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
NRD1	4898	hgsc.bcm.edu	hg19	1	52306079	52306079	+	Missense_Mutation	SNP	T	T	A	rs62648104	bycluster	TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	NRD1	NM_001101662	exon2	c.A449T	p.E150V	TCTTCCTCCACCT	.	314.0	44.0	311.0	0.0	.	89	.	T|0.024;A|0.976	Atlas-SNP
SEMA6C	10500	hgsc.bcm.edu	hg19	1	151108527	151108527	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	SEMA6C	NM_001178061	exon13	c.C1219A	p.P407T	CAGGTGGTACAGC	.	452.0	170.0	284.0	0.0	.	70	.	.	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	hg19	1	158623173	158623173	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	SPTA1	NM_003126	exon22	c.C3079A	p.P1027T	CAGCTGGGACAAT	.	232.0	97.0	201.0	0.0	.	720	.	.	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	hg19	1	185970862	185970862	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	HMCN1	NM_031935	exon28	c.T4337A	p.I1446N	TTAACATTGATGT	.	189.0	46.0	234.0	0.0	.	797	.	.	Atlas-SNP
OR2B11	127623	hgsc.bcm.edu	hg19	1	247614391	247614391	+	Silent	SNP	A	A	G	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	OR2B11	NM_001004492	exon1	c.T894C	p.N298N	ATCTTTATTTCTC	.	186.0	28.0	202.0	0.0	.	102	.	.	Atlas-SNP
ACP1	52	hgsc.bcm.edu	hg19	2	277013	277013	+	Silent	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	ACP1	NM_007099	exon5	c.C327T	p.T109T	TAAAACCTGCAAA	.	241.0	39.0	277.0	0.0	.	42	.	.	Atlas-SNP
MYT1L	23040	hgsc.bcm.edu	hg19	2	1812887	1812887	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	MYT1L	NM_015025	exon22	c.G3127A	p.G1043R	GCTCTCCAGAAAG	.	170.0	26.0	197.0	0.0	.	241	.	.	Atlas-SNP
TTC27	55622	hgsc.bcm.edu	hg19	2	32859027	32859027	+	Silent	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	TTC27	NM_017735	exon3	c.C351T	p.H117H	CTTACACCCTCAG	.	461.0	74.0	456.0	0.0	.	71	.	.	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	hg19	2	141812802	141812802	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	LRP1B	NM_018557	exon10	c.C1435T	p.P479S	CATATGGATCGAC	.	167.0	22.0	167.0	0.0	.	1315	.	.	Atlas-SNP
COBLL1	22837	hgsc.bcm.edu	hg19	2	165551580	165551580	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	COBLL1	NM_014900	exon12	c.A2436T	p.K812N	AGTTTCTTTCACA	.	324.0	60.0	396.0	0.0	.	122	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179395002	179395002	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	TTN	NM_001267550	exon358	c.C106340G	p.P35447R	GGCCGGGGTTCTC	.	134.0	21.0	131.0	0.0	.	18412	.	.	Atlas-SNP
TNP1	7141	hgsc.bcm.edu	hg19	2	217724619	217724619	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	TNP1	NM_003284	exon1	c.G139T	p.A47S	ACTCACCGTCATC	.	226.0	37.0	221.0	0.0	.	10	.	.	Atlas-SNP
PRRT3	285368	hgsc.bcm.edu	hg19	3	9991578	9991578	+	Silent	SNP	A	A	G	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	PRRT3	NM_207351	exon2	c.T222C	p.D74D	GCGGACATCAGAG	.	120.0	25.0	90.0	0.0	.	35	.	.	Atlas-SNP
TCAIM	285343	hgsc.bcm.edu	hg19	3	44449032	44449032	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	.	NM_173826	exon11	c.T1349G	p.V450G	AAATGGTGGATTG	.	362.0	56.0	376.0	0.0	.	.	.	.	Atlas-SNP
PIK3CB	5291	hgsc.bcm.edu	hg19	3	138426053	138426053	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	PIK3CB	NM_006219	exon9	c.T1478C	p.V493A	AATTTAACATGCA	.	265.0	34.0	256.0	0.0	.	103	.	.	Atlas-SNP
