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
IPP	3652	hgsc.bcm.edu	hg19	1	46211836	46211836	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	IPP	NM_001145349	exon2	c.T248C	p.I83T	GCTTCAATTCCTA	.	144.0	54.0	126.0	0.0	.	66	.	.	Atlas-SNP
GLIS1	148979	hgsc.bcm.edu	hg19	1	54060500	54060500	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	GLIS1	NM_147193	exon3	c.C76A	p.L26I	CCGGGAGGTCCAG	.	119.0	32.0	98.0	0.0	.	52	.	.	Atlas-SNP
AKNAD1	254268	hgsc.bcm.edu	hg19	1	109394989	109394989	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	AKNAD1	NM_152763	exon2	c.A298C	p.N100H	CTTCATTTGCTGG	.	97.0	33.0	80.0	0.0	.	83	.	.	Atlas-SNP
ZNF687	57592	hgsc.bcm.edu	hg19	1	151259083	151259083	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	ZNF687,colon,carcinoma,0,1	ZNF687	NM_020832	exon2	c.G316T	p.G106W	GGAGACGGGGCCC	.	151.0	19.0	68.0	0.0	.	94	.	.	Atlas-SNP
FLG2	388698	hgsc.bcm.edu	hg19	1	152324696	152324696	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	FLG2	NM_001014342	exon3	c.G5566T	p.G1856X	AATGTCCACTGGT	.	239.0	40.0	108.0	0.0	.	431	.	.	Atlas-SNP
CREB3L4	148327	hgsc.bcm.edu	hg19	1	153941033	153941033	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	CREB3L4	NM_001255980	exon2	c.C32G	p.A11G	TGGACGCGTGGCT	.	187.0	78.0	96.0	0.0	.	36	.	.	Atlas-SNP
NES	10763	hgsc.bcm.edu	hg19	1	156639400	156639400	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	NES	NM_006617	exon4	c.G4580A	p.G1527D	CCTGGGCCTGCAT	.	179.0	41.0	93.0	0.0	.	196	.	.	Atlas-SNP
PEAR1	375033	hgsc.bcm.edu	hg19	1	156875181	156875181	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	PEAR1	NM_001080471	exon4	c.G272C	p.C91S	AGTGCTGCCATGG	.	81.0	20.0	27.0	0.0	.	118	.	.	Atlas-SNP
OR6P1	128366	hgsc.bcm.edu	hg19	1	158532696	158532696	+	Silent	SNP	T	T	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	OR6P1	NM_001160325	exon1	c.A699T	p.G233G	GTGGCGTCCCCTG	.	222.0	49.0	115.0	0.0	.	47	.	.	Atlas-SNP
TSTD1	100131187	hgsc.bcm.edu	hg19	1	161008344	161008344	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	TSTD1	NM_001113207	exon2	c.C130T	p.P44S	TACCCGGGATGTT	.	178.0	74.0	86.0	0.0	.	12	.	.	Atlas-SNP
MPC2	25874	hgsc.bcm.edu	hg19	1	167905052	167905052	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	.	NM_001143674	exon2	c.C28T	p.R10W	TGGCCCGCAGGCC	.	253.0	47.0	141.0	0.0	.	.	.	.	Atlas-SNP
SLC19A2	10560	hgsc.bcm.edu	hg19	1	169454948	169454948	+	Silent	SNP	G	G	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	SLC19A2	NM_006996	exon1	c.C57A	p.L19L	CCGCAGGAGCACA	.	183.0	62.0	121.0	0.0	.	35	.	.	Atlas-SNP
SCYL3	57147	hgsc.bcm.edu	hg19	1	169833605	169833605	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	SCYL3	NM_020423	exon9	c.C860T	p.A287V	CTTGAAGCTATCA	.	513.0	203.0	293.0	1.0	.	116	.	.	Atlas-SNP
