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
EPHA2	1969	hgsc.bcm.edu	hg19	1	16464471	16464471	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	EPHA2	NM_004431	exon5	c.G1189A	p.V397M	CTGTCACACTGGT	.	52.0	7.0	81.0	0.0	.	102	.	.	Atlas-SNP
NBL1	4681	hgsc.bcm.edu	hg19	1	19972500	19972500	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	NBL1	NM_001204086	exon1	c.T56G	p.F19C	GACTGTTTTTCGT	.	77.0	8.0	94.0	0.0	.	21	.	.	Atlas-SNP
INADL	10207	hgsc.bcm.edu	hg19	1	62232108	62232108	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	INADL	NM_176877	exon4	c.A347G	p.N116S	TGGGAAATGAAGA	.	73.0	22.0	78.0	0.0	.	179	.	.	Atlas-SNP
CHIA	27159	hgsc.bcm.edu	hg19	1	111854972	111854972	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	CHIA	NM_201653	exon4	c.T216G	p.N72K	ATGGAATGATGTG	.	105.0	16.0	94.0	0.0	.	115	.	.	Atlas-SNP
ZNF687	57592	hgsc.bcm.edu	hg19	1	151258832	151258832	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	ZNF687	NM_020832	exon2	c.A65G	p.D22G	ACATTGATGCGAA	.	85.0	13.0	89.0	0.0	.	94	.	.	Atlas-SNP
CD1B	910	hgsc.bcm.edu	hg19	1	158299379	158299379	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	CD1B	NM_001764	exon4	c.G667A	p.V223M	GGCACACAAGCTG	.	141.0	7.0	157.0	0.0	.	78	.	.	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	hg19	1	158585118	158585118	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	SPTA1,caecum,carcinoma,0,2	SPTA1	NM_003126	exon48	c.G6676A	p.A2226T	TCAGAGCGTCTTC	.	122.0	16.0	111.0	0.0	.	720	.	.	Atlas-SNP
ATP1A4	480	hgsc.bcm.edu	hg19	1	160128807	160128807	+	Silent	SNP	C	C	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	ATP1A4	NM_144699	exon5	c.C541A	p.R181R	GTAATTCGAGGAG	.	125.0	48.0	133.0	0.0	.	167	.	.	Atlas-SNP
C1orf114	57821	hgsc.bcm.edu	hg19	1	169391306	169391306	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	C1orf114	NM_021179	exon3	c.G363C	p.E121D	TACTTCCTCATCC	.	98.0	9.0	97.0	0.0	.	67	.	.	Atlas-SNP
NR5A2	2494	hgsc.bcm.edu	hg19	1	200008803	200008803	+	Silent	SNP	C	C	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	NR5A2	NM_205860	exon2	c.T82T	p.C28C	CCGGACCGACACG	.	191.0	51.0	169.0	0.0	.	83	.	.	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	hg19	1	215848027	215848027	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	USH2A,NS,malignant_melanoma,0,1	USH2A	NM_206933	exon63	c.C13226T	p.S4409F	AGGTGGGAAACCA	.	94.0	29.0	61.0	0.0	.	1168	.	.	Atlas-SNP
BIRC6	57448	hgsc.bcm.edu	hg19	2	32750591	32750591	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	BIRC6	NM_016252	exon59	c.G11816A	p.R3939K	CCAGGAGGGGGAG	.	165.0	9.0	158.0	0.0	.	838	.	.	Atlas-SNP
FER1L5	90342	hgsc.bcm.edu	hg19	2	97357320	97357320	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	FER1L5,caecum,carcinoma,0,1	FER1L5	NM_001113382	exon28	c.G3025A	p.A1009T	GGCATCGCGCCCA	.	165.0	21.0	186.0	0.0	.	113	.	.	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	hg19	2	141473604	141473604	+	Silent	SNP	A	A	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	LRP1B,colon,carcinoma,-2,2	LRP1B	NM_018557	exon37	c.T5961C	p.R1987R	TACATAACGGAAA	.	253.0	11.0	226.0	1.0	.	1315	.	.	Atlas-SNP
