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
FAM213B	127281	hgsc.bcm.edu	hg19	1	2520399	2520399	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	C1orf93,caecum,carcinoma,0,1	.	NM_001195736	exon6	c.C643G	p.P215A	AAGTCCCCAGGCG	.	88.0	41.0	108.0	0.0	.	.	.	.	Atlas-SNP
MEGF6	1953	hgsc.bcm.edu	hg19	1	3428670	3428670	+	Silent	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	MEGF6	NM_001409	exon8	c.G876T	p.G292G	GGCCAGCCCTGCG	.	177.0	65.0	174.0	0.0	.	91	.	.	Atlas-SNP
SYF2	25949	hgsc.bcm.edu	hg19	1	25558651	25558651	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	SYF2	NM_207170	exon2	c.G76T	p.A26S	GAGCGGCCAGCTC	.	90.0	41.0	80.0	0.0	.	13	.	.	Atlas-SNP
DNAJC8	22826	hgsc.bcm.edu	hg19	1	28536505	28536505	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	DNAJC8	NM_014280	exon5	c.G377T	p.G126V	TCTTTTCCTGCCT	.	104.0	52.0	145.0	0.0	.	13	.	.	Atlas-SNP
PHACTR4	65979	hgsc.bcm.edu	hg19	1	28800595	28800595	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	PHACTR4	NM_023923	exon6	c.C1383G	p.S461R	TGACAGCTTTTCT	.	134.0	59.0	149.0	0.0	.	64	.	.	Atlas-SNP
CLDN19	149461	hgsc.bcm.edu	hg19	1	43201511	43201511	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	CLDN19	NM_001185117	exon3	c.C579A	p.H193Q	CACTGGGTGGGGG	.	73.0	24.0	72.0	0.0	.	21	.	.	Atlas-SNP
FPGT-TNNI3K	100526835	hgsc.bcm.edu	hg19	1	74957805	74957805	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	.	NM_001112808	exon25	c.A2509T	p.S837C	AGTAACAGCAGTG	.	92.0	16.0	284.0	0.0	.	.	.	.	Atlas-SNP
SNX7	51375	hgsc.bcm.edu	hg19	1	99203828	99203828	+	Silent	SNP	G	G	C	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	SNX7	NM_015976	exon8	c.G1161C	p.V387V	TAAAGTGGAATGT	.	84.0	32.0	114.0	0.0	.	76	.	.	Atlas-SNP
LRIG2	9860	hgsc.bcm.edu	hg19	1	113658968	113658968	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	LRIG2	NM_014813	exon16	c.G2590T	p.E864X	CTGTCTGAGCCAC	.	162.0	66.0	192.0	0.0	.	67	.	.	Atlas-SNP
DENND4B	9909	hgsc.bcm.edu	hg19	1	153913916	153913916	+	Silent	SNP	C	C	G	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	DENND4B	NM_014856	exon7	c.G1056C	p.A352A	GATGTGCCTGGGG	.	88.0	45.0	73.0	0.0	.	210	.	.	Atlas-SNP
COPA	1314	hgsc.bcm.edu	hg19	1	160305090	160305090	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	COPA	NM_001098398	exon4	c.G251T	p.R84L	AGACAGCGCCGAA	.	439.0	131.0	349.0	0.0	.	181	.	.	Atlas-SNP
COLGALT2	23127	hgsc.bcm.edu	hg19	1	183938536	183938536	+	Silent	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	.	NM_015101	exon5	c.C699A	p.P233P	GACCATGGGGACG	.	145.0	85.0	156.0	0.0	.	.	.	.	Atlas-SNP
COLGALT2	23127	hgsc.bcm.edu	hg19	1	183938539	183938539	+	Silent	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	.	NM_015101	exon5	c.C696A	p.V232V	CATGGGGACGGGG	.	148.0	86.0	157.0	0.0	.	.	.	.	Atlas-SNP
KIF21B	23046	hgsc.bcm.edu	hg19	1	200946358	200946358	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	KIF21B,NS,carcinoma,0,1	KIF21B	NM_001252102	exon31	c.G4307T	p.R1436L	CAGATGCGGACGG	.	63.0	23.0	53.0	0.0	.	208	.	.	Atlas-SNP
KDM5B	10765	hgsc.bcm.edu	hg19	1	202702803	202702803	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	KDM5B	NM_006618	exon23	c.G3635T	p.G1212V	CGCAGGCCCTGTG	.	72.0	28.0	79.0	0.0	.	166	.	.	Atlas-SNP