TRIM42	287015	hgsc.bcm.edu	hg19	3	140401304	140401304	+	Silent	SNP	C	C	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	TRIM42	NM_152616	exon2	c.C342A	p.S114S	TTTCAGCTCCAAG	.	118.0	15.0	111.0	0.0	.	143	.	.	Atlas-SNP
CP	1356	hgsc.bcm.edu	hg19	3	148923993	148923993	+	Missense_Mutation	SNP	T	T	C	rs201036476		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	CP	NM_000096	exon6	c.A1170G	p.I390M	GATGTCTATACCA	.	253.0	62.0	267.0	0.0	.	112	.	T|0.999;C|0.001	Atlas-SNP
MME	4311	hgsc.bcm.edu	hg19	3	154890002	154890002	+	Splice_Site	SNP	G	G	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	MME	NM_000902	exon21	c.2076+1G>T	.	GCACAGGTATTGT	.	827.0	132.0	1098.0	0.0	.	133	.	.	Atlas-SNP
EIF4G1	1981	hgsc.bcm.edu	hg19	3	184045645	184045645	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	EIF4G1	NM_001194946	exon27	c.G3829A	p.A1277T	GAGCTGGCCTCAC	.	109.0	33.0	106.0	0.0	.	151	.	.	Atlas-SNP
EPHA5	2044	hgsc.bcm.edu	hg19	4	66361224	66361224	+	Silent	SNP	G	G	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	EPHA5	NM_004439	exon4	c.C948T	p.I316I	GCTCTGGATGTGA	.	208.0	37.0	216.0	0.0	.	315	.	.	Atlas-SNP
MUC7	4589	hgsc.bcm.edu	hg19	4	71346814	71346814	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	MUC7	NM_001145007	exon4	c.C353T	p.S118L	TCCCATCAGCTTC	.	160.0	31.0	171.0	0.0	.	91	.	.	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	hg19	4	79328918	79328918	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	FRAS1	NM_001166133	exon31	c.C4231T	p.Q1411X	TTCACCCAGCAGG	.	207.0	27.0	162.0	0.0	.	779	.	.	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	hg19	4	79455713	79455713	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	FRAS1	NM_025074	exon71	c.C11036T	p.P3679L	TGGATCCCAATAC	.	133.0	20.0	133.0	0.0	.	779	.	.	Atlas-SNP
BANK1	55024	hgsc.bcm.edu	hg19	4	102712095	102712095	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	BANK1	NM_001127507	exon1	c.C58T	p.P20S	TGCGGCCCAGCGC	.	22.0	13.0	4.0	0.0	.	95	.	.	Atlas-SNP
TACR3	6870	hgsc.bcm.edu	hg19	4	104640417	104640417	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	TACR3	NM_001059	exon1	c.C416A	p.T139K	ACCAACGTGTTGA	.	128.0	17.0	128.0	0.0	.	102	.	.	Atlas-SNP
NDST3	9348	hgsc.bcm.edu	hg19	4	119154261	119154261	+	Silent	SNP	T	T	C	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	NDST3	NM_004784	exon9	c.T1914C	p.N638N	CTTTAATAGAAAT	.	238.0	45.0	234.0	0.0	.	107	.	.	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	hg19	4	155226013	155226013	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	DCHS2	NM_017639	exon17	c.G4048T	p.G1350X	GGAATCCCCCATC	.	314.0	47.0	409.0	0.0	.	594	.	.	Atlas-SNP
PCDHA6	56142	hgsc.bcm.edu	hg19	5	140210049	140210049	+	Silent	SNP	A	A	G	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	PCDHA6	NM_018909	exon1	c.A2373G	p.L791L	GGATTTAAATGAA	.	153.0	12.0	133.0	0.0	.	442	.	.	Atlas-SNP
PCDHB1	29930	hgsc.bcm.edu	hg19	5	140432442	140432442	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	PCDHB1	NM_013340	exon1	c.G1387A	p.E463K	GTTCGAGAAAACA	.	147.0	23.0	146.0	0.0	.	148	.	.	Atlas-SNP