NFE2L2	4780	hgsc.bcm.edu	hg19	2	178098806	178098806	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	NFE2L2,NS,carcinoma,0,8	NFE2L2	NM_006164	exon2	c.C239T	p.T80I	TCACCTGTCTCTT	.	76.0	24.0	58.0	0.0	.	225	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179436587	179436587	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	TTN	NM_001267550	exon326	c.C74272T	p.Q24758X	TTGTCTGCTTCAG	.	124.0	39.0	131.0	0.0	.	18412	.	.	Atlas-SNP
PAX3	5077	hgsc.bcm.edu	hg19	2	223086027	223086027	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	PAX3	NM_181457	exon6	c.C872A	p.P291H	CCCCCGGGAATGA	.	161.0	26.0	142.0	0.0	.	106	.	.	Atlas-SNP
ATG16L1	55054	hgsc.bcm.edu	hg19	2	234173607	234173607	+	Silent	SNP	T	T	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	ATG16L1	NM_017974	exon5	c.T459C	p.C153C	GCTTTGTGACCTT	.	128.0	17.0	137.0	0.0	.	83	.	.	Atlas-SNP
GRM7	2917	hgsc.bcm.edu	hg19	3	6903173	6903173	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	GRM7,NS,carcinoma,0,1	GRM7	NM_000844	exon1	c.G98A	p.R33H	CGGCGCGCGGCCA	.	114.0	12.0	118.0	0.0	.	223	.	.	Atlas-SNP
TOPAZ1	375337	hgsc.bcm.edu	hg19	3	44362676	44362676	+	Silent	SNP	T	T	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	.	NM_001145030	exon17	c.T4464C	p.N1488N	TCAAAATTCCCAA	.	92.0	26.0	98.0	0.0	.	.	.	.	Atlas-SNP
CNBP	7555	hgsc.bcm.edu	hg19	3	128889414	128889414	+	Splice_Site	SNP	C	C	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	CNBP	NM_003418	exon6	c.417-1G>A	.	CCACACCTAAAAA	.	107.0	12.0	118.0	0.0	.	12	.	.	Atlas-SNP
C3orf79	152118	hgsc.bcm.edu	hg19	3	153220256	153220256	+	Silent	SNP	T	T	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	C3orf79	NM_001101337	exon3	c.T288C	p.D96D	AACAGATGCCAGT	.	102.0	13.0	82.0	0.0	.	13	.	.	Atlas-SNP
ACAP2	23527	hgsc.bcm.edu	hg19	3	195029516	195029516	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	ACAP2	NM_012287	exon11	c.A908T	p.K303M	CCTACCTTAAATT	.	98.0	8.0	119.0	0.0	.	72	.	.	Atlas-SNP
WDR19	57728	hgsc.bcm.edu	hg19	4	39229946	39229946	+	Silent	SNP	C	C	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	WDR19	NM_025132	exon16	c.C1746T	p.Y582Y	GGTGTACACTTAT	.	119.0	14.0	118.0	0.0	.	96	.	.	Atlas-SNP
ODAM	54959	hgsc.bcm.edu	hg19	4	71063815	71063815	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	ODAM	NM_017855	exon4	c.G316T	p.G106C	CAGGCAGGCCAAG	.	102.0	9.0	105.0	0.0	.	38	.	.	Atlas-SNP
SEC24D	9871	hgsc.bcm.edu	hg19	4	119653989	119653989	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	SEC24D	NM_014822	exon20	c.C2575G	p.P859A	TCTCTGGTCTGCT	.	135.0	43.0	142.0	0.0	.	96	.	.	Atlas-SNP
