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
AGO4	192670	hgsc.bcm.edu	hg19	1	36291032	36291032	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	.	NM_017629	exon4	c.A425G	p.N142S	ACTTGAATGAAGT	.	264.0	143.0	123.0	0.0	.	.	.	.	Atlas-SNP
CELSR2	1952	hgsc.bcm.edu	hg19	1	109795619	109795619	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	CELSR2	NM_001408	exon1	c.T2918C	p.I973T	TGGACATCTTCTC	.	95.0	42.0	37.0	0.0	.	228	.	.	Atlas-SNP
ZNF687	57592	hgsc.bcm.edu	hg19	1	151260007	151260007	+	Silent	SNP	C	C	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ZNF687	NM_020832	exon2	c.C1240T	p.L414L	GCCATGCTGATGG	.	71.0	26.0	19.0	0.0	.	94	.	.	Atlas-SNP
CGN	57530	hgsc.bcm.edu	hg19	1	151499552	151499552	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	CGN	NM_020770	exon10	c.G1865T	p.G622V	GTGCTGGAGATAC	.	228.0	79.0	83.0	0.0	.	106	.	.	Atlas-SNP
DCST2	127579	hgsc.bcm.edu	hg19	1	155003099	155003099	+	Silent	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	DCST2	NM_144622	exon6	c.G828T	p.R276R	ACGCACCCGGTTG	.	253.0	94.0	67.0	0.0	.	80	.	.	Atlas-SNP
SMG5	23381	hgsc.bcm.edu	hg19	1	156220788	156220788	+	Splice_Site	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SMG5	NM_015327	exon22	c.2829-1G>T	.	AGAGTCCTGGGGA	.	58.0	31.0	22.0	0.0	.	98	.	.	Atlas-SNP
FMO1	2326	hgsc.bcm.edu	hg19	1	171251160	171251160	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	FMO1,colon,carcinoma,0,2	FMO1	NM_002021	exon7	c.C871T	p.R291C	CCAGGACGCATCA	.	37.0	7.0	39.0	0.0	.	79	.	.	Atlas-SNP
CACNA1E	777	hgsc.bcm.edu	hg19	1	181548355	181548355	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	CACNA1E	NM_001205293	exon5	c.A764T	p.N255I	TGAACAATTCAGG	.	545.0	189.0	113.0	0.0	.	778	.	.	Atlas-SNP
PIGR	5284	hgsc.bcm.edu	hg19	1	207110487	207110487	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	PIGR	NM_002644	exon4	c.T998C	p.L333P	TCCTGCAGCTGAC	.	112.0	30.0	53.0	0.0	.	98	.	.	Atlas-SNP
INTS7	25896	hgsc.bcm.edu	hg19	1	212184718	212184718	+	Silent	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	INTS7	NM_015434	exon5	c.A555G	p.Q185Q	CATACCTTGAATC	.	559.0	39.0	153.0	0.0	.	68	.	.	Atlas-SNP
RAB3GAP2	25782	hgsc.bcm.edu	hg19	1	220356254	220356254	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	RAB3GAP2	NM_012414	exon20	c.G2018C	p.R673T	TCAAGCCTTAGTA	.	373.0	116.0	103.0	0.0	.	120	.	.	Atlas-SNP
OR2L3	391192	hgsc.bcm.edu	hg19	1	248224587	248224587	+	Missense_Mutation	SNP	A	A	G	rs61525219	bycluster	TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	OR2L3	NM_001004687	exon1	c.A604G	p.T202A	TTGAGCACCACCA	.	564.0	30.0	140.0	0.0	.	97	.	.	Atlas-SNP
ACVR1	90	hgsc.bcm.edu	hg19	2	158637001	158637001	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ACVR1	NM_001105	exon4	c.A179G	p.N60S	CCATCGTTGATGC	.	163.0	61.0	43.0	0.0	.	52	.	.	Atlas-SNP
HECW2	57520	hgsc.bcm.edu	hg19	2	197084796	197084796	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	HECW2	NM_020760	exon26	c.A4375G	p.S1459G	AATCACTTAGGTC	.	120.0	38.0	56.0	0.0	.	239	.	.	Atlas-SNP
SRGAP3	9901	hgsc.bcm.edu	hg19	3	9027370	9027370	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SRGAP3	NM_014850	exon22	c.G3133A	p.A1045T	GGCGGGCGGACAG	.	31.0	16.0	2.0	0.0	.	146	.	.	Atlas-SNP
ZFYVE20	64145	hgsc.bcm.edu	hg19	3	15115343	15115343	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ZFYVE20	NM_022340	exon14	c.G2301T	p.E767D	CAGATTCTCTGTC	.	143.0	56.0	50.0	0.0	.	61	.	.	Atlas-SNP
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41266100	41266100	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	CTNNB1,gallbladder,other,-1,1	CTNNB1	NM_001098209	exon3	c.T97C	p.S33P	CTGGACTCTGGAA	.	223.0	71.0	91.0	1.0	.	4904	.	.	Atlas-SNP
PBRM1	55193	hgsc.bcm.edu	hg19	3	52588770	52588770	+	Missense_Mutation	SNP	C	C	A	rs143564112	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	PBRM1_ENST00000356770,NS,lymphoid_neoplasm,0,1	PBRM1	NM_018313	exon27	c.G4258T	p.V1420L	CAGGCACACCTGG	.	229.0	83.0	69.0	0.0	.	1252	.	C|0.999;T|0.001	Atlas-SNP