TDRD5	163589	hgsc.bcm.edu	hg19	1	179631239	179631239	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	TDRD5	NM_001199085	exon15	c.G2323A	p.D775N	TTTTAGGATGAGA	.	139.0	21.0	81.0	0.0	.	149	.	.	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	hg19	1	186088414	186088414	+	Silent	SNP	G	G	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	HMCN1	NM_031935	exon78	c.G11940A	p.V3980V	ACACGTGACCCTT	.	386.0	64.0	222.0	0.0	.	797	.	.	Atlas-SNP
TTC13	79573	hgsc.bcm.edu	hg19	1	231047225	231047225	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	TTC13	NM_024525	exon20	c.G2300C	p.R767P	GATCCTCGAGAGA	.	1011.0	101.0	525.0	0.0	.	74	.	.	Atlas-SNP
SNTG2	54221	hgsc.bcm.edu	hg19	2	1241734	1241734	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	SNTG2	NM_018968	exon10	c.G794T	p.G265V	AGGATGGCACCGA	.	36.0	18.0	51.0	0.0	.	125	.	.	Atlas-SNP
BIRC6	57448	hgsc.bcm.edu	hg19	2	32703821	32703821	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	BIRC6	NM_016252	exon36	c.A7187G	p.D2396G	GAGGAGATATATC	.	100.0	11.0	115.0	0.0	.	838	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179528600	179528600	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	TTN	NM_001267550	exon170	c.G36394A	p.E12132K	TCTCTTCGCGGAT	.	101.0	50.0	144.0	0.0	.	18412	.	.	Atlas-SNP
FSIP2	401024	hgsc.bcm.edu	hg19	2	186670171	186670171	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	FSIP2	NM_173651	exon17	c.A16405G	p.M5469V	ATAGGGATGATTG	.	247.0	109.0	338.0	0.0	.	251	.	.	Atlas-SNP
PLCL1	5334	hgsc.bcm.edu	hg19	2	198950089	198950089	+	Silent	SNP	T	T	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	PLCL1	NM_006226	exon2	c.T1848C	p.S616S	ATTTAGTGAAACA	.	71.0	5.0	122.0	0.0	.	358	.	.	Atlas-SNP
NBEAL1	65065	hgsc.bcm.edu	hg19	2	204009854	204009854	+	Missense_Mutation	SNP	G	G	A	rs369975893		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	NBEAL1	NM_001114132	exon32	c.G5188A	p.E1730K	GACCGGGAAGGAG	.	115.0	7.0	135.0	0.0	.	266	.	.	Atlas-SNP
C3orf20	84077	hgsc.bcm.edu	hg19	3	14724699	14724699	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	C3orf20	NM_032137	exon3	c.T479C	p.M160T	AGTCTATGTCGGG	.	101.0	36.0	75.0	0.0	.	109	.	.	Atlas-SNP
SGOL1	151648	hgsc.bcm.edu	hg19	3	20225381	20225381	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	SGOL1	NM_001199253	exon2	c.A139G	p.I47V	TACTGATTATTTG	.	99.0	34.0	105.0	0.0	.	55	.	.	Atlas-SNP
MYRIP	25924	hgsc.bcm.edu	hg19	3	40251524	40251524	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	MYRIP	NM_015460	exon11	c.C1845A	p.N615K	TGAGAACCAGAAG	.	345.0	114.0	284.0	0.0	.	98	.	.	Atlas-SNP
TRAK1	22906	hgsc.bcm.edu	hg19	3	42236385	42236385	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	TRAK1	NM_001265608	exon10	c.G1065C	p.M355I	AACCATGCCCAAT	.	113.0	31.0	91.0	0.0	.	188	.	.	Atlas-SNP
HYAL1	3373	hgsc.bcm.edu	hg19	3	50339584	50339584	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	HYAL1	NM_033159	exon2	c.G804C	p.E268D	GAATGCCTCGGCC	.	367.0	116.0	293.0	0.0	.	28	.	.	Atlas-SNP
