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
TAS1R2	80834	hgsc.bcm.edu	hg19	1	19166175	19166175	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	TAS1R2	NM_152232	exon6	c.A2438G	p.Y813C	ATCATGTAGCACT	.	266.0	29.0	259.0	0.0	.	134	.	.	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	hg19	1	22222416	22222416	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	HSPG2	NM_005529	exon3	c.G243A	p.M81I	CTTACCCATCTGG	.	94.0	18.0	108.0	0.0	.	311	.	.	Atlas-SNP
ARID1A	8289	hgsc.bcm.edu	hg19	1	27099008	27099008	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	ARID1A,NS,carcinoma,0,1	ARID1A	NM_006015	exon13	c.C3424T	p.Q1142X	TCTATGCAGGGGC	.	248.0	45.0	207.0	0.0	.	842	.	.	Atlas-SNP
GNL2	29889	hgsc.bcm.edu	hg19	1	38034740	38034740	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	GNL2	NM_013285	exon13	c.C1580A	p.T527K	ACTCGTGTGAGAA	.	369.0	15.0	344.0	0.0	.	58	.	.	Atlas-SNP
PTPRF	5792	hgsc.bcm.edu	hg19	1	44069658	44069658	+	Silent	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	PTPRF	NM_002840	exon16	c.C2835T	p.N945N	GAGGAACGGGCGC	.	119.0	28.0	117.0	0.0	.	172	.	.	Atlas-SNP
SH3GLB1	51100	hgsc.bcm.edu	hg19	1	87189994	87189994	+	Splice_Site	SNP	A	A	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	SH3GLB1	NM_001206653	exon4	c.178-2A>G	.	ATTTATAGAAAGA	.	452.0	93.0	254.0	0.0	.	57	.	.	Atlas-SNP
LCE1C	353133	hgsc.bcm.edu	hg19	1	152777757	152777757	+	Silent	SNP	T	T	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	LCE1C,NS,carcinoma,0,3	LCE1C	NM_178351	exon2	c.A198T	p.G66G	GCAGCATCCCCCA	.	150.0	19.0	182.0	1.0	.	40	.	.	Atlas-SNP
OR6Y1	391112	hgsc.bcm.edu	hg19	1	158517119	158517119	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	OR6Y1	NM_001005189	exon1	c.G777T	p.M259I	AAGTGTCATGGAA	.	184.0	32.0	146.0	0.0	.	73	.	.	Atlas-SNP
ATP1A2	477	hgsc.bcm.edu	hg19	1	160104352	160104352	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	ATP1A2	NM_000702	exon14	c.G1906T	p.E636X	GGTAACGAGACTG	.	223.0	11.0	196.0	0.0	.	167	.	.	Atlas-SNP
SLC9C2	284525	hgsc.bcm.edu	hg19	1	173570862	173570862	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	.	NM_178527	exon2	c.C54A	p.C18X	CTGCCCGCAGAGT	.	425.0	66.0	305.0	0.0	.	.	.	.	Atlas-SNP
SLC9C2	284525	hgsc.bcm.edu	hg19	1	173570863	173570863	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	.	NM_178527	exon2	c.G53A	p.C18Y	TGCCCGCAGAGTA	.	429.0	69.0	302.0	0.0	.	.	.	.	Atlas-SNP
FAM5B	57795	hgsc.bcm.edu	hg19	1	177250229	177250229	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	FAM5B	NM_021165	exon8	c.T1917A	p.F639L	TTTCTTTGAGACA	.	259.0	41.0	177.0	0.0	.	191	.	.	Atlas-SNP
SERTAD4	56256	hgsc.bcm.edu	hg19	1	210415122	210415122	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	SERTAD4	NM_019605	exon4	c.C511G	p.P171A	GACTGCCCTTACC	.	200.0	30.0	138.0	0.0	.	53	.	.	Atlas-SNP
SMYD2	56950	hgsc.bcm.edu	hg19	1	214501025	214501025	+	Silent	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	SMYD2	NM_020197	exon7	c.G663T	p.L221L	GACCCTGGCAGAA	.	187.0	65.0	149.0	0.0	.	40	.	.	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	hg19	1	228465514	228465514	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	OBSCN	NM_001271223	exon30	c.T8101C	p.F2701L	ATCCAATTTGTAG	.	328.0	34.0	230.0	0.0	.	2142	.	.	Atlas-SNP