COL6A6	131873	hgsc.bcm.edu	hg19	3	130286897	130286897	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	COL6A6	NM_001102608	exon5	c.A1850G	p.K617R	CTTGCAAAGAGAT	.	121.0	45.0	50.0	0.0	.	497	.	.	Atlas-SNP
EIF4G1	1981	hgsc.bcm.edu	hg19	3	184049265	184049265	+	Silent	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	EIF4G1	NM_001194946	exon31	c.G4287A	p.V1429V	GAAGGTGGAGTAT	.	68.0	28.0	28.0	0.0	.	151	.	.	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	hg19	3	195511294	195511294	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	MUC4	NM_018406	exon2	c.C7157A	p.P2386H	GTGACAGGAAGAG	.	351.0	17.0	108.0	0.0	.	1505	.	.	Atlas-SNP
ZDHHC19	131540	hgsc.bcm.edu	hg19	3	195935366	195935366	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ZDHHC19	NM_001039617	exon4	c.G474A	p.M158I	AAGCAGCATGAAG	.	269.0	91.0	81.0	0.0	.	25	.	.	Atlas-SNP
BDH1	622	hgsc.bcm.edu	hg19	3	197238766	197238766	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	BDH1	NM_004051	exon7	c.A1032C	p.X344C	GACTCTTCAGCGG	.	153.0	51.0	60.0	0.0	.	24	.	.	Atlas-SNP
ARAP2	116984	hgsc.bcm.edu	hg19	4	36216083	36216083	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ARAP2	NM_015230	exon3	c.A925T	p.N309Y	CAACATTTCTTCT	.	397.0	281.0	120.0	0.0	.	210	.	.	Atlas-SNP
TRAM1L1	133022	hgsc.bcm.edu	hg19	4	118006517	118006517	+	Silent	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	TRAM1L1	NM_152402	exon1	c.C33T	p.P11P	AACGGGGGGGTTC	.	63.0	45.0	40.0	0.0	.	55	.	.	Atlas-SNP
QRFPR	84109	hgsc.bcm.edu	hg19	4	122250816	122250816	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	QRFPR	NM_198179	exon6	c.G949A	p.V317M	TTTGCACGATAGC	.	108.0	64.0	63.0	0.0	.	65	.	.	Atlas-SNP
ADAD1	132612	hgsc.bcm.edu	hg19	4	123301311	123301311	+	Silent	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ADAD1	NM_139243	exon3	c.G87A	p.A29A	ACCAGCGACAAAG	.	130.0	87.0	65.0	0.0	.	94	.	.	Atlas-SNP
SLC9A3	6550	hgsc.bcm.edu	hg19	5	474998	474998	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SLC9A3	NM_004174	exon16	c.T2501A	p.M834K	CGTTACATGTGTG	.	68.0	20.0	23.0	0.0	.	89	.	.	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	hg19	5	13770967	13770967	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	DNAH5	NM_001369	exon56	c.A9496G	p.R3166G	GGAATCTCTGAAA	.	272.0	77.0	66.0	0.0	.	868	.	.	Atlas-SNP
AMACR	23600	hgsc.bcm.edu	hg19	5	34005875	34005875	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	AMACR	NM_014324	exon2	c.A377G	p.Y126C	GCCAAATAGTTGA	.	61.0	16.0	27.0	0.0	.	38	.	.	Atlas-SNP
ERCC8	1161	hgsc.bcm.edu	hg19	5	60217888	60217888	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ERCC8	NM_000082	exon3	c.A268G	p.I90V	TGCCAATGGAACA	.	59.0	24.0	36.0	0.0	.	31	.	.	Atlas-SNP
TNPO1	3842	hgsc.bcm.edu	hg19	5	72144245	72144245	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	TNPO1	NM_002270	exon2	c.G49T	p.E17X	CCTGACGAGCAAG	.	99.0	21.0	43.0	0.0	.	90	.	.	Atlas-SNP
ARAP3	64411	hgsc.bcm.edu	hg19	5	141033643	141033643	+	Silent	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ARAP3	NM_022481	exon33	c.G4509T	p.L1503L	ACTTCCCAGGCCT	.	208.0	86.0	61.0	0.0	.	139	.	.	Atlas-SNP
WWC1	23286	hgsc.bcm.edu	hg19	5	167891765	167891765	+	Missense_Mutation	SNP	G	G	A	rs139653620	bycluster	TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	WWC1,colon,carcinoma,0,2	WWC1	NM_001161662	exon21	c.G2966A	p.R989H	CCGAGCGTCTGAT	.	194.0	53.0	39.0	0.0	.	98	.	G|1.000;A|0.000	Atlas-SNP
DOCK2	1794	hgsc.bcm.edu	hg19	5	169141427	169141427	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	DOCK2	NM_004946	exon19	c.A1907T	p.K636M	TAGAAAAGTTGAA	.	385.0	103.0	100.0	0.0	.	389	.	.	Atlas-SNP
FLT4	2324	hgsc.bcm.edu	hg19	5	180047636	180047636	+	Silent	SNP	G	G	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	FLT4	NM_182925	exon16	c.C2379G	p.L793L	GAGGAGGAGGAGG	.	172.0	64.0	47.0	0.0	.	356	.	.	Atlas-SNP
DSP	1832	hgsc.bcm.edu	hg19	6	7585392	7585392	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	DSP	NM_004415	exon24	c.A7897G	p.I2633V	ATCTCCATTACAG	.	88.0	28.0	34.0	0.0	.	306	.	.	Atlas-SNP
NEU1	4758	hgsc.bcm.edu	hg19	6	31830507	31830507	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	NEU1	NM_000434	exon1	c.G47T	p.G16V	CGCGGCCCCCAGC	.	105.0	32.0	32.0	0.0	.	21	.	.	Atlas-SNP