ADIPOR1	51094	hgsc.bcm.edu	hg19	1	202917500	202917500	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	ADIPOR1	NM_015999	exon3	c.G190T	p.V64L	CCCGCACCTCCTC	.	143.0	79.0	112.0	0.0	.	32	.	.	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	hg19	1	228474710	228474710	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	OBSCN	NM_001271223	exon40	c.G10801T	p.A3601S	GGGGGCGCCTGCA	.	62.0	48.0	71.0	0.0	.	2142	.	.	Atlas-SNP
ZBTB18	10472	hgsc.bcm.edu	hg19	1	244218434	244218434	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	.	NM_205768	exon2	c.G1358T	p.G453V	AGTGCGGCAAGAG	.	105.0	86.0	83.0	0.0	.	.	.	.	Atlas-SNP
OR2G2	81470	hgsc.bcm.edu	hg19	1	247751752	247751752	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	OR2G2	NM_001001915	exon1	c.T91G	p.F31V	GTTCTATTTGTGC	.	474.0	141.0	632.0	0.0	.	88	.	.	Atlas-SNP
C2orf71	388939	hgsc.bcm.edu	hg19	2	29294437	29294437	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	C2orf71	NM_001029883	exon1	c.C2691T	p.T897T	GCTGGCGGTGCTC	.	47.0	12.0	40.0	0.0	.	146	.	.	Atlas-SNP
TGFBRAP1	9392	hgsc.bcm.edu	hg19	2	105924415	105924415	+	Missense_Mutation	SNP	C	C	A	rs369840873	alternate_allele	TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	TGFBRAP1	NM_004257	exon2	c.G344T	p.R115L	TTGATGCGGGCCC	.	45.0	23.0	48.0	0.0	.	70	.	.	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	hg19	2	109380318	109380318	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	RANBP2	NM_006267	exon20	c.G3323T	p.G1108V	TGTCTGGAATTTC	.	118.0	45.0	214.0	0.0	.	488	.	.	Atlas-SNP
PRPF40A	55660	hgsc.bcm.edu	hg19	2	153573934	153573934	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	PRPF40A	NM_017892	exon1	c.G20T	p.R7L	CGCCGGCGGCCAC	.	84.0	30.0	87.0	0.0	.	149	.	.	Atlas-SNP
TRAK2	66008	hgsc.bcm.edu	hg19	2	202251196	202251196	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	TRAK2	NM_015049	exon14	c.C1708T	p.L570L	GATACAGAGTTTG	.	54.0	19.0	121.0	0.0	.	62	.	.	Atlas-SNP
ABCB6	10058	hgsc.bcm.edu	hg19	2	220079777	220079777	+	Silent	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	ABCB6	NM_005689	exon6	c.G1182T	p.T394T	GGCCAGCGTGGGG	.	102.0	22.0	110.0	0.0	.	76	.	.	Atlas-SNP
TRIP12	9320	hgsc.bcm.edu	hg19	2	230667054	230667054	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	TRIP12	NM_004238	exon20	c.C2895T	p.A965A	AGCTGTGGCTGTC	.	73.0	18.0	111.0	0.0	.	207	.	.	Atlas-SNP
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41266110	41266110	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	CTNNB1,NS,carcinoma,0,1	CTNNB1	NM_001098209	exon3	c.A107C	p.H36P	GAATCCATTCTGG	.	134.0	54.0	252.0	0.0	.	4904	.	.	Atlas-SNP
ROBO2	6092	hgsc.bcm.edu	hg19	3	77651546	77651546	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	ROBO2_ENST00000487694,NS,carcinoma,0,6	ROBO2	NM_002942	exon20	c.G3040A	p.D1014N	GCTGTCGATCTGC	.	282.0	115.0	238.0	0.0	.	527	.	.	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	hg19	3	129279234	129279234	+	Missense_Mutation	SNP	C	C	T	rs201100072	by1000genomes;alternate_allele	TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	PLXND1	NM_015103	exon31	c.G5072A	p.R1691Q	CTCTGCCGGTGAG	.	152.0	62.0	158.0	0.0	.	149	.	C|1.000;G|0.000	Atlas-SNP