CAPN9	10753	hgsc.bcm.edu	hg19	1	230914798	230914798	+	Missense_Mutation	SNP	G	G	A	rs145648359	bycluster	TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	CAPN9,colon,carcinoma,0,1	CAPN9	NM_006615	exon9	c.G1033A	p.A345T	GAAGACGCGATCC	.	116.0	24.0	85.0	1.0	.	116	.	G|1.000;A|0.000	Atlas-SNP
OR2L13	284521	hgsc.bcm.edu	hg19	1	248263522	248263522	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	OR2L13	NM_175911	exon3	c.C845A	p.P282H	TTACCCCCATGCT	.	181.0	25.0	113.0	0.0	.	261	.	.	Atlas-SNP
PXDN	7837	hgsc.bcm.edu	hg19	2	1664717	1664717	+	Silent	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	PXDN	NM_012293	exon14	c.C1773A	p.R591R	CTCATAGCGACCT	.	98.0	12.0	74.0	0.0	.	255	.	.	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	hg19	2	33174004	33174004	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	LTBP1	NM_206943	exon2	c.G557C	p.C186S	AGAGGTGCACCAA	.	189.0	38.0	144.0	0.0	.	317	.	.	Atlas-SNP
ARHGEF33	100271715	hgsc.bcm.edu	hg19	2	39158314	39158314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	ARHGEF33	NM_001145451	exon5	c.C427T	p.R143C	CCTTTTCGTTCTA	.	232.0	38.0	174.0	0.0	.	34	.	.	Atlas-SNP
BCL11A	53335	hgsc.bcm.edu	hg19	2	60688381	60688381	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	BCL11A	NM_018014	exon4	c.C1666A	p.Q556K	AGTGCTGCATGGA	.	58.0	9.0	73.0	0.0	.	298	.	.	Atlas-SNP
PROM2	150696	hgsc.bcm.edu	hg19	2	95952937	95952937	+	Silent	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	PROM2	NM_001165977	exon19	c.C2151T	p.A717A	GCCTGCCTGGGCA	.	100.0	23.0	85.0	0.0	.	78	.	.	Atlas-SNP
CCDC93	54520	hgsc.bcm.edu	hg19	2	118716046	118716046	+	Silent	SNP	T	T	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	CCDC93	NM_019044	exon12	c.A900C	p.L300L	AGCTGATAGCTCA	.	365.0	73.0	282.0	0.0	.	70	.	.	Atlas-SNP
MBD5	55777	hgsc.bcm.edu	hg19	2	149247524	149247524	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	MBD5	NM_018328	exon12	c.C3624A	p.N1208K	GCGAAACAGGTGG	.	109.0	11.0	107.0	0.0	.	164	.	.	Atlas-SNP
SLC25A12	8604	hgsc.bcm.edu	hg19	2	172749745	172749745	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	SLC25A12	NM_003705	exon2	c.T36A	p.D12E	ATGAGGATCCCCT	.	333.0	56.0	264.0	0.0	.	59	.	.	Atlas-SNP
RAPH1	65059	hgsc.bcm.edu	hg19	2	204354662	204354662	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	RAPH1	NM_213589	exon4	c.A377G	p.H126R	AATGTATGTCGGC	.	569.0	34.0	433.0	0.0	.	118	.	.	Atlas-SNP
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41274899	41274899	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	CTNNB1,NS,malignant_melanoma,0,2	CTNNB1	NM_001098209	exon8	c.G1149C	p.W383C	TCTTTGGACTCTC	.	260.0	56.0	194.0	0.0	.	4904	.	.	Atlas-SNP
CCDC13	152206	hgsc.bcm.edu	hg19	3	42787466	42787466	+	Silent	SNP	C	C	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	CCDC13,colon,carcinoma,0,1	CCDC13	NM_144719	exon7	c.G774T	p.S258S	CCCTGGCGAAGAT	.	107.0	14.0	77.0	0.0	.	71	.	.	Atlas-SNP