TRPC1	7220	hgsc.bcm.edu	hg19	3	142467157	142467157	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	TRPC1	NM_001251845	exon4	c.G487A	p.V163I	GCACCTGTCATTT	.	243.0	78.0	212.0	0.0	.	82	.	.	Atlas-SNP
MSX1	4487	hgsc.bcm.edu	hg19	4	4861842	4861842	+	Silent	SNP	G	G	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	MSX1	NM_002448	exon1	c.G216A	p.K72K	CAGGAAGCCGGGG	.	1014.0	281.0	805.0	0.0	.	19	.	.	Atlas-SNP
BRD9	65980	hgsc.bcm.edu	hg19	5	891776	891776	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	BRD9	NM_023924	exon2	c.T246G	p.D82E	TTCCTCATCGTCC	.	94.0	34.0	43.0	0.0	.	113	.	.	Atlas-SNP
HIST1H3C	8352	hgsc.bcm.edu	hg19	6	26045843	26045843	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	HIST1H3C	NM_003531	exon1	c.C205T	p.Q69X	CCGTTCCAGCGCC	.	200.0	52.0	117.0	0.0	.	34	.	.	Atlas-SNP
SYNGAP1	8831	hgsc.bcm.edu	hg19	6	33405540	33405540	+	Silent	SNP	G	G	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	SYNGAP1	NM_006772	exon8	c.G858T	p.L286L	CTGCCTGGATGAC	.	130.0	35.0	105.0	0.0	.	202	.	.	Atlas-SNP
RIMS1	22999	hgsc.bcm.edu	hg19	6	73001644	73001644	+	Silent	SNP	C	C	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	RIMS1	NM_014989	exon26	c.C3745A	p.R1249R	ATGCACCGACAGA	.	192.0	47.0	184.0	0.0	.	278	.	.	Atlas-SNP
FHL5	9457	hgsc.bcm.edu	hg19	6	97053798	97053798	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	FHL5	NM_020482	exon5	c.A355G	p.K119E	GAATTTAAGGGAA	.	147.0	29.0	149.0	0.0	.	73	.	.	Atlas-SNP
ARMC2	84071	hgsc.bcm.edu	hg19	6	109232114	109232114	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	ARMC2	NM_032131	exon9	c.A1036G	p.R346G	GTGAGTAGAAAGA	.	63.0	18.0	67.0	0.0	.	56	.	.	Atlas-SNP
SERAC1	84947	hgsc.bcm.edu	hg19	6	158535993	158535993	+	Silent	SNP	G	G	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	SERAC1	NM_032861	exon15	c.C1512T	p.V504V	CTTTTTGACAAGA	.	116.0	5.0	95.0	0.0	.	31	.	.	Atlas-SNP
SUN1	23353	hgsc.bcm.edu	hg19	7	878543	878543	+	Silent	SNP	A	A	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	SUN1	NM_001171945	exon4	c.A249C	p.A83A	GACAGCATGCACC	.	61.0	12.0	61.0	0.0	.	157	.	.	Atlas-SNP
SRPK2	6733	hgsc.bcm.edu	hg19	7	104767483	104767483	+	Silent	SNP	A	A	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	SRPK2	NM_182692	exon14	c.T1779C	p.Y593Y	AAACAAATAATCT	.	136.0	48.0	125.0	0.0	.	76	.	.	Atlas-SNP
DGKI	9162	hgsc.bcm.edu	hg19	7	137170153	137170153	+	Silent	SNP	T	T	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	DGKI	NM_004717	exon24	c.A2394T	p.S798S	AGAAACTGACTGT	.	339.0	110.0	258.0	0.0	.	335	.	.	Atlas-SNP
WEE2	494551	hgsc.bcm.edu	hg19	7	141416059	141416059	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	WEE2	NM_001105558	exon3	c.C577T	p.P193S	GGGCTGCCTGCCA	.	37.0	13.0	34.0	0.0	.	59	.	.	Atlas-SNP