GPR110	266977	hgsc.bcm.edu	hg19	6	46976681	46976681	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	GPR110	NM_153840	exon11	c.G2490C	p.Q830H	TCTCACCTGGAAT	.	171.0	60.0	81.0	0.0	.	102	.	.	Atlas-SNP
C6orf165	154313	hgsc.bcm.edu	hg19	6	88128113	88128113	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	C6orf165	NM_001031743	exon7	c.G819T	p.E273D	ATATGAGGTCTTC	.	173.0	71.0	71.0	0.0	.	116	.	.	Atlas-SNP
MYO1G	64005	hgsc.bcm.edu	hg19	7	45002481	45002481	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	MYO1G	NM_033054	exon22	c.C2914A	p.L972M	CCTCCAGGGTGCG	.	47.0	18.0	8.0	0.0	.	86	.	.	Atlas-SNP
SEMA3E	9723	hgsc.bcm.edu	hg19	7	83037733	83037733	+	Silent	SNP	C	C	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SEMA3E	NM_012431	exon6	c.G621A	p.G207G	CAGTCGCCCCATG	.	214.0	71.0	69.0	0.0	.	125	.	.	Atlas-SNP
STEAP2	261729	hgsc.bcm.edu	hg19	7	89854615	89854615	+	Silent	SNP	G	G	A	rs145786195	alternate_allele	TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	STEAP2	NM_001244946	exon3	c.G219A	p.V73V	TCATGTGGTAGAT	.	160.0	51.0	93.0	0.0	.	78	.	G|1.000;T|0.000	Atlas-SNP
HYAL4	23553	hgsc.bcm.edu	hg19	7	123517143	123517143	+	Silent	SNP	T	T	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	HYAL4	NM_012269	exon5	c.T1380A	p.P460P	TTCCCCTTCTCCT	.	302.0	112.0	106.0	0.0	.	65	.	.	Atlas-SNP
MCPH1	79648	hgsc.bcm.edu	hg19	8	6296583	6296583	+	Silent	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	MCPH1	NM_001172574	exon6	c.G546A	p.E182E	ACAAGAGATGAAG	.	95.0	29.0	36.0	0.0	.	65	.	.	Atlas-SNP
HGSNAT	138050	hgsc.bcm.edu	hg19	8	43033222	43033222	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	HGSNAT	NM_152419	exon10	c.T857A	p.V286E	GGTTTGTATTTAT	.	197.0	110.0	114.0	0.0	.	85	.	.	Atlas-SNP
PREX2	80243	hgsc.bcm.edu	hg19	8	68939468	68939468	+	Silent	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	PREX2	NM_025170	exon5	c.G453T	p.L151L	CATGCTGCTTGGA	.	200.0	45.0	71.0	0.0	.	614	.	.	Atlas-SNP
TRPA1	8989	hgsc.bcm.edu	hg19	8	72966074	72966074	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	TRPA1	NM_007332	exon13	c.C1558G	p.H520D	ACGCATGATGCAA	.	151.0	24.0	49.0	0.0	.	256	.	.	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	hg19	8	77767241	77767241	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	ZFHX4,NS,carcinoma,0,1	ZFHX4	NM_024721	exon10	c.G8084T	p.R2695L	ACATTCGCTCTCG	.	175.0	36.0	36.0	0.0	.	878	.	.	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	hg19	8	113988234	113988234	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	CSMD3_ENST00000343508,caecum,carcinoma,+1,3	CSMD3	NM_198123	exon7	c.G1174A	p.E392K	GTTCCTCGGAAAG	.	404.0	85.0	101.0	0.0	.	2325	.	.	Atlas-SNP
ZHX1	11244	hgsc.bcm.edu	hg19	8	124267557	124267557	+	Silent	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ZHX1	NM_007222	exon3	c.A630G	p.K210K	ATTCTCTTTCTCT	.	608.0	126.0	109.0	0.0	.	89	.	.	Atlas-SNP
SLC45A4	57210	hgsc.bcm.edu	hg19	8	142231707	142231707	+	Silent	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SLC45A4	NM_001080431	exon2	c.C246T	p.G82G	TGCAACGCCAAAG	.	157.0	39.0	27.0	0.0	.	71	.	.	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	hg19	8	144945358	144945358	+	Silent	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	EPPK1	NM_031308	exon1	c.C2064A	p.V688V	GCCAGTGACAGCG	.	209.0	40.0	37.0	0.0	.	199	.	.	Atlas-SNP
ARID3C	138715	hgsc.bcm.edu	hg19	9	34623647	34623647	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ARID3C	NM_001017363	exon4	c.C640A	p.Q214K	CGGCCTGGAGCTC	.	32.0	17.0	19.0	0.0	.	33	.	.	Atlas-SNP
TRPM6	140803	hgsc.bcm.edu	hg19	9	77400791	77400791	+	Missense_Mutation	SNP	A	A	G	rs142068228	bycluster	TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	TRPM6	NM_017662	exon21	c.T2918C	p.M973T	CTCACCATTTTTG	.	99.0	58.0	48.0	0.0	.	377	.	A|1.000;G|0.000	Atlas-SNP
SPATA31C1	441452	hgsc.bcm.edu	hg19	9	90535228	90535228	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	.	NM_001145124	exon4	c.G406A	p.G136S	CCGCCAGGTGAGG	.	348.0	187.0	123.0	0.0	.	.	.	.	Atlas-SNP