MAP4	4134	hgsc.bcm.edu	hg19	3	47957722	47957722	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	MAP4	NM_001134364	exon7	c.A1595C	p.K532T	ACGTTCTTGATGA	.	393.0	85.0	345.0	0.0	.	176	.	.	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	hg19	3	57438657	57438657	+	Silent	SNP	A	A	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	DNAH12	NM_178504	exon25	c.T3630C	p.N1210N	ATTGCAATTAATG	.	134.0	30.0	112.0	0.0	.	182	.	.	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	hg19	3	57443514	57443514	+	Silent	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	DNAH12	NM_178504	exon22	c.G3201A	p.K1067K	GAGCCACTTTTCC	.	175.0	42.0	127.0	0.0	.	182	.	.	Atlas-SNP
ADAMTS9	56999	hgsc.bcm.edu	hg19	3	64599095	64599095	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	ADAMTS9,bladder,carcinoma,0,1	ADAMTS9	NM_182920	exon22	c.G3280C	p.E1094Q	TGGTCTCAGGGTC	.	162.0	34.0	153.0	0.0	.	206	.	.	Atlas-SNP
GPR149	344758	hgsc.bcm.edu	hg19	3	154055824	154055824	+	Silent	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	GPR149	NM_001038705	exon4	c.G1860A	p.E620E	AAGAACCTCCAAG	.	513.0	49.0	457.0	0.0	.	134	.	.	Atlas-SNP
SLITRK3	22865	hgsc.bcm.edu	hg19	3	164906413	164906413	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	SLITRK3	NM_014926	exon2	c.G2206A	p.V736M	GACCCACGGGAGG	.	109.0	20.0	100.0	0.0	.	263	.	.	Atlas-SNP
SLITRK3	22865	hgsc.bcm.edu	hg19	3	164906414	164906414	+	Silent	SNP	G	G	T	rs372406969		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	SLITRK3	NM_014926	exon2	c.C2205A	p.P735P	ACCCACGGGAGGG	.	110.0	20.0	100.0	0.0	.	263	.	.	Atlas-SNP
PHC3	80012	hgsc.bcm.edu	hg19	3	169820663	169820663	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	PHC3	NM_024947	exon13	c.A2528T	p.N843I	CTTTGATTATCAG	.	297.0	44.0	248.0	0.0	.	113	.	.	Atlas-SNP
SPATA16	83893	hgsc.bcm.edu	hg19	3	172835457	172835457	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	SPATA16	NM_031955	exon2	c.T65G	p.V22G	TTTGGAACAAGCT	.	783.0	165.0	698.0	1.0	.	111	.	.	Atlas-SNP
RTP1	132112	hgsc.bcm.edu	hg19	3	186915400	186915400	+	Missense_Mutation	SNP	A	A	T	rs41469544	alternate_allele	TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	RTP1	NM_153708	exon1	c.A97T	p.T33S	CTCACTACTGACG	.	255.0	46.0	244.0	0.0	.	51	.	.	Atlas-SNP
MB21D2	151963	hgsc.bcm.edu	hg19	3	192516896	192516896	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	MB21D2	NM_178496	exon2	c.T755A	p.L252H	TCCATGAGCCAGC	.	99.0	19.0	107.0	0.0	.	75	.	.	Atlas-SNP
EVC2	132884	hgsc.bcm.edu	hg19	4	5578157	5578157	+	Silent	SNP	G	G	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	EVC2	NM_147127	exon18	c.C3082T	p.L1028L	CCTCCAGCTTCCT	.	54.0	20.0	47.0	0.0	.	202	.	.	Atlas-SNP
TRMT44	152992	hgsc.bcm.edu	hg19	4	8469997	8469997	+	Silent	SNP	G	G	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	TRMT44	NM_152544	exon9	c.G1851A	p.A617A	AGTAGCGAATTTA	.	145.0	13.0	138.0	0.0	.	7	.	.	Atlas-SNP
WDFY3	23001	hgsc.bcm.edu	hg19	4	85707240	85707240	+	Silent	SNP	T	T	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	WDFY3	NM_014991	exon24	c.A3954G	p.P1318P	CTCCTCTGGTACT	.	244.0	44.0	207.0	0.0	.	314	.	.	Atlas-SNP
ABCE1	6059	hgsc.bcm.edu	hg19	4	146029198	146029198	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	ABCE1	NM_002940	exon4	c.A221G	p.N74S	TTGTCAATCTACC	.	152.0	26.0	86.0	0.0	.	47	.	.	Atlas-SNP