CLSTN2	64084	hgsc.bcm.edu	hg19	3	140281020	140281020	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	CLSTN2	NM_022131	exon13	c.A2082T	p.L694F	TAACTTAGATTTC	.	95.0	40.0	90.0	0.0	.	190	.	.	Atlas-SNP
BOD1L1	259282	hgsc.bcm.edu	hg19	4	13617012	13617012	+	Silent	SNP	C	C	A	rs56295497	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	.	NM_148894	exon3	c.G483T	p.T161T	ATTTAGCGTGGCC	.	166.0	73.0	342.0	1.0	.	.	.	C|0.988;T|0.012	Atlas-SNP
KCTD8	386617	hgsc.bcm.edu	hg19	4	44177219	44177219	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	KCTD8	NM_198353	exon2	c.A1010G	p.K337R	TCATGTTTCCTAT	.	106.0	40.0	149.0	0.0	.	96	.	.	Atlas-SNP
CTNND2	1501	hgsc.bcm.edu	hg19	5	11082847	11082847	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	CTNND2,NS,carcinoma,0,1	CTNND2	NM_001332	exon16	c.C2749T	p.R917W	TGTTCCGCAGCGC	.	115.0	44.0	172.0	0.0	.	289	.	.	Atlas-SNP
SEPP1	6414	hgsc.bcm.edu	hg19	5	42804757	42804757	+	Splice_Site	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	SEPP1	NM_005410	exon5	c.534+1G>T	.	AAAATACCGTGAG	.	314.0	106.0	304.0	1.0	.	33	.	.	Atlas-SNP
REEP5	7905	hgsc.bcm.edu	hg19	5	112238112	112238112	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	REEP5	NM_005669	exon3	c.T316C	p.F106L	ACAGGAAGATATC	.	128.0	60.0	142.0	0.0	.	12	.	.	Atlas-SNP
PCDHGB7	56099	hgsc.bcm.edu	hg19	5	140798829	140798829	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	PCDHGB7	NM_018927	exon1	c.G1403A	p.G468D	AGCCGGGTGCCTC	.	129.0	29.0	147.0	0.0	.	117	.	.	Atlas-SNP
KIF13A	63971	hgsc.bcm.edu	hg19	6	17764367	17764367	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	KIF13A	NM_022113	exon39	c.G5392T	p.A1798S	AAAAGGCTGCCTC	.	134.0	55.0	149.0	0.0	.	276	.	.	Atlas-SNP
COL11A2	1302	hgsc.bcm.edu	hg19	6	33144991	33144991	+	Silent	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	COL11A2	NM_080680	exon24	c.G1983T	p.G661G	CTGGGGCCCGGGA	.	63.0	16.0	65.0	0.0	.	124	.	.	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	hg19	6	38747836	38747836	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	DNAH8	NM_001206927	exon15	c.A2134T	p.K712X	GCTACTAAGAAGG	.	97.0	29.0	115.0	0.0	.	1239	.	.	Atlas-SNP
NT5DC1	221294	hgsc.bcm.edu	hg19	6	116542390	116542390	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	NT5DC1	NM_152729	exon7	c.G703A	p.G235R	ATTCTTGGGTGAG	.	188.0	63.0	370.0	0.0	.	32	.	.	Atlas-SNP
UNC93A	54346	hgsc.bcm.edu	hg19	6	167708073	167708073	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	UNC93A	NM_018974	exon2	c.G156A	p.L52L	GCTCCTGTCCTCC	.	115.0	43.0	101.0	0.0	.	66	.	.	Atlas-SNP
IQUB	154865	hgsc.bcm.edu	hg19	7	123143008	123143008	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	IQUB	NM_178827	exon5	c.G857A	p.R286K	GTATCCCTACAAA	.	77.0	48.0	176.0	1.0	.	117	.	.	Atlas-SNP
AGBL3	340351	hgsc.bcm.edu	hg19	7	134717660	134717660	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	AGBL3	NM_178563	exon6	c.G484A	p.V162M	CAGCCTGTGGATT	.	82.0	44.0	195.0	0.0	.	45	.	.	Atlas-SNP