RAPGEF1	2889	hgsc.bcm.edu	hg19	9	134497245	134497245	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	RAPGEF1	NM_198679	exon11	c.G1846A	p.G616R	CCACCCCACTGAA	.	140.0	80.0	58.0	0.0	.	126	.	.	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	hg19	9	140901281	140901281	+	Silent	SNP	C	C	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	CACNA1B	NM_001243812	exon16	c.C2037G	p.V679V	CGGCGTCAGCAAA	.	210.0	143.0	92.0	0.0	.	266	.	.	Atlas-SNP
VIM	7431	hgsc.bcm.edu	hg19	10	17277863	17277863	+	Silent	SNP	A	A	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	VIM	NM_003380	exon8	c.A1248T	p.P416P	TCTTCCAAACTTT	.	391.0	151.0	114.0	0.0	.	71	.	.	Atlas-SNP
OR13A1	79290	hgsc.bcm.edu	hg19	10	45799377	45799377	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	OR13A1	NM_001004297	exon4	c.C494A	p.A165D	CACACGGCTGTGG	.	30.0	18.0	4.0	0.0	.	49	.	.	Atlas-SNP
LRRC18	474354	hgsc.bcm.edu	hg19	10	50122143	50122143	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	LRRC18	NM_001006939	exon1	c.A58G	p.N20D	TGCAATTCCTGGC	.	53.0	21.0	37.0	0.0	.	52	.	.	Atlas-SNP
SMC3	9126	hgsc.bcm.edu	hg19	10	112343665	112343665	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SMC3	NM_005445	exon12	c.G1036A	p.E346K	CTGGCAGAAACAG	.	311.0	101.0	89.0	0.0	.	103	.	.	Atlas-SNP
ATRNL1	26033	hgsc.bcm.edu	hg19	10	117228753	117228753	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ATRNL1	NM_207303	exon24	c.T3568C	p.S1190P	AGTTTTTCCTATG	.	84.0	39.0	71.0	0.0	.	219	.	.	Atlas-SNP
KNDC1	85442	hgsc.bcm.edu	hg19	10	135025348	135025348	+	Missense_Mutation	SNP	G	G	T	rs201175312	bycluster;alternate_allele	TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	KNDC1	NM_152643	exon23	c.G4222T	p.G1408C	GAGGACGGCATCT	.	36.0	21.0	11.0	0.0	.	155	.	G|0.999;A|0.001	Atlas-SNP
CDHR5	53841	hgsc.bcm.edu	hg19	11	618896	618896	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	CDHR5	NM_021924	exon13	c.G1663A	p.V555M	TTCCCACACCGGG	.	357.0	18.0	87.0	0.0	.	77	.	.	Atlas-SNP
USP47	55031	hgsc.bcm.edu	hg19	11	11927068	11927068	+	Silent	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	USP47	NM_017944	exon7	c.T738C	p.Y246Y	ACCTTATGGGTCC	.	230.0	89.0	86.0	0.0	.	91	.	.	Atlas-SNP
C11orf84	144097	hgsc.bcm.edu	hg19	11	63585307	63585307	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	C11orf84	NM_138471	exon2	c.G158C	p.R53T	CGCCTAGACCCAG	.	87.0	24.0	38.0	0.0	.	33	.	.	Atlas-SNP
MAP4K2	5871	hgsc.bcm.edu	hg19	11	64564456	64564456	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	MAP4K2	NM_004579	exon20	c.C1405A	p.H469N	TTACATGCACCTT	.	130.0	57.0	53.0	0.0	.	83	.	.	Atlas-SNP
LTBP3	4054	hgsc.bcm.edu	hg19	11	65315205	65315205	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	LTBP3,colon,carcinoma,0,1	LTBP3	NM_001130144	exon13	c.G1934C	p.R645P	TAGCCGCGGTTGC	.	62.0	13.0	8.0	1.0	.	55	.	.	Atlas-SNP
LTBP3	4054	hgsc.bcm.edu	hg19	11	65320914	65320914	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	LTBP3	NM_001130144	exon4	c.A952C	p.K318Q	GACACTTGTGGCA	.	160.0	66.0	48.0	0.0	.	55	.	.	Atlas-SNP
TBX10	347853	hgsc.bcm.edu	hg19	11	67399113	67399113	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	TBX10	NM_005995	exon8	c.C1121T	p.T374I	ACCACAGTGGGGG	.	44.0	18.0	12.0	0.0	.	25	.	.	Atlas-SNP
KRTAP5-10	387273	hgsc.bcm.edu	hg19	11	71277197	71277197	+	Silent	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	KRTAP5-10,NS,carcinoma,0,2	KRTAP5-10	NM_001012710	exon1	c.T564C	p.C188C	CTGCTGTCAGTCC	.	234.0	33.0	76.0	0.0	.	37	.	.	Atlas-SNP
SYTL2	54843	hgsc.bcm.edu	hg19	11	85436897	85436897	+	Silent	SNP	A	A	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SYTL2	NM_206927	exon1	c.T603C	p.N201N	TGTCCTATTTTCA	.	451.0	158.0	134.0	0.0	.	231	.	.	Atlas-SNP
SESN3	143686	hgsc.bcm.edu	hg19	11	94918494	94918494	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SESN3	NM_144665	exon5	c.A688G	p.N230D	AATTGTTGACTGA	.	134.0	47.0	95.0	0.0	.	51	.	.	Atlas-SNP
ERC1	23085	hgsc.bcm.edu	hg19	12	1517402	1517402	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ERC1	NM_178040	exon17	c.T3013A	p.S1005T	AAGCCCTCCCCAG	.	63.0	18.0	17.0	0.0	.	95	.	.	Atlas-SNP