SLC25A31	83447	hgsc.bcm.edu	hg19	4	128651788	128651788	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	SLC25A31	NM_031291	exon1	c.G88A	p.A30T	GGAGTCGCGGCAG	.	226.0	46.0	213.0	0.0	.	42	.	.	Atlas-SNP
MAML3	55534	hgsc.bcm.edu	hg19	4	140811125	140811125	+	Missense_Mutation	SNP	G	G	T	rs62344940		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	MAML3	NM_018717	exon2	c.C1465A	p.Q489K	GCTGTTGCTGTTG	.	59.0	8.0	55.0	0.0	.	192	.	.	Atlas-SNP
FGB	2244	hgsc.bcm.edu	hg19	4	155487708	155487708	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	FGB	NM_005141	exon3	c.A374G	p.N125S	TCAGAAATAGTGT	.	135.0	22.0	137.0	0.0	.	71	.	.	Atlas-SNP
PAPD7	11044	hgsc.bcm.edu	hg19	5	6753104	6753104	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	PAPD7	NM_001171805	exon12	c.C1388A	p.P463H	CCATTCCCTCAGC	.	122.0	7.0	118.0	0.0	.	69	.	.	Atlas-SNP
CARD6	84674	hgsc.bcm.edu	hg19	5	40852639	40852639	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	CARD6	NM_032587	exon3	c.A1205C	p.Q402P	AGTGCCAGTTTGC	.	98.0	30.0	98.0	0.0	.	141	.	.	Atlas-SNP
C5orf51	285636	hgsc.bcm.edu	hg19	5	41912232	41912232	+	Nonsense_Mutation	SNP	T	T	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	C5orf51	NM_175921	exon5	c.T548G	p.L183X	TCCAGTTAAATGA	.	56.0	6.0	59.0	0.0	.	28	.	.	Atlas-SNP
PDE8B	8622	hgsc.bcm.edu	hg19	5	76722294	76722294	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	PDE8B	NM_003719	exon22	c.T2573A	p.M858K	CCCTGATGCAACA	.	199.0	8.0	171.0	0.0	.	103	.	.	Atlas-SNP
PCDHB6	56130	hgsc.bcm.edu	hg19	5	140532159	140532159	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	PCDHB6	NM_018939	exon1	c.C2321T	p.P774L	TCCCTCCTCAGGG	.	216.0	27.0	191.0	0.0	.	161	.	.	Atlas-SNP
PCDHGB1	56104	hgsc.bcm.edu	hg19	5	140731361	140731361	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	PCDHGB1_ENST00000523390,NS,carcinoma,0,2	PCDHGB1	NM_018922	exon1	c.G1534A	p.A512T	GTGTTCGCGCAGC	.	68.0	5.0	100.0	0.0	.	198	.	.	Atlas-SNP
CYFIP2	26999	hgsc.bcm.edu	hg19	5	156819926	156819926	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	CYFIP2	NM_001037332	exon31	c.C3680A	p.S1227Y	TGAAGTCCGTGGA	.	78.0	14.0	86.0	0.0	.	354	.	.	Atlas-SNP
HIST1H3J	8356	hgsc.bcm.edu	hg19	6	27858205	27858205	+	Silent	SNP	A	A	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	HIST1H3J	NM_003535	exon1	c.T366G	p.P122P	GTCCTTAGGCATA	.	109.0	38.0	108.0	0.0	.	16	.	.	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	hg19	6	51491853	51491853	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	PKHD1	NM_138694	exon66	c.C11727G	p.I3909M	GGATGAGATGTGG	.	89.0	34.0	130.0	0.0	.	927	.	.	Atlas-SNP
EPHA7	2045	hgsc.bcm.edu	hg19	6	93967865	93967865	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	EPHA7	NM_004440	exon11	c.C2062T	p.Q688X	CAAACTGCCCCAT	.	46.0	17.0	64.0	0.0	.	251	.	.	Atlas-SNP
TRDN	10345	hgsc.bcm.edu	hg19	6	123658784	123658784	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	TRDN	NM_006073	exon22	c.C1400T	p.S467F	ATTGAAGAAGTCT	.	178.0	30.0	205.0	0.0	.	88	.	.	Atlas-SNP