PTPRN2	5799	hgsc.bcm.edu	hg19	7	157959681	157959681	+	Silent	SNP	G	G	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	PTPRN2	NM_130843	exon6	c.C852G	p.A284A	CTGGGGGGCGGCT	.	126.0	37.0	104.0	0.0	.	243	.	.	Atlas-SNP
ESYT2	57488	hgsc.bcm.edu	hg19	7	158540904	158540904	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	ESYT2	NM_020728	exon15	c.G1706A	p.R569H	TCCTGGCGCTTGG	.	152.0	10.0	121.0	0.0	.	70	.	.	Atlas-SNP
TLN1	7094	hgsc.bcm.edu	hg19	9	35703773	35703773	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	TLN1	NM_006289	exon47	c.A6356G	p.K2119R	CCAACCTTGGCAG	.	51.0	15.0	62.0	0.0	.	185	.	.	Atlas-SNP
CCDC180	0	hgsc.bcm.edu	hg19	9	100117288	100117288	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	.	NM_020893	exon24	c.C3394G	p.Q1132E	AAGTGCCAGGTAG	.	74.0	31.0	48.0	0.0	.	.	.	.	Atlas-SNP
FOXE1	2304	hgsc.bcm.edu	hg19	9	100616728	100616728	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	FOXE1	NM_004473	exon1	c.G532A	p.A178T	GCCGCCGCCGCCA	.	194.0	10.0	194.0	0.0	.	19	.	.	Atlas-SNP
PAEP	5047	hgsc.bcm.edu	hg19	9	138457313	138457313	+	Missense_Mutation	SNP	C	C	A	rs373981009		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	PAEP	NM_002571	exon5	c.C479A	p.P160H	TCAGGCCCCTGCC	.	91.0	29.0	79.0	0.0	.	16	.	.	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	hg19	10	16955931	16955931	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	CUBN	NM_001081	exon48	c.C7412G	p.P2471R	GGATTTGGGTTCG	.	50.0	10.0	54.0	0.0	.	515	.	.	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	hg19	10	17142085	17142085	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	CUBN	NM_001081	exon14	c.A1684G	p.N562D	GAGCATTGTCACT	.	243.0	80.0	235.0	0.0	.	515	.	.	Atlas-SNP
SLC16A9	220963	hgsc.bcm.edu	hg19	10	61412663	61412663	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	SLC16A9,larynx,carcinoma,0,1	SLC16A9	NM_194298	exon6	c.T1397A	p.F466Y	CCACTAAAATAAA	.	356.0	115.0	265.0	0.0	.	58	.	.	Atlas-SNP
LRIT1	26103	hgsc.bcm.edu	hg19	10	85997354	85997354	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	LRIT1	NM_015613	exon2	c.A211G	p.I71V	TGCGTATGGCCGT	.	84.0	15.0	58.0	0.0	.	73	.	.	Atlas-SNP
GRID1	2894	hgsc.bcm.edu	hg19	10	87373360	87373360	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	GRID1	NM_017551	exon15	c.A2405G	p.Q802R	CACTTCTGCTTCA	.	193.0	61.0	122.0	0.0	.	204	.	.	Atlas-SNP
CHUK	1147	hgsc.bcm.edu	hg19	10	101950685	101950685	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	CHUK	NM_001278	exon20	c.C2149A	p.L717I	GGCCAAGGCAGTT	.	127.0	23.0	118.0	0.0	.	71	.	.	Atlas-SNP
KRTAP5-4	387267	hgsc.bcm.edu	hg19	11	1642908	1642908	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	KRTAP5-4	NM_001012709	exon1	c.G416C	p.C139S	CAGCTGCACTGGG	.	144.0	6.0	164.0	0.0	.	78	.	.	Atlas-SNP