C1S	716	hgsc.bcm.edu	hg19	12	7177505	7177505	+	Silent	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	C1S	NM_201442	exon12	c.G1617A	p.V539V	CCCAGTGAAAATG	.	86.0	33.0	35.0	0.0	.	93	.	.	Atlas-SNP
PRB4	5545	hgsc.bcm.edu	hg19	12	11461456	11461456	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	PRB4	NM_002723	exon3	c.G461T	p.G154V	GGGGGACCTTGGG	.	499.0	173.0	144.0	0.0	.	59	.	.	Atlas-SNP
SLC2A13	114134	hgsc.bcm.edu	hg19	12	40499574	40499574	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SLC2A13	NM_052885	exon1	c.C37G	p.L13V	TCCGCAGCGTGTA	.	56.0	22.0	9.0	0.0	.	91	.	.	Atlas-SNP
GXYLT1	283464	hgsc.bcm.edu	hg19	12	42512967	42512967	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	GXYLT1	NM_173601	exon3	c.T321A	p.S107R	TTTCAGACTGTAC	.	300.0	21.0	80.0	0.0	.	47	.	.	Atlas-SNP
ACVRL1	94	hgsc.bcm.edu	hg19	12	52307800	52307800	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ACVRL1	NM_000020	exon5	c.C568T	p.L190F	TCAGGGCTCCCCT	.	172.0	72.0	44.0	0.0	.	60	.	.	Atlas-SNP
KRT75	9119	hgsc.bcm.edu	hg19	12	52826871	52826871	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	KRT75	NM_004693	exon2	c.G664T	p.E222X	CAGCTTCAAGCCT	.	192.0	83.0	53.0	0.0	.	75	.	.	Atlas-SNP
PAWR	5074	hgsc.bcm.edu	hg19	12	80083895	80083895	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	PAWR	NM_002583	exon2	c.G130T	p.G44W	TGCCCCCTCCCGG	.	22.0	6.0	15.0	0.0	.	14	.	.	Atlas-SNP
GIT2	9815	hgsc.bcm.edu	hg19	12	110385195	110385195	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	GIT2	NM_001135214	exon15	c.A1507G	p.R503G	GACGTCTCTTTAA	.	282.0	98.0	88.0	0.0	.	81	.	.	Atlas-SNP
PPP1CC	5501	hgsc.bcm.edu	hg19	12	111162541	111162541	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	PPP1CC	NM_002710	exon4	c.G447A	p.W149X	AGTTTTCCATAGT	.	362.0	40.0	99.0	0.0	.	22	.	.	Atlas-SNP
NOS1	4842	hgsc.bcm.edu	hg19	12	117696926	117696926	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	NOS1	NM_000620	exon15	c.A2377G	p.M793V	CTTCCATGGACAT	.	156.0	58.0	43.0	0.0	.	240	.	.	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	hg19	13	39265478	39265478	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	FREM2,rectum,carcinoma,0,1	FREM2	NM_207361	exon1	c.G3997C	p.D1333H	GATTTAGATTCAG	.	73.0	42.0	64.0	0.0	.	385	.	.	Atlas-SNP
POTEG	404785	hgsc.bcm.edu	hg19	14	19553573	19553573	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	POTEG	NM_001005356	exon1	c.G157T	p.A53S	GATTCTGCTATGA	.	1087.0	131.0	173.0	0.0	.	118	.	.	Atlas-SNP
TEP1	7011	hgsc.bcm.edu	hg19	14	20872028	20872028	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	TEP1	NM_007110	exon6	c.G1048T	p.D350Y	TCTTATCTCCCTC	.	56.0	26.0	22.0	0.0	.	224	.	.	Atlas-SNP
MYH6	4624	hgsc.bcm.edu	hg19	14	23866803	23866803	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	MYH6	NM_002471	exon16	c.A1911T	p.K637N	GCCTCCTTTGCTT	.	89.0	23.0	37.0	0.0	.	274	.	.	Atlas-SNP
MYH7	4625	hgsc.bcm.edu	hg19	14	23883217	23883217	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	MYH7	NM_000257	exon38	c.C5654T	p.A1885V	CTCACCGCCTCCT	.	121.0	51.0	58.0	0.0	.	349	.	.	Atlas-SNP
C14orf39	317761	hgsc.bcm.edu	hg19	14	60921835	60921835	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	C14orf39	NM_174978	exon16	c.G1387C	p.V463L	TTTGAACTTCAGG	.	252.0	89.0	104.0	0.0	.	79	.	.	Atlas-SNP
ADCK1	57143	hgsc.bcm.edu	hg19	14	78353552	78353552	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ADCK1	NM_020421	exon5	c.A542G	p.K181R	ACCCAAAGGTGCG	.	50.0	22.0	23.0	0.0	.	81	.	.	Atlas-SNP
ACTC1	70	hgsc.bcm.edu	hg19	15	35084616	35084616	+	Silent	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ACTC1	NM_005159	exon4	c.C609T	p.V203V	AGTGGTGACAAAG	.	164.0	54.0	66.0	0.0	.	75	.	.	Atlas-SNP
BAHD1	22893	hgsc.bcm.edu	hg19	15	40757537	40757537	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	BAHD1	NM_014952	exon6	c.T2056A	p.L686M	GAGCCCTTGCAGA	.	182.0	69.0	70.0	0.0	.	68	.	.	Atlas-SNP
LEO1	123169	hgsc.bcm.edu	hg19	15	52251010	52251010	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	LEO1	NM_138792	exon6	c.C1174A	p.Q392K	AATACTGAGGATC	.	280.0	101.0	101.0	0.0	.	46	.	.	Atlas-SNP