PCDHGA6	56109	hgsc.bcm.edu	hg19	5	140753695	140753695	+	Silent	SNP	G	G	T	rs376765941		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	PCDHGA6	NM_018919	exon1	c.G45T	p.L15L	GGTCCTGCTCCTC	.	176.0	47.0	122.0	0.0	.	219	.	.	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	hg19	6	38781906	38781906	+	Splice_Site	SNP	G	G	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	DNAH8	NM_001206927	exon25	c.3333+1G>T	.	AATGTGGTAAGTA	.	146.0	21.0	147.0	0.0	.	1239	.	.	Atlas-SNP
EPHA7	2045	hgsc.bcm.edu	hg19	6	94124469	94124469	+	Silent	SNP	A	A	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	EPHA7	NM_004440	exon2	c.T114A	p.S38S	TGCTTTAGAATCC	.	71.0	10.0	97.0	0.0	.	251	.	.	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	hg19	6	152674871	152674871	+	Missense_Mutation	SNP	G	G	T	rs201704617	bycluster;alternate_allele	TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	SYNE1	NM_182961	exon68	c.C10935A	p.H3645Q	TTCTTCGTGCCAC	.	132.0	21.0	122.0	0.0	.	3227	.	G|0.999;A|0.001	Atlas-SNP
INTS1	26173	hgsc.bcm.edu	hg19	7	1517435	1517435	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	INTS1	NM_001080453	exon34	c.G4768A	p.E1590K	CCTCCTCCTGCAG	.	165.0	21.0	93.0	0.0	.	145	.	.	Atlas-SNP
ITGB8	3696	hgsc.bcm.edu	hg19	7	20445703	20445703	+	Silent	SNP	T	T	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	ITGB8	NM_002214	exon12	c.T1932A	p.L644L	ATGCCTTCACCCT	.	141.0	25.0	145.0	0.0	.	159	.	.	Atlas-SNP
PDE1C	5137	hgsc.bcm.edu	hg19	7	31877505	31877505	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	PDE1C_ENST00000396193,NS,carcinoma,0,3	PDE1C	NM_001191058	exon11	c.C1241T	p.T414I	AGAGCAGTCTTCA	.	117.0	11.0	109.0	1.0	.	465	.	.	Atlas-SNP
ABCB1	5243	hgsc.bcm.edu	hg19	7	87196165	87196165	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	ABCB1	NM_000927	exon7	c.A466T	p.M156L	GTCGCATTATAGC	.	133.0	23.0	147.0	0.0	.	263	.	.	Atlas-SNP
SLC13A1	6561	hgsc.bcm.edu	hg19	7	122787291	122787291	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	SLC13A1	NM_022444	exon7	c.C734G	p.A245G	GAGTAGGCAATGC	.	168.0	29.0	163.0	0.0	.	110	.	.	Atlas-SNP
NUP205	23165	hgsc.bcm.edu	hg19	7	135269705	135269705	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	NUP205	NM_015135	exon8	c.C1168T	p.R390C	TATATTCGCAGAG	.	153.0	18.0	161.0	0.0	.	198	.	.	Atlas-SNP
DPP6	1804	hgsc.bcm.edu	hg19	7	154263941	154263941	+	Silent	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	DPP6	NM_130797	exon5	c.C567T	p.A189A	AAGAGCCATCAGA	.	127.0	15.0	185.0	0.0	.	383	.	.	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	hg19	8	3081364	3081364	+	Silent	SNP	G	G	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	CSMD1	NM_033225	exon28	c.C4371A	p.G1457G	TGCTGGGCCCGTC	.	169.0	18.0	188.0	0.0	.	1469	.	.	Atlas-SNP
MYBL1	4603	hgsc.bcm.edu	hg19	8	67492397	67492397	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	MYBL1	NM_001080416	exon9	c.T1072C	p.F358L	CTGCAAATTCTGG	.	206.0	20.0	111.0	0.0	.	73	.	.	Atlas-SNP
DDX31	64794	hgsc.bcm.edu	hg19	9	135537950	135537950	+	Missense_Mutation	SNP	C	C	T	rs367667543		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	DDX31	NM_022779	exon2	c.G523A	p.A175T	TTTGTGCGTTCCC	.	271.0	22.0	319.0	0.0	.	76	.	.	Atlas-SNP
EPC1	80314	hgsc.bcm.edu	hg19	10	32582635	32582635	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	EPC1	NM_025209	exon3	c.A344G	p.Y115C	AAATCATAATCAG	.	260.0	37.0	210.0	0.0	.	74	.	.	Atlas-SNP