ADAM28	10863	hgsc.bcm.edu	hg19	8	24193031	24193031	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	ADAM28	NM_014265	exon14	c.T1444C	p.S482P	GGTAAATCTGGTA	.	122.0	8.0	230.0	0.0	.	100	.	.	Atlas-SNP
SMC2	10592	hgsc.bcm.edu	hg19	9	106894408	106894408	+	Splice_Site	SNP	T	T	G	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	SMC2	NM_001042551	exon22	c.3108+2T>G	.	AAAAGGTACTTTT	.	287.0	123.0	503.0	0.0	.	127	.	.	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	hg19	9	140953173	140953173	+	Silent	SNP	G	G	C	rs199714779	alternate_allele	TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	CACNA1B	NM_001243812	exon29	c.G4461C	p.V1487V	TGTGGTGCTGATG	.	107.0	38.0	96.0	0.0	.	266	.	.	Atlas-SNP
ASAH2	56624	hgsc.bcm.edu	hg19	10	52005051	52005051	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	ASAH2	NM_019893	exon2	c.G291T	p.Q97H	GAAGTTCTGAAAT	.	339.0	178.0	361.0	0.0	.	69	.	.	Atlas-SNP
DCHS1	8642	hgsc.bcm.edu	hg19	11	6643329	6643329	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	DCHS1	NM_003737	exon21	c.G9578T	p.C3193F	GGGGGACATGGCC	.	86.0	30.0	112.0	0.0	.	277	.	.	Atlas-SNP
OR5D14	219436	hgsc.bcm.edu	hg19	11	55563794	55563794	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	OR5D14	NM_001004735	exon1	c.G763T	p.G255W	TTCCATGGGACCA	.	123.0	53.0	289.0	0.0	.	116	.	.	Atlas-SNP
OR5D14	219436	hgsc.bcm.edu	hg19	11	55563795	55563795	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	OR5D14	NM_001004735	exon1	c.G764T	p.G255V	TCCATGGGACCAT	.	124.0	53.0	284.0	1.0	.	116	.	.	Atlas-SNP
ESRRA	2101	hgsc.bcm.edu	hg19	11	64082291	64082291	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	ESRRA	NM_004451	exon5	c.G650T	p.G217V	CCGCAGGCCCTGA	.	60.0	31.0	59.0	0.0	.	56	.	.	Atlas-SNP
TENC1	23371	hgsc.bcm.edu	hg19	12	53446269	53446269	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	TENC1	NM_015319	exon3	c.A245T	p.E82V	AATGTGAAGCAAA	.	111.0	43.0	100.0	0.0	.	148	.	.	Atlas-SNP
PPFIA2	8499	hgsc.bcm.edu	hg19	12	81746949	81746949	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	PPFIA2	NM_001220476	exon16	c.C1943A	p.T648K	GCTAGCGTCTGGG	.	116.0	52.0	198.0	0.0	.	207	.	.	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	hg19	12	124305198	124305198	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	DNAH10	NM_207437	exon23	c.G3718T	p.A1240S	GCTAACGCTGAGA	.	133.0	66.0	155.0	0.0	.	888	.	.	Atlas-SNP
DMXL2	23312	hgsc.bcm.edu	hg19	15	51791589	51791589	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	DMXL2	NM_001174116	exon18	c.G3832C	p.V1278L	ATTTGACAGCATG	.	86.0	51.0	140.0	0.0	.	262	.	.	Atlas-SNP
STOML1	9399	hgsc.bcm.edu	hg19	15	74277722	74277722	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	STOML1	NM_001256672	exon5	c.G727T	p.A243S	GCAGGGCCAGCTG	.	38.0	10.0	94.0	0.0	.	22	.	.	Atlas-SNP
TTC23	64927	hgsc.bcm.edu	hg19	15	99759189	99759189	+	Silent	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	TTC23	NM_001040657	exon5	c.G369T	p.V123V	GGGAGGCACAATG	.	166.0	98.0	382.0	0.0	.	33	.	.	Atlas-SNP
SNRPA1	6627	hgsc.bcm.edu	hg19	15	101827889	101827889	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	SNRPA1	NM_003090	exon4	c.G328T	p.A110S	GAGATGCCAGAGG	.	99.0	66.0	196.0	1.0	.	11	.	.	Atlas-SNP