SH3D19	152503	hgsc.bcm.edu	hg19	4	152058972	152058972	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	SH3D19	NM_001009555	exon15	c.A1568T	p.Y523F	AGAAGATAAACAA	.	134.0	30.0	95.0	0.0	.	54	.	.	Atlas-SNP
GPM6A	2823	hgsc.bcm.edu	hg19	4	176556173	176556173	+	Silent	SNP	G	G	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	GPM6A	NM_201591	exon7	c.C720T	p.A240A	CACATAGGCCCAG	.	216.0	41.0	141.0	0.0	.	70	.	.	Atlas-SNP
PPIP5K2	23262	hgsc.bcm.edu	hg19	5	102494240	102494240	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	PPIP5K2	NM_015216	exon15	c.A1700T	p.E567V	CTGATGAAGGACG	.	544.0	108.0	343.0	0.0	.	98	.	.	Atlas-SNP
PCDHA10	56139	hgsc.bcm.edu	hg19	5	140237567	140237567	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	PCDHA10	NM_031859	exon1	c.G1934T	p.R645L	GCCAGCGCCTACT	.	121.0	26.0	211.0	0.0	.	358	.	.	Atlas-SNP
RANBP17	64901	hgsc.bcm.edu	hg19	5	170305242	170305242	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	RANBP17	NM_022897	exon2	c.G160C	p.G54R	GAACAAGGAACAG	.	304.0	58.0	283.0	0.0	.	108	.	.	Atlas-SNP
PTCHD4	442213	hgsc.bcm.edu	hg19	6	47846352	47846352	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	.	NM_001013732	exon3	c.C2228A	p.T743N	GTTCGGGTGTGCT	.	251.0	51.0	252.0	0.0	.	.	.	.	Atlas-SNP
COL12A1	1303	hgsc.bcm.edu	hg19	6	75853093	75853093	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	COL12A1	NM_004370	exon26	c.A4702T	p.R1568X	GAGGTCTGGGTAA	.	214.0	32.0	128.0	0.0	.	385	.	.	Atlas-SNP
TBX18	9096	hgsc.bcm.edu	hg19	6	85446949	85446949	+	Silent	SNP	G	G	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	TBX18	NM_001080508	exon8	c.C1278T	p.T426T	GTTGAGGGTGAGG	.	189.0	30.0	195.0	0.0	.	131	.	.	Atlas-SNP
TBX18	9096	hgsc.bcm.edu	hg19	6	85446950	85446950	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	TBX18	NM_001080508	exon8	c.C1277A	p.T426N	TTGAGGGTGAGGC	.	192.0	31.0	195.0	0.0	.	131	.	.	Atlas-SNP
HDAC9	9734	hgsc.bcm.edu	hg19	7	18833076	18833076	+	Splice_Site	SNP	G	G	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	HDAC9_ENST00000262069,NS,carcinoma,0,2	HDAC9	NM_178423	exon17	c.2313+1G>A	.	CTGAAGGTGAGGT	.	157.0	33.0	155.0	0.0	.	560	.	.	Atlas-SNP
STEAP1B	256227	hgsc.bcm.edu	hg19	7	22533400	22533400	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	STEAP1B	NM_001164460	exon3	c.A140T	p.Q47L	GTTTGCTGCAAAT	.	574.0	114.0	498.0	0.0	.	22	.	.	Atlas-SNP
PON1	5444	hgsc.bcm.edu	hg19	7	94947702	94947702	+	Silent	SNP	T	T	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	PON1	NM_000446	exon2	c.A78C	p.T26T	AAGTCGTGTTCTG	.	145.0	26.0	148.0	0.0	.	55	.	.	Atlas-SNP
DLX6	1750	hgsc.bcm.edu	hg19	7	96639126	96639126	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	DLX6	NM_005222	exon3	c.A649T	p.N217Y	TTTCAGAACAAAC	.	246.0	33.0	190.0	0.0	.	37	.	.	Atlas-SNP
IQUB	154865	hgsc.bcm.edu	hg19	7	123092919	123092919	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	IQUB	NM_178827	exon13	c.T2254A	p.F752I	GAGAAAAATAGTT	.	359.0	76.0	300.0	0.0	.	117	.	.	Atlas-SNP
METTL2B	55798	hgsc.bcm.edu	hg19	7	128119312	128119312	+	Silent	SNP	T	T	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	METTL2B	NM_018396	exon3	c.T303G	p.P101P	ATTCCCTGAGCTG	.	713.0	130.0	565.0	0.0	.	34	.	.	Atlas-SNP