RFX7	64864	hgsc.bcm.edu	hg19	15	56387675	56387675	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	RFX7	NM_022841	exon9	c.T2251G	p.S751A	ATGATGATGGGGT	.	81.0	37.0	57.0	0.0	.	170	.	.	Atlas-SNP
SLX4	84464	hgsc.bcm.edu	hg19	16	3651153	3651153	+	Silent	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SLX4	NM_032444	exon5	c.G990T	p.V330V	CTGAGGCACAGAA	.	166.0	58.0	58.0	0.0	.	173	.	.	Atlas-SNP
ADAT1	23536	hgsc.bcm.edu	hg19	16	75637056	75637056	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ADAT1	NM_012091	exon10	c.A1303G	p.K435E	CCACTTTGCTGAT	.	90.0	49.0	55.0	0.0	.	45	.	.	Atlas-SNP
ALOX15B	247	hgsc.bcm.edu	hg19	17	7951723	7951723	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ALOX15B	NM_001141	exon14	c.C1871T	p.P624L	CCTATCCGGATGA	.	35.0	20.0	19.0	0.0	.	66	.	.	Atlas-SNP
TVP23C	201158	hgsc.bcm.edu	hg19	17	15406424	15406424	+	Missense_Mutation	SNP	C	C	A	rs17850827		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	.	NM_145301	exon6	c.G585T	p.R195S	AAACTTCCTCGAG	.	64.0	41.0	29.0	0.0	.	.	.	C|1.000;|0.000	Atlas-SNP
FOXN1	8456	hgsc.bcm.edu	hg19	17	26851109	26851109	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	FOXN1	NM_003593	exon1	c.G122T	p.S41I	CACAGAGTGTAAG	.	78.0	34.0	37.0	0.0	.	51	.	.	Atlas-SNP
MRPL10	124995	hgsc.bcm.edu	hg19	17	45906024	45906024	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	MRPL10	NM_148887	exon3	c.C95T	p.T32I	TGGAGGGTAGGCA	.	39.0	16.0	15.0	0.0	.	24	.	.	Atlas-SNP
SPHK1	8877	hgsc.bcm.edu	hg19	17	74383503	74383503	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SPHK1	NM_182965	exon6	c.C1249G	p.P417A	TTGGAGCCCAAGG	.	187.0	56.0	51.0	0.0	.	24	.	.	Atlas-SNP
USP36	57602	hgsc.bcm.edu	hg19	17	76802273	76802273	+	Silent	SNP	G	G	A	rs372776119		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	USP36	NM_025090	exon15	c.C2181T	p.P727P	AACGACGGGGTGA	.	141.0	69.0	34.0	0.0	.	243	.	.	Atlas-SNP
EPB41L3	23136	hgsc.bcm.edu	hg19	18	5433469	5433469	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	EPB41L3	NM_012307	exon8	c.A911T	p.K304M	CATACCTTAGCAT	.	85.0	27.0	42.0	0.0	.	222	.	.	Atlas-SNP
ANKRD12	23253	hgsc.bcm.edu	hg19	18	9256402	9256402	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ANKRD12	NM_015208	exon9	c.A3137T	p.K1046I	AACTAAAATCTGA	.	239.0	64.0	122.0	0.0	.	167	.	.	Atlas-SNP
NPC1	4864	hgsc.bcm.edu	hg19	18	21125036	21125036	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	NPC1	NM_000271	exon12	c.A1835G	p.E612G	TTTAGTTCATCTT	.	334.0	115.0	89.0	0.0	.	114	.	.	Atlas-SNP
SYT4	6860	hgsc.bcm.edu	hg19	18	40850324	40850324	+	Silent	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SYT4	NM_020783	exon4	c.C1260T	p.H420H	GAGCACGTGCCAC	.	172.0	10.0	79.0	0.0	.	162	.	.	Atlas-SNP
CDH7	1005	hgsc.bcm.edu	hg19	18	63430104	63430104	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	CDH7	NM_004361	exon2	c.G26T	p.C9F	AGTTCTGCCATTT	.	94.0	31.0	54.0	0.0	.	362	.	.	Atlas-SNP
FZR1	51343	hgsc.bcm.edu	hg19	19	3527733	3527733	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	FZR1	NM_001136198	exon6	c.T575G	p.L192R	TCAATCTGGTGGA	.	160.0	47.0	50.0	0.0	.	42	.	.	Atlas-SNP
C19orf10	56005	hgsc.bcm.edu	hg19	19	4658077	4658077	+	Silent	SNP	T	T	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	C19orf10	NM_019107	exon6	c.A462T	p.A154A	TTTGAATGCCCCG	.	38.0	11.0	23.0	0.0	.	9	.	.	Atlas-SNP
ZNF414	84330	hgsc.bcm.edu	hg19	19	8576572	8576572	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ZNF414	NM_032370	exon5	c.G803T	p.R268L	CGCAGGCGCGGGG	.	34.0	19.0	11.0	0.0	.	25	.	.	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9002558	9002558	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	MUC16	NM_024690	exon51	c.C40258A	p.H13420N	TGCCGTGGGTCAG	.	363.0	117.0	99.0	0.0	.	4315	.	.	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9087113	9087113	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	MUC16	NM_024690	exon1	c.A4702G	p.T1568A	ACTGTGTCACGTG	.	406.0	153.0	139.0	0.0	.	4315	.	.	Atlas-SNP
ZNF676	163223	hgsc.bcm.edu	hg19	19	22363952	22363952	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ZNF676	NM_001001411	exon3	c.T567A	p.S189R	ATGAATACTCTTA	.	98.0	31.0	60.0	0.0	.	146	.	.	Atlas-SNP
