	.	122.0	10.0	110.0	0.0	.	48	.	.	Atlas-SNP
ZNF536	9745	hgsc.bcm.edu	hg19	19	30935445	30935445	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	ZNF536	NM_014717	exon2	c.G976T	p.A326S	ATCACGGCCGAGT	.	56.0	4.0	51.0	0.0	.	424	.	.	Atlas-SNP
ANKRD27	84079	hgsc.bcm.edu	hg19	19	33108518	33108518	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	ANKRD27	NM_032139	exon21	c.G2029T	p.V677F	CAGCAACTGCTCT	.	560.0	189.0	507.0	0.0	.	86	.	.	Atlas-SNP
MAMSTR	284358	hgsc.bcm.edu	hg19	19	49217263	49217263	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	MAMSTR	NM_001130915	exon8	c.C763T	p.R255C	CGGCACGTGGAAG	.	99.0	15.0	71.0	0.0	.	36	.	.	Atlas-SNP
NUCB1	4924	hgsc.bcm.edu	hg19	19	49407702	49407702	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	NUCB1	NM_006184	exon3	c.G234A	p.E78E	TGCGGAGGACATC	.	61.0	24.0	68.0	0.0	.	44	.	.	Atlas-SNP
SIGLEC6	946	hgsc.bcm.edu	hg19	19	52033118	52033118	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	SIGLEC6	NM_001177548	exon5	c.C905A	p.P302H	AGGGCGGGGAAGC	.	123.0	42.0	130.0	0.0	.	142	.	.	Atlas-SNP
TSEN34	79042	hgsc.bcm.edu	hg19	19	54695356	54695356	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	TSEN34	NM_024075	exon2	c.C141T	p.G47G	CCTGGGCCTCCCG	.	44.0	18.0	45.0	0.0	.	17	.	.	Atlas-SNP
LILRA1	11024	hgsc.bcm.edu	hg19	19	55106839	55106839	+	Silent	SNP	C	C	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	LILRA1	NM_006863	exon5	c.C633A	p.P211P	TCTACCCAGTGAT	.	104.0	41.0	108.0	0.0	.	105	.	.	Atlas-SNP
TTPAL	79183	hgsc.bcm.edu	hg19	20	43108747	43108747	+	Silent	SNP	A	A	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	TTPAL	NM_001039199	exon2	c.A108T	p.T36T	ACTGACAGAAGAC	.	155.0	58.0	179.0	0.0	.	31	.	.	Atlas-SNP
KRTAP13-2	337959	hgsc.bcm.edu	hg19	21	31744028	31744028	+	Silent	SNP	T	T	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	KRTAP13-2	NM_181621	exon1	c.A504T	p.S168S	GAAGGTTGATCCA	.	145.0	55.0	157.0	0.0	.	29	.	.	Atlas-SNP
LDOC1L	84247	hgsc.bcm.edu	hg19	22	44892922	44892922	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	LDOC1L	NM_032287	exon2	c.A515G	p.E172G	CGCAACTCTGCCA	.	69.0	33.0	57.0	0.0	.	24	.	.	Atlas-SNP
ADM2	79924	hgsc.bcm.edu	hg19	22	50921204	50921204	+	Silent	SNP	C	C	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	ADM2	NM_024866	exon2	c.C319A	p.R107R	CTCCTGCGAGTGG	.	125.0	50.0	108.0	0.0	.	15	.	.	Atlas-SNP
MAGEB2	4113	hgsc.bcm.edu	hg19	X	30237136	30237136	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	MAGEB2	NM_002364	exon2	c.G439C	p.E147Q	TTCAGGGAGCACT	.	91.0	76.0	105.0	0.0	.	133	.	.	Atlas-SNP
HUWE1	10075	hgsc.bcm.edu	hg19	X	53672263	53672263	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	HUWE1	NM_031407	exon7	c.G504A	p.E168E	ACTCACCTCTGCC	.	37.0	29.0	47.0	0.0	.	724	.	.	Atlas-SNP
TMEM206	55248	hgsc.bcm.edu	hg19	1	212548579	212548580	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	TMEM206	NM_001198862	exon8	c.1030_1031insT	p.V344fs	.	.	223.0	74.0	173.0	0.0	.	41	.	.	Atlas-INDEL
AKR1C2	1646	hgsc.bcm.edu	hg19	10	5032215	5032216	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	AKR1C2	NM_001354	exon11	c.945_946insC	p.P315fs	.	.	532.0	132.0	546.0	0.0	.	68	.	.	Atlas-INDEL
CDH13	1012	hgsc.bcm.edu	hg19	16	83704424	83704424	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	CDH13	NM_001220488	exon10	c.1271delT	p.V424fs	.	.	153.0	62.0	136.0	0.0	.	97	.	.	Atlas-INDEL
PISD	23761	hgsc.bcm.edu	hg19	22	32019822	32019822	+	Frame_Shift_Del	DEL	G	G	-	rs35090450		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	PISD	NM_014338	exon4	c.68delA	p.Q23fs	.	.	128.0	49.0	145.0	0.0	.	53	.	.	Atlas-INDEL
PTEN	5728	hgsc.bcm.edu	hg19	10	89717669	89717674	+	In_Frame_Del	DEL	ACACGA	ACACGA	-	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	ACACGA	ACACGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	PTEN	NM_000314	exon7	c.693_698del	p.231_233del	.	.	63.0	27.0	161.0	0.0	.	3652	.	.	Atlas-INDEL
THOP1	7064	hgsc.bcm.edu	hg19	19	2810300	2810337	+	Frame_Shift_Del	DEL	CCTGGGCACTCTGAGGCTCTGCCCCATCCCTGCAGGCG	CCTGGGCACTCTGAGGCTCTGCCCCATCCCTGCAGGCG	-	novel		TCGA-DD-AAE2-01A-11D-A40R-10	TCGA-DD-AAE2-10A-01D-A40U-10	CCTGGGCACTCTGAGGCTCTGCCCCATCCCTGCAGGCG	CCTGGGCACTCTGAGGCTCTGCCCCATCCCTGCAGGCG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	66c712a0-e797-4c8f-9f9b-ff7706b87d78	318f2f81-2c67-4132-aeb5-4179b9cc568a	.	THOP1	NM_003249	exon10	c.1456_1457del	p.486_486del	.	.	67.0	19.0	69.0	0.0	.	49	.	.	Atlas-INDEL