HTR5A	3361	hgsc.bcm.edu	hg19	7	154862969	154862969	+	Silent	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	HTR5A	NM_024012	exon1	c.C360T	p.C120C	CGCGTGCGACGTG	.	40.0	8.0	33.0	0.0	.	114	.	.	Atlas-SNP
STC1	6781	hgsc.bcm.edu	hg19	8	23712004	23712004	+	Silent	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	STC1	NM_003155	exon1	c.G33A	p.L11L	GATCACCAGCACC	.	273.0	67.0	233.0	0.0	.	49	.	.	Atlas-SNP
IMPAD1	54928	hgsc.bcm.edu	hg19	8	57876515	57876515	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	IMPAD1,colon,carcinoma,0,1	IMPAD1	NM_017813	exon5	c.C917G	p.A306G	AAGATGGCATTAC	.	320.0	69.0	260.0	0.0	.	27	.	.	Atlas-SNP
NCOA2	10499	hgsc.bcm.edu	hg19	8	71068895	71068895	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	NCOA2	NM_006540	exon11	c.A1705G	p.M569V	GATTCATATTAAC	.	164.0	28.0	153.0	0.0	.	147	.	.	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	hg19	8	110432768	110432768	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	PKHD1L1	NM_177531	exon23	c.C2546A	p.P849H	GACTTCCTGCATT	.	334.0	107.0	176.0	0.0	.	522	.	.	Atlas-SNP
HAS2	3037	hgsc.bcm.edu	hg19	8	122627257	122627257	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	HAS2	NM_005328	exon4	c.T751A	p.W251R	AGATCCAGGAATC	.	174.0	28.0	94.0	0.0	.	87	.	.	Atlas-SNP
HHLA1	10086	hgsc.bcm.edu	hg19	8	133090141	133090141	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	HHLA1	NM_001145095	exon11	c.G1003A	p.A335T	TCTGAGCCCAGGG	.	220.0	23.0	130.0	0.0	.	35	.	.	Atlas-SNP
FAM83H	286077	hgsc.bcm.edu	hg19	8	144812668	144812668	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	FAM83H	NM_198488	exon2	c.C85T	p.R29C	CCAGGCGGTAGTA	.	29.0	11.0	30.0	0.0	.	68	.	.	Atlas-SNP
RANBP6	26953	hgsc.bcm.edu	hg19	9	6012698	6012698	+	Silent	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	RANBP6	NM_012416	exon1	c.C2910A	p.T970T	TTTTTTGGTTTTG	.	313.0	13.0	252.0	0.0	.	127	.	.	Atlas-SNP
ACO1	48	hgsc.bcm.edu	hg19	9	32418350	32418350	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	ACO1	NM_002197	exon6	c.A499G	p.M167V	CACAACATGCGGA	.	379.0	62.0	365.0	0.0	.	149	.	.	Atlas-SNP
ANKRD18A	253650	hgsc.bcm.edu	hg19	9	38596174	38596174	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	ANKRD18A	NM_147195	exon9	c.C1163A	p.S388X	TGTTGCGAATACC	.	1008.0	189.0	698.0	1.0	.	49	.	.	Atlas-SNP
C10orf71	118461	hgsc.bcm.edu	hg19	10	50533357	50533357	+	Silent	SNP	C	C	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	C10orf71	NM_001135196	exon3	c.C2767A	p.R923R	AACACACGGGGCA	.	90.0	22.0	75.0	0.0	.	179	.	.	Atlas-SNP
PRF1	5551	hgsc.bcm.edu	hg19	10	72358776	72358776	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	PRF1	NM_001083116	exon3	c.C701A	p.S234X	AGGGCCGATATGC	.	77.0	11.0	98.0	0.0	.	64	.	.	Atlas-SNP
ADAMTS14	140766	hgsc.bcm.edu	hg19	10	72468471	72468471	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	ADAMTS14	NM_080722	exon4	c.C807G	p.D269E	GGACGACTCGGTG	.	123.0	31.0	130.0	0.0	.	148	.	.	Atlas-SNP
MGEA5	10724	hgsc.bcm.edu	hg19	10	103550822	103550822	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	MGEA5	NM_012215	exon14	c.T2285A	p.L762H	AGGCTGAGGGAAA	.	289.0	60.0	234.0	0.0	.	53	.	.	Atlas-SNP
INPP5F	22876	hgsc.bcm.edu	hg19	10	121556404	121556404	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	INPP5F	NM_014937	exon7	c.C847T	p.R283C	ATTTCACGCCGAA	.	319.0	67.0	211.0	0.0	.	112	.	.	Atlas-SNP