ANO9	338440	hgsc.bcm.edu	hg19	11	418530	418530	+	Silent	SNP	C	C	T	rs369737399		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	ANO9	NM_001012302	exon23	c.G2190A	p.S730S	CTTCACCGACTGA	.	137.0	15.0	139.0	0.0	.	61	.	.	Atlas-SNP
OR5D13	390142	hgsc.bcm.edu	hg19	11	55541610	55541610	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	OR5D13	NM_001001967	exon1	c.G697A	p.A233T	CGATCTGCAAGTG	.	189.0	17.0	170.0	0.0	.	96	.	.	Atlas-SNP
BTBD18	643376	hgsc.bcm.edu	hg19	11	57512606	57512606	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	BTBD18	NM_001145101	exon3	c.C1139A	p.T380N	TCTTGAGTGTTTT	.	106.0	9.0	91.0	0.0	.	26	.	.	Atlas-SNP
FAM111B	374393	hgsc.bcm.edu	hg19	11	58893210	58893210	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	FAM111B	NM_198947	exon4	c.T1640G	p.I547S	ATGCCATTTTAAA	.	69.0	14.0	90.0	0.0	.	84	.	.	Atlas-SNP
MYRF	745	hgsc.bcm.edu	hg19	11	61537931	61537931	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	.	NM_001127392	exon5	c.C674T	p.P225L	TGGTGCCCACTGA	.	363.0	37.0	278.0	0.0	.	.	.	.	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	hg19	11	92085831	92085831	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	FAT3_ENST00000409404,NS,carcinoma,0,2	FAT3	NM_001008781	exon1	c.G553T	p.A185S	ACAGACGCAGATA	.	86.0	14.0	108.0	0.0	.	1822	.	.	Atlas-SNP
GRIA4	2893	hgsc.bcm.edu	hg19	11	105842667	105842667	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	GRIA4	NM_000829	exon15	c.A2321C	p.K774T	TTTTGAAACTCAG	.	201.0	40.0	164.0	0.0	.	380	.	.	Atlas-SNP
NTF3	4908	hgsc.bcm.edu	hg19	12	5603521	5603521	+	Silent	SNP	G	G	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	NTF3	NM_001102654	exon2	c.G180A	p.K60K	AAACAAGCTCTCC	.	54.0	10.0	68.0	0.0	.	50	.	.	Atlas-SNP
SLC2A14	144195	hgsc.bcm.edu	hg19	12	7967043	7967043	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	SLC2A14	NM_153449	exon12	c.C1432T	p.R478C	TGCCACGGGTCTC	.	195.0	15.0	202.0	0.0	.	78	.	.	Atlas-SNP
FLT1	2321	hgsc.bcm.edu	hg19	13	28883065	28883065	+	Splice_Site	SNP	C	C	G	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	FLT1	NM_002019	exon29	c.3636-1G>C	.	ACGTATCTAATGA	.	67.0	8.0	71.0	0.0	.	393	.	.	Atlas-SNP
DACH1	1602	hgsc.bcm.edu	hg19	13	72204825	72204825	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	DACH1	NM_080759	exon3	c.C995A	p.A332D	GCAGCAGCTGCTG	.	118.0	39.0	100.0	0.0	.	123	.	.	Atlas-SNP
ATG14	22863	hgsc.bcm.edu	hg19	14	55848812	55848812	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	ATG14	NM_014924	exon6	c.C745T	p.R249X	CCCATCGTCCTGA	.	397.0	83.0	429.0	0.0	.	36	.	.	Atlas-SNP
TP53BP1	7158	hgsc.bcm.edu	hg19	15	43749109	43749109	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	TP53BP1	NM_001141980	exon12	c.C1697G	p.P566R	TCAGCAGGAACAA	.	174.0	34.0	204.0	0.0	.	157	.	.	Atlas-SNP
BNC1	646	hgsc.bcm.edu	hg19	15	83926506	83926506	+	Silent	SNP	A	A	G	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	BNC1	NM_001717	exon5	c.T2673C	p.D891D	GTTCCCATCACTG	.	90.0	23.0	84.0	0.0	.	149	.	.	Atlas-SNP