VWDE	221806	hgsc.bcm.edu	hg19	7	12409710	12409710	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	VWDE	NM_001135924	exon12	c.A2222G	p.E741G	CTCATTTCTTGGC	.	110.0	29.0	109.0	0.0	.	123	.	.	Atlas-SNP
C7orf10	79783	hgsc.bcm.edu	hg19	7	40174633	40174633	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	C7orf10	NM_001193313	exon1	c.T35A	p.L12Q	CGACGCTGGCGAG	.	165.0	25.0	176.0	0.0	.	99	.	.	Atlas-SNP
C7orf25	79020	hgsc.bcm.edu	hg19	7	42949520	42949520	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	C7orf25	NM_001099858	exon2	c.C1154T	p.A385V	ACAGTGGCCCTCT	.	173.0	15.0	190.0	0.0	.	36	.	.	Atlas-SNP
GIMAP1	170575	hgsc.bcm.edu	hg19	7	150417974	150417974	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	GIMAP1	NM_130759	exon3	c.G882T	p.R294S	CCACAGGCGGTGG	.	85.0	28.0	85.0	0.0	.	61	.	.	Atlas-SNP
MYBL1	4603	hgsc.bcm.edu	hg19	8	67478976	67478976	+	Silent	SNP	A	A	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	MYBL1	NM_001080416	exon14	c.T1893C	p.N631N	TTCCCAATTATCT	.	151.0	59.0	100.0	0.0	.	73	.	.	Atlas-SNP
SLCO5A1	81796	hgsc.bcm.edu	hg19	8	70674091	70674091	+	Silent	SNP	T	T	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	SLCO5A1	NM_030958	exon3	c.A927T	p.G309G	AAGTGCTCCCATG	.	101.0	22.0	69.0	0.0	.	142	.	.	Atlas-SNP
VPS13B	157680	hgsc.bcm.edu	hg19	8	100287443	100287443	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	VPS13B	NM_152564	exon19	c.A2785G	p.I929V	TTCACAATCCAAG	.	122.0	11.0	96.0	0.0	.	811	.	.	Atlas-SNP
ROR2	4920	hgsc.bcm.edu	hg19	9	94493238	94493238	+	Silent	SNP	C	C	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	ROR2	NM_004560	exon7	c.G1137A	p.T379T	ATTCTGCGTAAAG	.	99.0	23.0	132.0	0.0	.	167	.	.	Atlas-SNP
TNC	3371	hgsc.bcm.edu	hg19	9	117853261	117853261	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	TNC	NM_002160	exon2	c.C37A	p.L13I	AAGCAAGAAAGAC	.	49.0	10.0	33.0	0.0	.	282	.	.	Atlas-SNP
SLC2A6	11182	hgsc.bcm.edu	hg19	9	136340120	136340120	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	SLC2A6	NM_017585	exon6	c.A890G	p.Y297C	TGCAGGTAGACCA	.	89.0	4.0	127.0	0.0	.	31	.	.	Atlas-SNP
ARMC4	55130	hgsc.bcm.edu	hg19	10	28228827	28228827	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	ARMC4	NM_018076	exon14	c.A2096G	p.Q699R	TGCACCTGGTAAA	.	72.0	13.0	77.0	0.0	.	177	.	.	Atlas-SNP
VTI1A	143187	hgsc.bcm.edu	hg19	10	114298012	114298012	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	VTI1A	NM_145206	exon5	c.A350T	p.H117L	GGGCACATCTGCT	.	350.0	53.0	485.0	0.0	.	15	.	.	Atlas-SNP
OR5F1	338674	hgsc.bcm.edu	hg19	11	55761610	55761610	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	OR5F1	NM_003697	exon1	c.C492A	p.S164R	CAAGCTGCTGACA	.	144.0	38.0	142.0	0.0	.	116	.	.	Atlas-SNP