PCNXL3	399909	hgsc.bcm.edu	hg19	11	65404386	65404386	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	PCNXL3	NM_032223	exon35	c.G6042T	p.W2014C	CGACTGGCCTGCC	.	53.0	21.0	61.0	0.0	.	140	.	.	Atlas-SNP
PLEKHA5	54477	hgsc.bcm.edu	hg19	12	19501413	19501413	+	Silent	SNP	A	A	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	PLEKHA5	NM_001256470	exon25	c.A2979G	p.K993K	AGAAAAATCAGAA	.	123.0	52.0	158.0	0.0	.	198	.	.	Atlas-SNP
CALCOCO1	57658	hgsc.bcm.edu	hg19	12	54118961	54118961	+	Silent	SNP	C	C	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	CALCOCO1	NM_020898	exon2	c.G66T	p.R22R	GTAGGTCCGGGCT	.	226.0	40.0	170.0	0.0	.	50	.	.	Atlas-SNP
AGAP2	116986	hgsc.bcm.edu	hg19	12	58131025	58131025	+	Silent	SNP	G	G	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	AGAP2	NM_001122772	exon1	c.C1005A	p.G335G	TGCTCGGCCCCCC	.	155.0	50.0	107.0	0.0	.	167	.	.	Atlas-SNP
AGAP2	116986	hgsc.bcm.edu	hg19	12	58131661	58131661	+	Silent	SNP	G	G	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	AGAP2	NM_001122772	exon1	c.C369A	p.L123L	CCCGGAGAGCGGG	.	33.0	5.0	23.0	0.0	.	167	.	.	Atlas-SNP
ANKS1B	56899	hgsc.bcm.edu	hg19	12	99145188	99145188	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	ANKS1B_ENST00000549493,lower_third,carcinoma,0,2	ANKS1B	NM_152788	exon25	c.A3617G	p.E1206G	TTGTTTTCAAAGC	.	187.0	43.0	155.0	0.0	.	180	.	.	Atlas-SNP
RFX4	5992	hgsc.bcm.edu	hg19	12	107103177	107103177	+	Silent	SNP	C	C	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	RFX4	NM_001206691	exon9	c.C930T	p.L310L	CGACCTCCCAGAA	.	140.0	43.0	134.0	0.0	.	218	.	.	Atlas-SNP
OXGR1	27199	hgsc.bcm.edu	hg19	13	97639005	97639005	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	OXGR1	NM_080818	exon4	c.C1009T	p.P337S	TTCAAGGGTTGTT	.	22.0	12.0	33.0	0.0	.	46	.	.	Atlas-SNP
AJUBA	84962	hgsc.bcm.edu	hg19	14	23450783	23450783	+	Nonsense_Mutation	SNP	A	A	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	.	NM_032876	exon1	c.T693G	p.Y231X	CGGGGGATACGAG	.	57.0	26.0	64.0	0.0	.	.	.	.	Atlas-SNP
TMEM63C	57156	hgsc.bcm.edu	hg19	14	77685213	77685213	+	Silent	SNP	G	G	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	TMEM63C	NM_020431	exon3	c.G57T	p.V19V	GACAGTGGATGAA	.	88.0	45.0	79.0	0.0	.	77	.	.	Atlas-SNP
CCNDBP1	23582	hgsc.bcm.edu	hg19	15	43477752	43477752	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	CCNDBP1	NM_012142	exon1	c.A56C	p.E19A	CTTTGGAGCAGCT	.	71.0	36.0	94.0	0.0	.	22	.	.	Atlas-SNP
RASGRF1	5923	hgsc.bcm.edu	hg19	15	79296322	79296322	+	Silent	SNP	G	G	A	rs147952942		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	RASGRF1	NM_002891	exon16	c.C2319T	p.A773A	GAGGGCGGCCAGG	.	69.0	41.0	74.0	0.0	.	168	.	G|1.000;A|0.000	Atlas-SNP
TSC2	7249	hgsc.bcm.edu	hg19	16	2124225	2124225	+	Nonsense_Mutation	SNP	C	C	T	rs45517233		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	TSC2	NM_001114382	exon22	c.C2380T	p.Q794X	CTGGAGCAGGGCC	.	34.0	15.0	26.0	0.0	.	364	.	.	Atlas-SNP