SOLH	6650	hgsc.bcm.edu	hg19	16	601376	601376	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	SOLH	NM_005632	exon8	c.G2141A	p.R714H	GCCTGCGCCCCCG	.	44.0	7.0	28.0	0.0	.	47	.	.	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	hg19	16	70884548	70884548	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	HYDIN	NM_001270974	exon74	c.G12454A	p.D4152N	AAATATCAATTGG	.	134.0	20.0	162.0	0.0	.	788	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7578555	7578555	+	Splice_Site	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	TP53_ENST00000545858,NS,carcinoma,0,58	TP53	NM_000546	exon6	c.376-1G>A	.	GGAGTACTGTAGG	.	50.0	8.0	56.0	0.0	.	33396	.	.	Atlas-SNP
KRT14	3861	hgsc.bcm.edu	hg19	17	39742690	39742690	+	Missense_Mutation	SNP	C	C	T	rs61027685	bycluster	TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	KRT14	NM_000526	exon1	c.G397A	p.V133M	CACGCACCTTGTC	.	225.0	48.0	200.0	0.0	.	65	.	.	Atlas-SNP
CNTD1	124817	hgsc.bcm.edu	hg19	17	40961398	40961398	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	CNTD1	NM_173478	exon7	c.C838A	p.Q280K	CATTTGCAGAGCA	.	220.0	42.0	207.0	0.0	.	22	.	.	Atlas-SNP
CDR2L	30850	hgsc.bcm.edu	hg19	17	72998268	72998268	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	HUMPPA,NS,carcinoma,0,1	.	NM_014603	exon4	c.C451T	p.R151C	CGGGAACGCAGGC	.	80.0	18.0	39.0	0.0	.	.	.	.	Atlas-SNP
LLGL2	3993	hgsc.bcm.edu	hg19	17	73569581	73569581	+	Silent	SNP	C	C	G	rs144386071	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	LLGL2	NM_004524	exon21	c.C2745G	p.P915P	CTCACCCTCGGAG	.	254.0	40.0	224.0	0.0	.	155	.	C|0.997;T|0.003	Atlas-SNP
ARHGEF18	23370	hgsc.bcm.edu	hg19	19	7505118	7505118	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	ARHGEF18	NM_001130955	exon1	c.T292A	p.S98T	CTGACCTCCAAGA	.	111.0	17.0	109.0	0.0	.	129	.	.	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9024161	9024161	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	MUC16	NM_024690	exon18	c.A37111T	p.T12371S	ATGGAGTCCCTGA	.	241.0	21.0	254.0	0.0	.	4315	.	.	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9048324	9048324	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	MUC16	NM_024690	exon5	c.A33307C	p.T11103P	AACTAGTGACCAG	.	136.0	21.0	158.0	0.0	.	4315	.	.	Atlas-SNP
ZNF253	56242	hgsc.bcm.edu	hg19	19	20002465	20002465	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	ZNF253	NM_021047	exon4	c.A409T	p.T137S	TGTTTGACAACTA	.	163.0	27.0	236.0	0.0	.	99	.	.	Atlas-SNP
TRIM28	10155	hgsc.bcm.edu	hg19	19	59059680	59059680	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	TRIM28	NM_005762	exon8	c.G1121A	p.R374Q	TGCACCGGGCCCT	.	129.0	34.0	121.0	0.0	.	46	.	.	Atlas-SNP
TGM3	7053	hgsc.bcm.edu	hg19	20	2321189	2321189	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	TGM3	NM_003245	exon13	c.G2044T	p.A682S	TTCCCTGCAATCA	.	141.0	12.0	122.0	0.0	.	105	.	.	Atlas-SNP
SPATA2	9825	hgsc.bcm.edu	hg19	20	48523374	48523374	+	Silent	SNP	C	C	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	SPATA2	NM_006038	exon3	c.G345T	p.T115T	AGGGCCCGTGTAG	.	242.0	22.0	186.0	0.0	.	36	.	.	Atlas-SNP
CSNK1E	1454	hgsc.bcm.edu	hg19	22	38696748	38696748	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	CSNK1E	NM_001894	exon5	c.C546G	p.I182M	CGTGTTGATGGAA	.	289.0	77.0	353.0	0.0	.	143	.	.	Atlas-SNP
MAGEC3	139081	hgsc.bcm.edu	hg19	X	140985121	140985121	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	MAGEC3	NM_138702	exon7	c.A1577G	p.E526G	TCTTTGAAGACAC	.	44.0	22.0	75.0	0.0	.	228	.	.	Atlas-SNP
GABRQ	55879	hgsc.bcm.edu	hg19	X	151821044	151821044	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	GABRQ	NM_018558	exon9	c.C1199A	p.P400H	CTCTCCCCATCAC	.	169.0	66.0	159.0	0.0	.	131	.	.	Atlas-SNP