TMPRSS13	84000	hgsc.bcm.edu	hg19	11	117789435	117789435	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	TMPRSS13	NM_001206790	exon2	c.C140A	p.A47D	GTCCCAGCTGGAG	.	95.0	4.0	69.0	0.0	.	75	.	.	Atlas-SNP
HSPA8	3312	hgsc.bcm.edu	hg19	11	122929825	122929825	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	HSPA8	NM_006597	exon6	c.C1265A	p.T422N	TGCTTGGTAGGAA	.	150.0	46.0	165.0	0.0	.	168	.	.	Atlas-SNP
IFLTD1	160492	hgsc.bcm.edu	hg19	12	25679068	25679068	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	IFLTD1	NM_001145728	exon6	c.G763C	p.D255H	TACAATCAGGACT	.	99.0	32.0	66.0	0.0	.	121	.	.	Atlas-SNP
ANO6	196527	hgsc.bcm.edu	hg19	12	45814873	45814873	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	ANO6	NM_001204803	exon19	c.C2300T	p.T767M	CTTTCACGTCGGA	.	143.0	34.0	146.0	0.0	.	163	.	.	Atlas-SNP
RPL21	6144	hgsc.bcm.edu	hg19	13	27830355	27830355	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	RPL21	NM_000982	exon5	c.A277C	p.I93L	GTGCGTATTGAGC	.	170.0	32.0	196.0	0.0	.	12	.	.	Atlas-SNP
FOXO1	2308	hgsc.bcm.edu	hg19	13	41240285	41240285	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	FOXO1	NM_002015	exon1	c.C65G	p.S22W	GTGCACGAGCGCG	.	27.0	8.0	36.0	0.0	.	110	.	.	Atlas-SNP
RNASE6	6039	hgsc.bcm.edu	hg19	14	21250306	21250306	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	RNASE6	NM_005615	exon2	c.C448G	p.L150V	AGTATTCTCTAAG	.	107.0	31.0	107.0	0.0	.	7	.	.	Atlas-SNP
MKRN3	7681	hgsc.bcm.edu	hg19	15	23811290	23811290	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	MKRN3	NM_005664	exon1	c.C361G	p.L121V	CACGACCTTTCTG	.	106.0	11.0	83.0	0.0	.	155	.	.	Atlas-SNP
MYO5A	4644	hgsc.bcm.edu	hg19	15	52635319	52635319	+	Silent	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	MYO5A	NM_000259	exon31	c.C4035T	p.A1345A	CCTGTTGGCTTGT	.	90.0	12.0	74.0	0.0	.	145	.	.	Atlas-SNP
USP10	9100	hgsc.bcm.edu	hg19	16	84778402	84778402	+	Silent	SNP	T	T	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	USP10	NM_001272075	exon5	c.T327C	p.T109T	TATCACTAAAGAA	.	95.0	29.0	142.0	0.0	.	51	.	.	Atlas-SNP
CCT6B	10693	hgsc.bcm.edu	hg19	17	33267596	33267596	+	Silent	SNP	T	T	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	CCT6B	NM_006584	exon8	c.A930C	p.I310I	AGCTACTATTCCA	.	164.0	11.0	173.0	0.0	.	63	.	.	Atlas-SNP
C17orf66	256957	hgsc.bcm.edu	hg19	17	34182344	34182344	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	C17orf66,NS,carcinoma,0,1	C17orf66	NM_152781	exon15	c.T1436C	p.L479P	ACAGAGAGAACCT	.	96.0	25.0	95.0	1.0	.	57	.	.	Atlas-SNP
SOGA2	23255	hgsc.bcm.edu	hg19	18	8796353	8796353	+	Missense_Mutation	SNP	C	C	T	rs369991737		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	.	NM_015210	exon9	c.C2134T	p.R712W	GAGCTCCGGTCCT	.	138.0	7.0	150.0	0.0	.	.	.	.	Atlas-SNP
INSR	3643	hgsc.bcm.edu	hg19	19	7119538	7119538	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	INSR	NM_000208	exon21	c.G3716A	p.G1239D	GACAGGCCTTGGT	.	116.0	17.0	131.0	0.0	.	265	.	.	Atlas-SNP