HEATR3	55027	hgsc.bcm.edu	hg19	16	50120257	50120257	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	HEATR3	NM_182922	exon11	c.A1505G	p.Q502R	TTTCTCAACCAGG	.	47.0	21.0	64.0	0.0	.	59	.	.	Atlas-SNP
RFWD3	55159	hgsc.bcm.edu	hg19	16	74660446	74660446	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	RFWD3	NM_018124	exon12	c.A1976G	p.N659S	GTGTGATTTTTAT	.	90.0	53.0	98.0	0.0	.	49	.	.	Atlas-SNP
GP1BA	2811	hgsc.bcm.edu	hg19	17	4837682	4837682	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	GP1BA	NM_000173	exon2	c.C1783G	p.L595V	GCCTGGCTGCTCT	.	51.0	25.0	66.0	0.0	.	53	.	.	Atlas-SNP
RNF112	7732	hgsc.bcm.edu	hg19	17	19316310	19316310	+	Silent	SNP	C	C	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	RNF112	NM_007148	exon4	c.C441A	p.G147G	TGGGGGCCTCATC	.	157.0	57.0	128.0	0.0	.	37	.	.	Atlas-SNP
LRRC37A2	474170	hgsc.bcm.edu	hg19	17	44630766	44630766	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	LRRC37A2	NM_001006607	exon11	c.A4810T	p.I1604L	AAACAGATATGTT	.	696.0	192.0	605.0	1.0	.	37	.	.	Atlas-SNP
SDK2	54549	hgsc.bcm.edu	hg19	17	71503638	71503638	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	SDK2	NM_001144952	exon2	c.C163A	p.P55T	CCAGTGGCCAGCT	.	67.0	16.0	70.0	0.0	.	219	.	.	Atlas-SNP
SUMO2	6613	hgsc.bcm.edu	hg19	17	73177179	73177179	+	Silent	SNP	T	T	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	SUMO2	NM_006937	exon2	c.A126G	p.K42K	CATTAGTTTACTA	.	539.0	121.0	415.0	0.0	.	4	.	.	Atlas-SNP
TMC8	147138	hgsc.bcm.edu	hg19	17	76129505	76129505	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	TMC8	NM_152468	exon6	c.C550A	p.L184I	ACCTATCTCTTCT	.	68.0	21.0	72.0	0.0	.	44	.	.	Atlas-SNP
EPB41L3	23136	hgsc.bcm.edu	hg19	18	5434095	5434095	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	EPB41L3	NM_012307	exon7	c.G631C	p.D211H	TGTCATCTCGCAA	.	150.0	7.0	163.0	0.0	.	222	.	.	Atlas-SNP
ANKRD29	147463	hgsc.bcm.edu	hg19	18	21197723	21197723	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	ANKRD29	NM_173505	exon8	c.A696T	p.K232N	TGAGAATTTAAGC	.	138.0	34.0	92.0	0.0	.	24	.	.	Atlas-SNP
DSEL	92126	hgsc.bcm.edu	hg19	18	65179555	65179555	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	DSEL	NM_032160	exon2	c.T2321C	p.I774T	AAAATAATCCTAT	.	114.0	39.0	95.0	0.0	.	196	.	.	Atlas-SNP
THAP8	199745	hgsc.bcm.edu	hg19	19	36530605	36530605	+	Nonsense_Mutation	SNP	G	G	A	rs201068048	bycluster	TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	THAP8	NM_152658	exon3	c.C292T	p.R98X	TGCTTCGGGTCCT	.	122.0	40.0	88.0	0.0	.	11	.	.	Atlas-SNP
SYMPK	8189	hgsc.bcm.edu	hg19	19	46332347	46332347	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	SYMPK,NS,carcinoma,0,1	SYMPK	NM_004819	exon14	c.G1866T	p.W622C	GTAGAGCCAGGCG	.	213.0	66.0	148.0	1.0	.	104	.	.	Atlas-SNP