ZNF676	163223	hgsc.bcm.edu	hg19	19	22363953	22363953	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ZNF676	NM_001001411	exon3	c.G566T	p.S189I	TGAATACTCTTAT	.	100.0	27.0	60.0	0.0	.	146	.	.	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	hg19	19	40424311	40424311	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	FCGBP	NM_003890	exon4	c.C1892G	p.P631R	GCGTCAGGAGCCA	.	104.0	40.0	44.0	0.0	.	416	.	.	Atlas-SNP
PHLDB3	653583	hgsc.bcm.edu	hg19	19	43983597	43983597	+	Missense_Mutation	SNP	C	C	A	rs200179651	bycluster;alternate_allele	TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	PHLDB3	NM_198850	exon14	c.G1634T	p.R545L	TTGATGCGGCCGC	.	165.0	63.0	39.0	0.0	.	30	.	.	Atlas-SNP
LILRB1	10859	hgsc.bcm.edu	hg19	19	55148212	55148212	+	Silent	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	LILRB1	NM_001081637	exon15	c.G1842A	p.V614V	GGATGTGACCTAC	.	385.0	105.0	119.0	0.0	.	140	.	.	Atlas-SNP
ZNF606	80095	hgsc.bcm.edu	hg19	19	58489830	58489830	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ZNF606	NM_025027	exon7	c.C2218T	p.H740Y	CACAATGATTACA	.	269.0	11.0	100.0	0.0	.	155	.	.	Atlas-SNP
SMOX	54498	hgsc.bcm.edu	hg19	20	4163387	4163387	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SMOX	NM_175839	exon5	c.G1261T	p.G421C	CGCTACGGCCATG	.	165.0	67.0	62.0	0.0	.	119	.	.	Atlas-SNP
ZFP64	55734	hgsc.bcm.edu	hg19	20	50769740	50769740	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ZFP64	NM_018197	exon6	c.C991T	p.R331W	GCTTCCGGAGGGT	.	244.0	101.0	78.0	0.0	.	240	.	.	Atlas-SNP
KRTAP13-2	337959	hgsc.bcm.edu	hg19	21	31744410	31744410	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	KRTAP13-2	NM_181621	exon1	c.G122T	p.C41F	GGAGAGCAGAGGT	.	225.0	76.0	79.0	0.0	.	29	.	.	Atlas-SNP
RRP1B	23076	hgsc.bcm.edu	hg19	21	45094517	45094517	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	RRP1B	NM_015056	exon5	c.C358A	p.L120M	CTTTAGCTGATTC	.	175.0	56.0	60.0	0.0	.	51	.	.	Atlas-SNP
HIRA	7290	hgsc.bcm.edu	hg19	22	19376069	19376069	+	Silent	SNP	A	A	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	HIRA	NM_003325	exon10	c.T945C	p.C315C	TTTCAGACATGTG	.	100.0	41.0	41.0	0.0	.	100	.	.	Atlas-SNP
HMGXB4	10042	hgsc.bcm.edu	hg19	22	35661228	35661228	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	HMGXB4	NM_001003681	exon5	c.G847A	p.D283N	AACCTTGATCTTT	.	228.0	72.0	72.0	0.0	.	52	.	.	Atlas-SNP
SHROOM2	357	hgsc.bcm.edu	hg19	X	9863964	9863964	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SHROOM2	NM_001649	exon4	c.G2016T	p.Q672H	CACCCAGGAAGGA	.	33.0	22.0	9.0	0.0	.	139	.	.	Atlas-SNP
TGIF2LX	90316	hgsc.bcm.edu	hg19	X	89177754	89177754	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	TGIF2LX	NM_138960	exon2	c.G670A	p.A224T	GATGCAGCAGTAC	.	275.0	216.0	78.0	0.0	.	84	.	.	Atlas-SNP
PLP1	5354	hgsc.bcm.edu	hg19	X	103041518	103041518	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	PLP1	NM_001128834	exon4	c.A316G	p.T106A	TACAAGACCACCA	.	169.0	131.0	86.0	0.0	.	37	.	.	Atlas-SNP
RBMXL3	139804	hgsc.bcm.edu	hg19	X	114424168	114424168	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	RBMXL3	NM_001145346	exon1	c.C164A	p.T55N	TCGTCACCTTCGA	.	62.0	55.0	27.0	0.0	.	83	.	.	Atlas-SNP
NUMA1	4926	hgsc.bcm.edu	hg19	11	71726211	71726220	+	Frame_Shift_Del	DEL	CCTGATGGGC	CCTGATGGGC	-	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	CCTGATGGGC	CCTGATGGGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	NUMA1	NM_006185	exon15	c.2330_2339del	p.777_780del	.	.	67.0	10.0	23.0	0.0	.	142	.	.	Atlas-INDEL
ANAPC1	64682	hgsc.bcm.edu	hg19	2	112537964	112537965	+	Splice_Site	INS	-	-	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ANAPC1	NM_022662	exon45	c.5203-2->T	.	.	.	801.0	144.0	151.0	0.0	.	116	.	.	Atlas-INDEL
CCNB1IP1	57820	hgsc.bcm.edu	hg19	14	20779825	20779826	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	CCNB1IP1	NM_021178	exon7	c.718_719insT	p.A240fs	.	.	291.0	83.0	90.0	0.0	.	29	.	.	Atlas-Indel,Pindel