MLL4	8085	hgsc.bcm.edu	hg19	19	36222961	36222961	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	MLL4,colon,carcinoma,0,3	MLL4	NM_014727	exon27	c.C5590T	p.R1864X	GGGGCTCGAATCA	.	68.0	17.0	69.0	0.0	.	229	.	.	Atlas-SNP
FBXO17	115290	hgsc.bcm.edu	hg19	19	39435635	39435635	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	FBXO17	NM_148169	exon5	c.C694T	p.Q232X	TCCACTGAAGGAC	.	103.0	10.0	106.0	0.0	.	42	.	.	Atlas-SNP
PSG9	5678	hgsc.bcm.edu	hg19	19	43766112	43766112	+	Nonsense_Mutation	SNP	A	A	T	rs139948336	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	PSG9	NM_002784	exon3	c.T609A	p.Y203X	AAATAGATAGAGG	.	102.0	23.0	89.0	0.0	.	77	.	A|0.999;G|0.001	Atlas-SNP
IRGQ	126298	hgsc.bcm.edu	hg19	19	44096253	44096253	+	Silent	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	IRGQ	NM_001007561	exon3	c.C1797T	p.G599G	CAGGACGCCGTGA	.	93.0	9.0	146.0	0.0	.	40	.	.	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	hg19	19	54744224	54744224	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	LILRA6	NM_024318	exon6	c.G1184T	p.R395M	TAGCACCTGTAGG	.	238.0	18.0	239.0	0.0	.	75	.	.	Atlas-SNP
TTLL9	164395	hgsc.bcm.edu	hg19	20	30510825	30510825	+	Silent	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	TTLL9	NM_001008409	exon8	c.G633A	p.Q211Q	GGCTCAGCGTTAC	.	103.0	7.0	81.0	0.0	.	95	.	.	Atlas-SNP
EDN3	1908	hgsc.bcm.edu	hg19	20	57876550	57876550	+	Silent	SNP	T	T	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	EDN3	NM_207034	exon2	c.T138C	p.C46C	GGACTGTGAAGAG	.	111.0	14.0	109.0	0.0	.	83	.	.	Atlas-SNP
TOP3B	8940	hgsc.bcm.edu	hg19	22	22314746	22314746	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	TOP3B	NM_003935	exon14	c.G1601A	p.R534Q	TTGAGCCGGCGCC	.	70.0	11.0	71.0	0.0	.	107	.	.	Atlas-SNP
TCF20	6942	hgsc.bcm.edu	hg19	22	42610966	42610966	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	TCF20	NM_181492	exon1	c.C346T	p.Q116X	AGCTCTGCACAGG	.	96.0	40.0	89.0	0.0	.	164	.	.	Atlas-SNP
TCF20	6942	hgsc.bcm.edu	hg19	22	42610967	42610967	+	Silent	SNP	C	C	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	TCF20	NM_181492	exon1	c.G345T	p.V115V	GCTCTGCACAGGC	.	97.0	40.0	89.0	0.0	.	164	.	.	Atlas-SNP
NHS	4810	hgsc.bcm.edu	hg19	X	17743756	17743756	+	Silent	SNP	A	A	G	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	NHS	NM_198270	exon6	c.A1467G	p.E489E	CCGGGAAGGTAAT	.	129.0	13.0	133.0	0.0	.	302	.	.	Atlas-SNP
CACNA1F	778	hgsc.bcm.edu	hg19	X	49065046	49065046	+	Silent	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	CACNA1F	NM_005183	exon43	c.C5085T	p.P1695P	ATCACTGGGCCCA	.	135.0	18.0	160.0	0.0	.	218	.	.	Atlas-SNP
PPP1R3F	89801	hgsc.bcm.edu	hg19	X	49126707	49126707	+	Silent	SNP	G	G	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	PPP1R3F	NM_033215	exon1	c.G375T	p.P125P	CGCGCCGGGCCGT	.	97.0	4.0	81.0	0.0	.	56	.	.	Atlas-SNP