TACC2	10579	hgsc.bcm.edu	hg19	10	123843041	123843041	+	Silent	SNP	G	G	T	rs201912981	alternate_allele	TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	TACC2	NM_206862	exon4	c.G1026T	p.P342P	TCTGCCGCACGCA	.	80.0	18.0	83.0	0.0	.	271	.	G|0.999;A|0.001	Atlas-SNP
KIF18A	81930	hgsc.bcm.edu	hg19	11	28116264	28116264	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	KIF18A	NM_031217	exon3	c.A409C	p.M137L	GTAACATTGTTAG	.	277.0	46.0	226.0	0.0	.	92	.	.	Atlas-SNP
EI24	9538	hgsc.bcm.edu	hg19	11	125448940	125448940	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	EI24	NM_001007277	exon7	c.G537T	p.L179F	CCTTTTGCTGCAG	.	179.0	15.0	152.0	0.0	.	33	.	.	Atlas-SNP
A2ML1	144568	hgsc.bcm.edu	hg19	12	9027104	9027104	+	Silent	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	A2ML1	NM_144670	exon34	c.C4305T	p.V1435V	CAAGGTCTATGAC	.	97.0	26.0	92.0	0.0	.	199	.	.	Atlas-SNP
WBP11	51729	hgsc.bcm.edu	hg19	12	14943652	14943652	+	Silent	SNP	T	T	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	WBP11	NM_016312	exon10	c.A1047G	p.V349V	TTCCTCTACTTCC	.	372.0	67.0	308.0	0.0	.	66	.	.	Atlas-SNP
SYT10	341359	hgsc.bcm.edu	hg19	12	33592365	33592365	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	SYT10	NM_198992	exon1	c.G93A	p.W31X	CTTCTCCCACTCC	.	144.0	12.0	130.0	0.0	.	109	.	.	Atlas-SNP
PRICKLE1	144165	hgsc.bcm.edu	hg19	12	42858905	42858905	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	PRICKLE1	NM_001144882	exon7	c.G931C	p.D311H	GGACGTCTTCACC	.	150.0	40.0	148.0	0.0	.	105	.	.	Atlas-SNP
KIAA1033	23325	hgsc.bcm.edu	hg19	12	105538197	105538197	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	KIAA1033	NM_015275	exon21	c.C2143A	p.P715T	CTGAATCCAATTC	.	422.0	75.0	367.0	0.0	.	83	.	.	Atlas-SNP
PAN3	255967	hgsc.bcm.edu	hg19	13	28794510	28794510	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	PAN3	NM_175854	exon6	c.C995T	p.A332V	GATTAGCGCCAGG	.	127.0	27.0	86.0	0.0	.	123	.	.	Atlas-SNP
OR4N5	390437	hgsc.bcm.edu	hg19	14	20612277	20612277	+	Missense_Mutation	SNP	G	G	A	rs139546094		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	OR4N5	NM_001004724	exon1	c.G383A	p.R128Q	TCTGCCGGCCTTT	.	416.0	100.0	347.0	0.0	.	72	.	G|1.000;A|0.000	Atlas-SNP
ADAM10	102	hgsc.bcm.edu	hg19	15	58902701	58902701	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	ADAM10	NM_001110	exon14	c.G1820T	p.C607F	CTGGCACAAGTTG	.	115.0	23.0	96.0	0.0	.	59	.	.	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	hg19	15	75983035	75983035	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	CSPG4	NM_001897	exon3	c.C371T	p.S124L	TCGACTGACAACG	.	260.0	58.0	225.0	0.0	.	175	.	.	Atlas-SNP
LRRC28	123355	hgsc.bcm.edu	hg19	15	99796167	99796167	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	LRRC28	NM_144598	exon2	c.C5T	p.A2V	TCATGGCGTCCGA	.	191.0	19.0	141.0	0.0	.	38	.	.	Atlas-SNP
STUB1	10273	hgsc.bcm.edu	hg19	16	732214	732214	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	STUB1	NM_005861	exon6	c.T719C	p.M240T	AGCTGATGCGGGA	.	56.0	22.0	96.0	0.0	.	26	.	.	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	hg19	16	21031159	21031159	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	DNAH3	NM_017539	exon41	c.G5809A	p.E1937K	CTAATTCCATTTC	.	434.0	93.0	481.0	0.0	.	1142	.	.	Atlas-SNP