PRR12	57479	hgsc.bcm.edu	hg19	19	50119403	50119403	+	Silent	SNP	C	C	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	PRR12	NM_020719	exon9	c.C5424T	p.N1808N	CGGCAACGCTACA	.	310.0	84.0	217.0	0.0	.	157	.	.	Atlas-SNP
ACPT	93650	hgsc.bcm.edu	hg19	19	51293729	51293729	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	ACPT,NS,carcinoma,0,1	ACPT	NM_033068	exon1	c.C58G	p.L20V	CTGCTGCTGGTGC	.	87.0	4.0	66.0	0.0	.	43	.	.	Atlas-SNP
SIGLECL1	284369	hgsc.bcm.edu	hg19	19	51769106	51769106	+	Missense_Mutation	SNP	C	C	T	rs149546733	bycluster	TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	C19orf75,rectum,carcinoma,0,1	.	NM_173635	exon4	c.C380T	p.A127V	TAATTGCGCTGCT	.	89.0	19.0	98.0	0.0	.	.	.	C|1.000;T|0.000	Atlas-SNP
CECR6	27439	hgsc.bcm.edu	hg19	22	17600295	17600295	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	CECR6	NM_031890	exon1	c.G1723C	p.A575P	GAGAGGCCACAGC	.	131.0	49.0	93.0	0.0	.	11	.	.	Atlas-SNP
PRR5	55615	hgsc.bcm.edu	hg19	22	45132983	45132983	+	Silent	SNP	C	C	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	PRR5	NM_001198721	exon10	c.C1092T	p.P364P	CCTGCCCCGCTCC	.	133.0	45.0	107.0	0.0	.	75	.	.	Atlas-SNP
TBC1D22A	25771	hgsc.bcm.edu	hg19	22	47193446	47193446	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	TBC1D22A	NM_014346	exon4	c.C566T	p.A189V	GCTCAGCGCTGAG	.	220.0	59.0	220.0	0.0	.	54	.	.	Atlas-SNP
OFD1	8481	hgsc.bcm.edu	hg19	X	13778504	13778504	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	OFD1	NM_003611	exon16	c.C1925G	p.A642G	AAGAGGCCGAACG	.	110.0	67.0	101.0	0.0	.	109	.	.	Atlas-SNP
CXorf64	100130613	hgsc.bcm.edu	hg19	X	125954737	125954737	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	.	NM_001122716	exon2	c.C116G	p.S39C	TGAGTTCCAAGCC	.	216.0	57.0	127.0	0.0	.	.	.	.	Atlas-SNP
ND1	10625	hgsc.bcm.edu	hg19	MT	3898	3898	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	.	ENST00000361390	exon1	c.T592C	p.F198L	ACCCCCTTCGACC	.	41.0	7.0	48.0	0.0	.	.	.	.	Atlas-SNP
ND1	10625	hgsc.bcm.edu	hg19	MT	3946	3946	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	.	ENST00000361390	exon1	c.G640A	p.E214K	AACATCGAATACG	.	45.0	18.0	41.0	0.0	.	.	.	.	Atlas-SNP
ND3	0	hgsc.bcm.edu	hg19	MT	10167	10167	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	.	ENST00000361227	exon1	c.T109C	p.Y37H	ACCCCTTACGAGT	.	26.0	5.0	40.0	0.0	.	.	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7577153	7577153	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	TP53_ENST00000455263,NS,carcinoma,-1,2	TP53	NM_001126112	exon8	c.786delT	p.G262fs	.	.	72.0	28.0	78.0	0.0	.	33396	.	.	Atlas-Indel,Pindel
ZNF254	9534	hgsc.bcm.edu	hg19	19	24309680	24309681	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	ZNF254	NM_203282	exon4	c.877_878del	p.293_293del	.	.	183.0	17.0	159.0	0.0	.	88	.	.	Atlas-INDEL