BRWD3	254065	hgsc.bcm.edu	hg19	X	79971674	79971674	+	Silent	SNP	T	T	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	BRWD3	NM_153252	exon20	c.A2307G	p.P769P	GTAAGATGGCTTT	.	84.0	8.0	105.0	0.0	.	251	.	.	Atlas-SNP
TEX13A	56157	hgsc.bcm.edu	hg19	X	104464278	104464278	+	Splice_Site	SNP	A	A	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	TEX13A	NM_031274	exon5	c.598+1T>G	.	CCTCCAACATCCC	.	6.0	4.0	0.0	0.0	.	55	.	.	Atlas-SNP
LRCH2	57631	hgsc.bcm.edu	hg19	X	114357372	114357372	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	LRCH2	NM_020871	exon19	c.A2051G	p.H684R	CTTATATGATTGG	.	246.0	28.0	237.0	0.0	.	138	.	.	Atlas-SNP
TENM1	10178	hgsc.bcm.edu	hg19	X	123514879	123514879	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	.	NM_001163278	exon32	c.A7706G	p.N2569S	TGTAGGTTTTCCA	.	207.0	13.0	154.0	0.0	.	.	.	.	Atlas-SNP
PLXNA3	55558	hgsc.bcm.edu	hg19	X	153689565	153689565	+	Silent	SNP	C	C	T	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	PLXNA3	NM_017514	exon3	c.C721T	p.L241L	CTGACGCTGCAGC	.	107.0	14.0	131.0	0.0	.	156	.	.	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	12806	12806	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	.	ENST00000361567	exon1	c.G470A	p.W157X	TCAGTTGATGATA	.	58.0	5.0	40.0	0.0	.	.	.	.	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	13787	13787	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	.	ENST00000361567	exon1	c.T1451C	p.L484P	TCCCCCTCTACCT	.	63.0	10.0	35.0	0.0	.	.	.	.	Atlas-SNP
CDC42BPA	8476	hgsc.bcm.edu	hg19	1	227222368	227222369	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	CDC42BPA	NM_003607	exon25	c.3359_3360insG	p.V1120fs	.	.	54.0	15.0	52.0	0.0	.	528	.	.	Atlas-Indel,Pindel
NAV2	89797	hgsc.bcm.edu	hg19	11	20136228	20136228	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	NAV2	NM_001244963	exon39	c.7227delG	p.W2409fs	.	.	101.0	11.0	66.0	0.0	.	255	.	.	Atlas-INDEL
STBD1	8987	hgsc.bcm.edu	hg19	4	77231109	77231148	+	Frame_Shift_Del	DEL	GGCCATGAGGATAAAGTGGTTCACGCATGGTGGGGGATTC	GGCCATGAGGATAAAGTGGTTCACGCATGGTGGGGGATTC	-	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	GGCCATGAGGATAAAGTGGTTCACGCATGGTGGGGGATTC	GGCCATGAGGATAAAGTGGTTCACGCATGGTGGGGGATTC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	STBD1	NM_003943	exon2	c.1032_1071del	p.344_357del	.	.	23.0	10.0	32.0	0.0	.	22	.	.	Pindel
PAPLN	89932	hgsc.bcm.edu	hg19	14	73729359	73729404	+	Frame_Shift_Del	DEL	AAAGCCCTGGCCTTCTGGTGGTCTCTGGCGGCAAGACCAACAGCCT	AAAGCCCTGGCCTTCTGGTGGTCTCTGGCGGCAAGACCAACAGCCT	-	novel		TCGA-5R-AAAM-01A-12D-A40R-10	TCGA-5R-AAAM-10A-01D-A40U-10	AAAGCCCTGGCCTTCTGGTGGTCTCTGGCGGCAAGACCAACAGCCT	AAAGCCCTGGCCTTCTGGTGGTCTCTGGCGGCAAGACCAACAGCCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aba9aa4-9f40-456e-8aa4-fb9d20c57d93	bbe62607-8229-46d6-997d-47d1a49b89b0	.	PAPLN	NM_173462	exon18	c.2465_2510del	p.822_837del	.	.	126.0	18.0	128.0	0.0	.	180	.	.	Pindel