POLR2A	5430	hgsc.bcm.edu	hg19	17	7404887	7404887	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	POLR2A	NM_000937	exon14	c.G2188T	p.G730W	ACCCCAGGGAACA	.	96.0	34.0	88.0	0.0	.	157	.	.	Atlas-SNP
TEKT3	64518	hgsc.bcm.edu	hg19	17	15211984	15211984	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	TEKT3	NM_031898	exon8	c.T1253A	p.L418Q	TACCGTAGCTGAG	.	110.0	20.0	163.0	0.0	.	64	.	.	Atlas-SNP
NAGLU	4669	hgsc.bcm.edu	hg19	17	40696106	40696106	+	Silent	SNP	G	G	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	NAGLU	NM_000263	exon6	c.G2082A	p.Q694Q	CCAACAGCACCAG	.	63.0	16.0	70.0	0.0	.	36	.	.	Atlas-SNP
RSAD1	55316	hgsc.bcm.edu	hg19	17	48557383	48557383	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	RSAD1	NM_018346	exon3	c.C412G	p.P138A	TCAGCTCCGGGCT	.	131.0	20.0	144.0	0.0	.	36	.	.	Atlas-SNP
MRC2	9902	hgsc.bcm.edu	hg19	17	60744895	60744895	+	Splice_Site	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	MRC2	NM_006039	exon6	c.1117+1G>T	.	CTCCAGGTGAGCC	.	32.0	7.0	34.0	0.0	.	126	.	.	Atlas-SNP
STRADA	92335	hgsc.bcm.edu	hg19	17	61788154	61788154	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	STRADA	NM_001003787	exon7	c.G391T	p.V131L	ATGGCACGATATT	.	156.0	28.0	127.0	0.0	.	27	.	.	Atlas-SNP
SCN4A	6329	hgsc.bcm.edu	hg19	17	62018994	62018994	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	SCN4A	NM_000334	exon24	c.C4648A	p.P1550T	CTGGGGGCCCGCT	.	92.0	21.0	115.0	0.0	.	205	.	.	Atlas-SNP
RPTOR	57521	hgsc.bcm.edu	hg19	17	78704429	78704429	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	RPTOR,caecum,carcinoma,-1,1	RPTOR	NM_001163034	exon5	c.G577A	p.V193I	ATCTTCGTCTACG	.	131.0	16.0	134.0	0.0	.	122	.	.	Atlas-SNP
EPG5	57724	hgsc.bcm.edu	hg19	18	43532588	43532588	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	EPG5	NM_020964	exon3	c.A1030G	p.K344E	AAACTTTCACTTG	.	430.0	71.0	341.0	0.0	.	199	.	.	Atlas-SNP
LRG1	116844	hgsc.bcm.edu	hg19	19	4538064	4538064	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	LRG1	NM_052972	exon2	c.A932G	p.Y311C	CAACGATAGAGGT	.	101.0	15.0	91.0	0.0	.	25	.	.	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9020787	9020787	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	MUC16	NM_024690	exon20	c.G37315T	p.G12439C	TGCAGCCAGAGTA	.	327.0	71.0	325.0	0.0	.	4315	.	.	Atlas-SNP
NOTCH3	4854	hgsc.bcm.edu	hg19	19	15297927	15297927	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	NOTCH3	NM_000435	exon11	c.C1829A	p.S610Y	GTCCCAGAAGGGC	.	173.0	35.0	217.0	0.0	.	340	.	.	Atlas-SNP
CD22	933	hgsc.bcm.edu	hg19	19	35823581	35823581	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	CD22	NM_001185100	exon3	c.T166C	p.F56L	GAAAGCTTCATCC	.	230.0	44.0	165.0	0.0	.	129	.	.	Atlas-SNP
WDR87	83889	hgsc.bcm.edu	hg19	19	38378259	38378259	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	WDR87	NM_031951	exon6	c.G5935T	p.E1979X	TTCCCTCAACCAG	.	799.0	152.0	628.0	1.0	.	191	.	.	Atlas-SNP
ZNF221	7638	hgsc.bcm.edu	hg19	19	44471487	44471487	+	Silent	SNP	A	A	C	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	ZNF221	NM_013359	exon6	c.A1833C	p.L611L	AAGTCTATGTGGG	.	98.0	18.0	66.0	0.0	.	59	.	.	Atlas-SNP