ZNF423	23090	hgsc.bcm.edu	hg19	16	49671299	49671299	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	ZNF423	NM_015069	exon4	c.C1764A	p.H588Q	GTTCTTGTGGTTC	.	447.0	160.0	517.0	0.0	.	463	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7578449	7578449	+	Missense_Mutation	SNP	C	C	A	rs193920817	alternate_allele	TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	TP53_ENST00000545858,NS,lymphoid_neoplasm,0,1	TP53	NM_000546	exon5	c.G481T	p.A161S	AGATGGCCATGGC	.	56.0	36.0	98.0	0.0	.	33396	.	.	Atlas-SNP
PCGF2	7703	hgsc.bcm.edu	hg19	17	36891702	36891702	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	PCGF2	NM_007144	exon11	c.C809T	p.P270L	GTGGCTGGCAGGG	.	111.0	52.0	148.0	0.0	.	24	.	.	Atlas-SNP
KRTAP3-3	85293	hgsc.bcm.edu	hg19	17	39150290	39150290	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	KRTAP3-3	NM_033185	exon1	c.C60A	p.C20X	AGAGGAGCAGATG	.	248.0	90.0	350.0	0.0	.	11	.	.	Atlas-SNP
ATP6V0A1	535	hgsc.bcm.edu	hg19	17	40652840	40652840	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	ATP6V0A1	NM_001130020	exon16	c.G1816T	p.A606S	TATGATGCTCATA	.	717.0	273.0	772.0	0.0	.	67	.	.	Atlas-SNP
RUNDC1	146923	hgsc.bcm.edu	hg19	17	41143400	41143400	+	Silent	SNP	T	T	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	RUNDC1	NM_173079	exon5	c.T1509A	p.P503P	CCTTCCTGTTACG	.	106.0	36.0	122.0	0.0	.	25	.	.	Atlas-SNP
CCDC43	124808	hgsc.bcm.edu	hg19	17	42756228	42756228	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	CCDC43	NM_144609	exon5	c.G671C	p.R224P	GGTTATCGCTTTC	.	400.0	157.0	465.0	0.0	.	34	.	.	Atlas-SNP
SP6	80320	hgsc.bcm.edu	hg19	17	45925714	45925714	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	SP6	NM_001258248	exon2	c.C82A	p.P28T	GGAGAGGCTGCAG	.	52.0	21.0	42.0	0.0	.	26	.	.	Atlas-SNP
CSH1	1442	hgsc.bcm.edu	hg19	17	61972411	61972411	+	Missense_Mutation	SNP	G	G	T	rs61764004		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	CSH1,brain,atypical_teratoid-rhabdoid_tumour,0,1	CSH1	NM_001317	exon5	c.C625A	p.R209S	CAGAGCGGCACTG	.	185.0	85.0	270.0	0.0	.	18	.	G|0.993;T|0.007	Atlas-SNP
PCYT2	5833	hgsc.bcm.edu	hg19	17	79864760	79864760	+	Silent	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	PCYT2	NM_001184917	exon8	c.G606T	p.R202R	GGGGTTCCGCCCA	.	69.0	31.0	53.0	0.0	.	23	.	.	Atlas-SNP
MYADML2	255275	hgsc.bcm.edu	hg19	17	79899539	79899539	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	MYADML2	NM_001145113	exon3	c.G79A	p.V27M	GCAGCACGCGGGC	.	51.0	23.0	46.0	0.0	.	11	.	.	Atlas-SNP
LRG1	116844	hgsc.bcm.edu	hg19	19	4538450	4538450	+	Silent	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	LRG1	NM_052972	exon2	c.G546T	p.G182G	CAGCAGCCCGGGG	.	24.0	16.0	40.0	0.0	.	25	.	.	Atlas-SNP
KEAP1	9817	hgsc.bcm.edu	hg19	19	10602767	10602767	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	KEAP1,right_upper_lobe,carcinoma,0,1	KEAP1	NM_012289	exon3	c.G811T	p.V271L	AGCGCACGGCCCG	.	45.0	35.0	68.0	0.0	.	182	.	.	Atlas-SNP
HPN	3249	hgsc.bcm.edu	hg19	19	35556780	35556780	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	HPN	NM_182983	exon12	c.C1059T	p.S353S	CGACAGCGGTGGT	.	111.0	53.0	105.0	0.0	.	45	.	.	Atlas-SNP