MPP1	4354	hgsc.bcm.edu	hg19	X	154013425	154013425	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	MPP1	NM_002436	exon7	c.G685A	p.A229T	TACTTGCCACTCG	.	70.0	30.0	65.0	0.0	.	52	.	.	Atlas-SNP
IL9R	3581	hgsc.bcm.edu	hg19	X	155239667	155239667	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	IL9R	NM_002186	exon9	c.C1159A	p.L387M	GGGAACCTGAGCT	.	330.0	38.0	247.0	0.0	.	73	.	.	Atlas-SNP
ND4L	0	hgsc.bcm.edu	hg19	MT	10531	10531	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	.	ENST00000361335	exon1	c.T62C	p.V21A	TACTAGTATATCG	.	161.0	106.0	195.0	0.0	.	.	.	.	Atlas-SNP
ND4	0	hgsc.bcm.edu	hg19	MT	11170	11170	+	Silent	SNP	C	C	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	.	ENST00000361381	exon1	c.C411T	p.G137G	ATGAGGCAACCAG	.	194.0	56.0	196.0	0.0	.	.	.	.	Atlas-SNP
GAB2	9846	hgsc.bcm.edu	hg19	11	77932827	77932828	+	Splice_Site	INS	-	-	G	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	GAB2	NM_080491	exon9	c.1659-2->C	.	.	.	336.0	22.0	353.0	0.0	.	63	.	.	Atlas-INDEL
SLC9A3	6550	hgsc.bcm.edu	hg19	5	488534	488535	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	SLC9A3	NM_004174	exon3	c.572_573insG	p.V191fs	.	.	135.0	11.0	94.0	0.0	.	89	.	.	Atlas-INDEL
CAPN14	440854	hgsc.bcm.edu	hg19	2	31399956	31399957	+	Frame_Shift_Ins	INS	-	-	GC	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	CAPN14	NM_001145122	exon20	c.1908_1909insGC	p.G636fs	.	.	176.0	13.0	133.0	0.0	.	36	.	.	Atlas-INDEL
AXIN2	8313	hgsc.bcm.edu	hg19	17	63545764	63545765	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	AXIN2,rectum,carcinoma,0,1	AXIN2	NM_004655	exon3	c.830_831del	p.277_277del	.	.	92.0	14.0	123.0	0.0	.	92	.	.	Atlas-Indel,Pindel
MTOR	2475	hgsc.bcm.edu	hg19	1	11264717	11264718	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	MTOR	NM_004958	exon26	c.3845_3846insG	p.E1282fs	.	.	210.0	13.0	191.0	0.0	.	327	.	.	Atlas-INDEL
VGLL4	9686	hgsc.bcm.edu	hg19	3	11606425	11606426	+	Frame_Shift_Del	DEL	GC	GC	-	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	VGLL4	NM_001128219	exon3	c.341_342del	p.114_114del	.	.	104.0	11.0	80.0	0.0	.	47	.	.	Atlas-INDEL
SCNN1D	6339	hgsc.bcm.edu	hg19	1	1222261	1222262	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	SCNN1D	NM_001130413	exon8	c.1025_1026insC	p.V342fs	.	.	171.0	12.0	131.0	0.0	.	60	.	.	Atlas-INDEL
DENND5B	160518	hgsc.bcm.edu	hg19	12	31605091	31605092	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	DENND5B	NM_144973	exon5	c.1412_1413insA	p.M471fs	.	.	269.0	42.0	227.0	0.0	.	114	.	.	Atlas-Indel,Pindel
NR2F2	7026	hgsc.bcm.edu	hg19	15	96875607	96875608	+	Frame_Shift_Del	DEL	CG	CG	-	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	CG	CG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	NR2F2	NM_021005	exon1	c.272_273del	p.91_91del	.	.	100.0	15.0	100.0	0.0	.	35	.	.	Atlas-Indel,Pindel
ZDBF2	57683	hgsc.bcm.edu	hg19	2	207170909	207170909	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-CC-A1HT-01A-11D-A12Z-10	TCGA-CC-A1HT-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	6b25a78f-20dc-4ccc-b4c0-f9885d16725d	0255f601-3be9-4059-9d36-7f666977eff0	.	ZDBF2	NM_020923	exon5	c.1656delA	p.R552fs	.	.	98.0	10.0	99.0	0.0	.	531	.	.	Pindel