LILRB4	11006	hgsc.bcm.edu	hg19	19	55175420	55175420	+	Silent	SNP	A	A	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	LILRB4,NS,carcinoma,+1,1	LILRB4	NM_006847	exon3	c.A279T	p.A93A	CTATGCAGGGAGA	.	549.0	102.0	557.0	0.0	.	86	.	.	Atlas-SNP
SLC13A3	64849	hgsc.bcm.edu	hg19	20	45194931	45194931	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	SLC13A3	NM_022829	exon11	c.C1431A	p.F477L	AGTGAAGAAGGCG	.	139.0	19.0	140.0	0.0	.	88	.	.	Atlas-SNP
URB1	9875	hgsc.bcm.edu	hg19	21	33691583	33691583	+	Silent	SNP	G	G	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	URB1	NM_014825	exon36	c.C5736T	p.A1912A	GTGCAGGGCAAGC	.	99.0	26.0	114.0	0.0	.	176	.	.	Atlas-SNP
SFI1	9814	hgsc.bcm.edu	hg19	22	31979928	31979928	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	SFI1	NM_001007467	exon13	c.C1316A	p.P439H	TGCTCCCCTTACT	.	151.0	29.0	109.0	0.0	.	78	.	.	Atlas-SNP
MED14	9282	hgsc.bcm.edu	hg19	X	40572166	40572166	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	MED14	NM_004229	exon6	c.G781A	p.D261N	ATTTACCTCCTGT	.	357.0	140.0	268.0	0.0	.	108	.	.	Atlas-SNP
PHF16	9767	hgsc.bcm.edu	hg19	X	46844301	46844301	+	Silent	SNP	A	A	G	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	PHF16	NM_001077445	exon2	c.A6G	p.K2K	GATGAAACGCCAT	.	215.0	67.0	209.0	0.0	.	72	.	.	Atlas-SNP
RPS4Y2	140032	hgsc.bcm.edu	hg19	Y	22941543	22941543	+	Silent	SNP	C	C	T	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	RPS4Y2	NM_001039567	exon6	c.C681T	p.V227V	TTTTGTCATTGGC	.	305.0	128.0	339.0	0.0	.	3	.	.	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	12442	12442	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	.	ENST00000361567	exon1	c.G106A	p.V36M	CATTATGTAAAAT	.	456.0	374.0	417.0	0.0	.	.	.	.	Atlas-SNP
CPS1	1373	hgsc.bcm.edu	hg19	2	211456588	211456589	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	CPS1	NM_001122633	exon11	c.999_1000insA	p.N333fs	.	.	261.0	50.0	179.0	0.0	.	485	.	.	Atlas-Indel,Pindel
ELMOD1	55531	hgsc.bcm.edu	hg19	11	107518278	107518278	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	ELMOD1	NM_018712	exon7	c.504delT	p.D168fs	.	.	173.0	41.0	153.0	0.0	.	40	.	.	Atlas-Indel,Pindel
TESK2	10420	hgsc.bcm.edu	hg19	1	45810698	45810699	+	Frame_Shift_Ins	INS	-	-	TG	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	TESK2	NM_007170	exon11	c.1530_1531insCA	p.H510fs	.	.	151.0	21.0	148.0	0.0	.	60	.	.	Atlas-Indel,Pindel
RWDD2A	112611	hgsc.bcm.edu	hg19	6	83904246	83904249	+	Frame_Shift_Del	DEL	CAAG	CAAG	-	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	CAAG	CAAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	RWDD2A	NM_033411	exon2	c.75_78del	p.25_26del	.	.	130.0	16.0	123.0	0.0	.	12	.	.	Atlas-Indel,Pindel
KIAA1958	158405	hgsc.bcm.edu	hg19	9	115336637	115336638	+	Frame_Shift_Ins	INS	-	-	AGACACAGACTAGCCCTGTTGAA	novel		TCGA-CC-5262-01A-01D-A12Z-10	TCGA-CC-5262-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	93083c92-9303-48e6-aa25-4bb4ba6764b5	48faa33d-3094-4b3b-8c61-d29f392591ff	.	KIAA1958	NM_133465	exon2	c.277_278insAGACACAGACTAGCCCTGTTGAA	p.E93fs	.	.	140.0	15.0	136.0	0.0	.	52	.	.	Pindel