SCTR	6344	hgsc.bcm.edu	hg19	2	120197740	120197741	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	SCTR	NM_002980	exon13	c.1276_1277insC	p.S426fs	.	.	131.0	10.0	42.0	0.0	.	45	.	.	Atlas-INDEL
BIN1	274	hgsc.bcm.edu	hg19	2	127821169	127821169	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	BIN1	NM_139343	exon9	c.753delC	p.N251fs	.	.	150.0	52.0	54.0	0.0	.	85	.	.	Atlas-Indel,Pindel
ZNF676	163223	hgsc.bcm.edu	hg19	19	22363957	22363958	+	Frame_Shift_Del	DEL	TA	TA	-	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	TA	TA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ZNF676	NM_001001411	exon3	c.562_563del	p.188_188del	.	.	110.0	30.0	60.0	0.0	.	146	.	.	Atlas-INDEL
FOXP4	116113	hgsc.bcm.edu	hg19	6	41533560	41533561	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	FOXP4	NM_001012427	exon2	c.62_63insC	p.G21fs	.	.	179.0	12.0	46.0	0.0	.	83	.	.	Atlas-INDEL
MUC16	94025	hgsc.bcm.edu	hg19	19	8961997	8961998	+	Frame_Shift_Ins	INS	-	-	A	rs369723028		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	MUC16	NM_024690	exon83	c.43380_43381insT	p.L14460fs	.	.	112.0	10.0	37.0	0.0	.	4315	.	.	Atlas-INDEL
RETNLB	84666	hgsc.bcm.edu	hg19	3	108474715	108474716	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	RETNLB	NM_032579	exon3	c.246_247insG	p.C82fs	.	.	375.0	30.0	57.0	0.0	.	38	.	.	Atlas-INDEL
MAP2K4	6416	hgsc.bcm.edu	hg19	17	12016635	12016636	+	Frame_Shift_Del	DEL	TA	TA	-	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	TA	TA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	MAP2K4,NS,carcinoma,0,1	MAP2K4	NM_003010	exon7	c.770_771del	p.257_257del	.	.	71.0	37.0	50.0	0.0	.	176	.	.	Atlas-Indel,Pindel
HS1BP3	64342	hgsc.bcm.edu	hg19	2	20818851	20818852	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	HS1BP3	NM_022460	exon7	c.1075_1076insG	p.Q359fs	.	.	137.0	10.0	35.0	0.0	.	33	.	.	Atlas-INDEL
ZNF790	388536	hgsc.bcm.edu	hg19	19	37309866	37309869	+	Frame_Shift_Del	DEL	AAGA	AAGA	-	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	AAGA	AAGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	ZNF790	NM_206894	exon5	c.1378_1381del	p.460_461del	.	.	174.0	51.0	68.0	0.0	.	89	.	.	Atlas-Indel,Pindel
CCDC144B	284047	hgsc.bcm.edu	hg19	17	18498497	18498498	+	RNA	INS	-	-	AA	rs59933375	bycluster;alternate_allele	TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	CCDC144B	.	.	.	.	.	.	10.0	10.0	0.0	0.0	.	106	.	.	Pindel
NCAM1	4684	hgsc.bcm.edu	hg19	11	112832332	112832363	+	Frame_Shift_Del	DEL	CATCCCTCCCAGCCAGCAGATTACAATGCTGC	CATCCCTCCCAGCCAGCAGATTACAATGCTGC	-	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	CATCCCTCCCAGCCAGCAGATTACAATGCTGC	CATCCCTCCCAGCCAGCAGATTACAATGCTGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	NCAM1	NM_001242607	wholegene	.	.	.	.	37.0	37.0	0.0	0.0	.	372	.	.	Pindel
NCAM1	4684	hgsc.bcm.edu	hg19	11	112832332	112832376	+	Frame_Shift_Del	DEL	CATCCCTCCCAGCCAGCAGATTACAATGCTGCCAAACTAAGGATT	CATCCCTCCCAGCCAGCAGATTACAATGCTGCCAAACTAAGGATT	-	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	CATCCCTCCCAGCCAGCAGATTACAATGCTGCCAAACTAAGGATT	CATCCCTCCCAGCCAGCAGATTACAATGCTGCCAAACTAAGGATT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	NCAM1	NM_001242607	wholegene	.	.	.	.	11.0	11.0	0.0	0.0	.	372	.	.	Pindel
CDC27	996	hgsc.bcm.edu	hg19	17	45234594	45234729	+	Frame_Shift_Del	DEL	CTGAAACAGAAAATTTCTACCAAGTCATTCACAATATATTATTTAGTTCAGATCATTCTTTGTAGTTTTCATAATATTTTGAACACTAGAATATAAGACACTTACAATTGTGTCCTGGGGTGTTTCCGTAAGAACT	CTGAAACAGAAAATTTCTACCAAGTCATTCACAATATATTATTTAGTTCAGATCATTCTTTGTAGTTTTCATAATATTTTGAACACTAGAATATAAGACACTTACAATTGTGTCCTGGGGTGTTTCCGTAAGAACT	-	novel		TCGA-DD-A116-01A-11D-A12Z-10	TCGA-DD-A116-10A-01D-A12Z-10	CTGAAACAGAAAATTTCTACCAAGTCATTCACAATATATTATTTAGTTCAGATCATTCTTTGTAGTTTTCATAATATTTTGAACACTAGAATATAAGACACTTACAATTGTGTCCTGGGGTGTTTCCGTAAGAACT	CTGAAACAGAAAATTTCTACCAAGTCATTCACAATATATTATTTAGTTCAGATCATTCTTTGTAGTTTTCATAATATTTTGAACACTAGAATATAAGACACTTACAATTGTGTCCTGGGGTGTTTCCGTAAGAACT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	62bed857-df38-4647-9db4-b95bca893cfb	3e8275bd-f6e8-43cc-956f-83a6c36c0b09	.	CDC27	NM_001114091	exon6	c.601_631del	p.201_211del	.	.	19.0	19.0	0.0	0.0	.	337	.	.	Pindel