MANEA	79694	hgsc.bcm.edu	hg19	6	96034580	96034584	+	Frame_Shift_Del	DEL	TCTGA	TCTGA	-	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	TCTGA	TCTGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	MANEA	NM_024641	exon2	c.264_268del	p.88_90del	.	.	112.0	18.0	119.0	0.0	.	58	.	.	Atlas-INDEL
ST14	6768	hgsc.bcm.edu	hg19	11	130079716	130079716	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	ST14	NM_021978	exon19	c.2565delA	p.V855fs	.	.	89.0	21.0	55.0	0.0	.	82	.	.	Atlas-Indel,Pindel
AXIN1	8312	hgsc.bcm.edu	hg19	16	364646	364647	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	AXIN1	NM_003502	exon3	c.916_917insT	p.V306fs	.	.	59.0	30.0	53.0	0.0	.	290	.	.	Atlas-Indel,Pindel
MANEA	79694	hgsc.bcm.edu	hg19	6	96034593	96034595	+	In_Frame_Del	DEL	TGG	TGG	-	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	TGG	TGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	MANEA	NM_024641	exon2	c.277_279del	p.93_93del	.	.	97.0	18.0	122.0	0.0	.	58	.	.	Atlas-INDEL
VCX2	51480	hgsc.bcm.edu	hg19	X	8138182	8138182	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	VCX2	NM_016378	exon3	c.312delG	p.L104fs	.	.	166.0	11.0	138.0	0.0	.	16	.	.	Atlas-INDEL
MANEA	79694	hgsc.bcm.edu	hg19	6	96034587	96034590	+	Frame_Shift_Del	DEL	TTAA	TTAA	-	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	TTAA	TTAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	MANEA	NM_024641	exon2	c.271_274del	p.91_92del	.	.	108.0	18.0	121.0	0.0	.	58	.	.	Atlas-INDEL
PLEC	5339	hgsc.bcm.edu	hg19	8	144990483	144990518	+	In_Frame_Del	DEL	GCGGGAGCCGGCCCGGGAGCCGGTGCGCGAGCCGGT	GCGGGAGCCGGCCCGGGAGCCGGTGCGCGAGCCGGT	-	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	GCGGGAGCCGGCCCGGGAGCCGGTGCGCGAGCCGGT	GCGGGAGCCGGCCCGGGAGCCGGTGCGCGAGCCGGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	PLEC	NM_201380	exon32	c.13883_13918del	p.4628_4640del	.	.	173.0	32.0	104.0	0.0	.	1144	.	.	Atlas-Indel,Pindel
AGL	178	hgsc.bcm.edu	hg19	1	100381999	100382000	+	Frame_Shift_Del	DEL	AT	AT	-	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	AGL	NM_000644	exon32	c.4292_4293del	p.1431_1431del	.	.	434.0	141.0	352.0	0.0	.	137	.	.	Atlas-Indel,Pindel
IARS	3376	hgsc.bcm.edu	hg19	9	95007263	95007270	+	Frame_Shift_Del	DEL	AATTGCGC	AATTGCGC	-	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	AATTGCGC	AATTGCGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	IARS	NM_002161	exon27	c.2876_2883del	p.959_961del	.	.	103.0	13.0	106.0	0.0	.	74	.	.	Pindel
MANEA	79694	hgsc.bcm.edu	hg19	6	96034580	96034596	+	Frame_Shift_Del	DEL	TCTGAACTTAACTTGGA	TCTGAACTTAACTTGGA	-	novel		TCGA-G3-AAV7-01A-11D-A382-10	TCGA-G3-AAV7-10A-01D-A385-10	TCTGAACTTAACTTGGA	TCTGAACTTAACTTGGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	7a120ba7-e59d-48f3-9e72-4b0466e25e4c	07777f2e-37eb-4fc2-9804-a93484b12424	.	MANEA	NM_024641	exon2	c.264_280del	p.88_94del	.	.	110.0	24.0	123.0	0.0	.	58	.	.	Pindel