GAPDHS	26330	hgsc.bcm.edu	hg19	19	36033250	36033250	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	GAPDHS	NM_014364	exon5	c.C479A	p.A160D	GGAGGGCTGTCGG	.	64.0	29.0	76.0	0.0	.	34	.	.	Atlas-SNP
NPHS1	4868	hgsc.bcm.edu	hg19	19	36340537	36340537	+	Silent	SNP	T	T	A	rs111277506	alternate_allele	TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	NPHS1	NM_004646	exon6	c.A627T	p.S209S	ATTATCTGAGCTC	.	59.0	17.0	72.0	0.0	.	165	.	T|0.500;C|0.500	Atlas-SNP
CGB2	114336	hgsc.bcm.edu	hg19	19	49536324	49536324	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	CGB2,NS,carcinoma,0,1	CGB2	NM_033378	exon3	c.G338A	p.R113H	GCCGCCGCAGCAC	.	142.0	46.0	200.0	0.0	.	6	.	.	Atlas-SNP
SIGLEC7	27036	hgsc.bcm.edu	hg19	19	51645632	51645632	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	SIGLEC7	NM_016543	exon1	c.G6A	p.L2L	TATGCTGCTGCTG	.	31.0	14.0	43.0	0.0	.	74	.	.	Atlas-SNP
BPIFB4	149954	hgsc.bcm.edu	hg19	20	31672752	31672752	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	.	NM_182519	exon4	c.C732T	p.G244G	GCCCGGCGTGGGT	.	51.0	18.0	60.0	0.0	.	.	.	.	Atlas-SNP
C20orf111	51526	hgsc.bcm.edu	hg19	20	42826208	42826208	+	Silent	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	C20orf111	NM_016470	exon4	c.G363T	p.L121L	AATTCCCAGCCCA	.	102.0	38.0	108.0	0.0	.	28	.	.	Atlas-SNP
TAF4	6874	hgsc.bcm.edu	hg19	20	60578221	60578221	+	Silent	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	TAF4	NM_003185	exon9	c.G2481T	p.S827S	CCGAAACGAACCT	.	103.0	46.0	105.0	0.0	.	84	.	.	Atlas-SNP
CHRNA4	1137	hgsc.bcm.edu	hg19	20	61981117	61981117	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	CHRNA4	NM_000744	exon5	c.G1646C	p.R549P	GTGCTGCGGGTCT	.	30.0	15.0	43.0	0.0	.	98	.	.	Atlas-SNP
AMER1	139285	hgsc.bcm.edu	hg19	X	63410708	63410708	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	.	NM_152424	exon2	c.G2459T	p.G820V	CACTTGCCTTCCC	.	62.0	58.0	56.0	0.0	.	.	.	.	Atlas-SNP
ARHGEF6	9459	hgsc.bcm.edu	hg19	X	135757211	135757211	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	ARHGEF6	NM_004840	exon19	c.G1990C	p.E664Q	AGGCTTCGATCAC	.	118.0	100.0	126.0	1.0	.	111	.	.	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	13916	13916	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	.	ENST00000361567	exon1	c.G1580A	p.G527E	TACTCGGATTCTA	.	518.0	67.0	263.0	0.0	.	.	.	.	Atlas-SNP
AGBL3	340351	hgsc.bcm.edu	hg19	7	134717658	134717659	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	AGBL3	NM_178563	exon6	c.482_483insT	p.P161fs	.	.	83.0	43.0	193.0	0.0	.	45	.	.	Atlas-INDEL
AUP1	550	hgsc.bcm.edu	hg19	2	74755115	74755115	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	AUP1	NM_181575	exon7	c.691delC	p.R231fs	.	.	127.0	27.0	154.0	0.0	.	29	.	.	Atlas-Indel,Pindel
C19orf33	64073	hgsc.bcm.edu	hg19	19	38795575	38795576	+	In_Frame_Ins	INS	-	-	AGGGCAAGAAGGAGA	novel		TCGA-DD-A1EL-01A-11D-A152-10	TCGA-DD-A1EL-10A-01D-A152-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d252f328-4583-4e97-9a71-bb2885f06f73	b43d641d-f1b1-474e-9475-a1f2e81835b8	.	C19orf33	NM_033520	exon4	c.292_293insAGGGCAAGAAGGAGA	p.K98delinsKGKKEK	.	.	293.0	18.0	315.0	0.0	.	9	.	.	Pindel