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	TVarRat	NVarRat	dbSNP_Strength	dbSNP_AF	dbSNP_PopFreq	Confidence	Algorithm
SCMH1	22955	hgsc.bcm.edu	hg19	1	41503104	41503104	+	Silent	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SCMH1	NM_001172219	exon13	c.C1608T	p.H536H	GGGCCGGTGCCTT	.	181.0	24.0	225.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
PTGFR	5737	hgsc.bcm.edu	hg19	1	78959187	78959187	+	Silent	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	PTGFR_ENST00000370758,rectum,carcinoma,0,4	PTGFR	NM_000959	exon2	c.G759A	p.A253A	CCTGGCGATAATG	.	127.0	17.0	153.0	0.0	.	121	.	.	.	none	.	.	PASS	Atlas-SNP
PEX19	5824	hgsc.bcm.edu	hg19	1	160253370	160253370	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PEX19	NM_002857	exon2	c.G130A	p.A44T	CAGGGGCCGTGGT	.	200.0	27.0	186.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
SPHKAP	80309	hgsc.bcm.edu	hg19	2	228882137	228882137	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SPHKAP	NM_030623	exon7	c.G3433A	p.E1145K	GTAACTCAAATCC	.	157.0	25.0	121.0	0.0	.	750	.	.	.	none	.	.	PASS	Atlas-SNP
OXSM	54995	hgsc.bcm.edu	hg19	3	25832524	25832524	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	OXSM	NM_017897	exon2	c.C13A	p.L5M	AACTGCCTGCAAA	.	196.0	36.0	278.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
PROS1	5627	hgsc.bcm.edu	hg19	3	93624723	93624723	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PROS1	NM_000313	exon6	c.G506C	p.G169A	CAACCTCCATTTA	.	287.0	47.0	268.0	0.0	.	126	.	.	.	none	.	.	PASS	Atlas-SNP
GPBP1	65056	hgsc.bcm.edu	hg19	5	56542173	56542173	+	Silent	SNP	T	T	A	rs371740495	alternate_allele	TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	GPBP1	NM_001127236	exon6	c.T546A	p.I182I	GGTCATTAAGAAA	.	68.0	10.0	124.0	0.0	.	51	.	.	.	alt	.	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	hg19	5	140188710	140188710	+	Silent	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PCDHA4	NM_031500	exon1	c.C1938T	p.R646R	CCACCGCCTACTG	.	345.0	50.0	156.0	0.0	.	419	.	.	.	none	.	.	PASS	Atlas-SNP
ARSI	340075	hgsc.bcm.edu	hg19	5	149677875	149677875	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	ARSI	NM_001012301	exon2	c.C612A	p.S204R	CTGGCCGCTGAGC	.	92.0	4.0	47.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
NOD1	10392	hgsc.bcm.edu	hg19	7	30472766	30472766	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	NOD1	NM_006092	exon12	c.T2651C	p.V884A	TCTGCCACTTCAT	.	44.0	8.0	125.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
CUEDC2	79004	hgsc.bcm.edu	hg19	10	104184514	104184514	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	CUEDC2	NM_024040	exon3	c.G110A	p.G37E	AGGACCCCAAGCA	.	216.0	30.0	106.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
SORCS3	22986	hgsc.bcm.edu	hg19	10	107022222	107022222	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	SORCS3,NS,carcinoma,0,1	SORCS3	NM_014978	exon26	c.G3577C	p.D1193H	CTGCTGGACAAAG	.	27.0	2.0	122.0	0.0	.	282	.	.	.	none	.	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	hg19	11	1104253	1104253	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	MUC2	NM_002457	exon50	c.G8432A	p.G2811E	ATCTGGGGAGCGG	.	111.0	17.0	36.0	0.0	.	614	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP5-5	439915	hgsc.bcm.edu	hg19	11	1651483	1651483	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	KRTAP5-5,NS,carcinoma,0,2	KRTAP5-5	NM_001001480	exon1	c.G413C	p.G138A	AGGGGGGCTGTGG	.	221.0	11.0	105.0	1.0	.	86	.	.	.	none	.	.	PASS	Atlas-SNP
MRGPRX3	117195	hgsc.bcm.edu	hg19	11	18159638	18159638	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	MRGPRX3	NM_054031	exon3	c.G889A	p.D297N	CTGCAGGACACGC	.	168.0	10.0	132.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
SNX15	29907	hgsc.bcm.edu	hg19	11	64802325	64802325	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SNX15	NM_147777	exon4	c.T263G	p.F88C	GCCGGTTTGAAGC	.	237.0	27.0	123.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
BIRC3	330	hgsc.bcm.edu	hg19	11	102206814	102206814	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	BIRC3	NM_001165	exon7	c.T1442G	p.V481G	ATGATGTTATTAA	.	63.0	12.0	243.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
OR8G5	219865	hgsc.bcm.edu	hg19	11	124135727	124135727	+	Silent	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	.	NM_001005198	exon1	c.C1005T	p.A335A	CGTTGCCCTGAAG	.	46.0	11.0	87.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
PKNOX2	63876	hgsc.bcm.edu	hg19	11	125280693	125280693	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PKNOX2	NM_022062	exon9	c.C737T	p.P246L	ACCAACCGGTTAC	.	137.0	27.0	110.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
WNK1	65125	hgsc.bcm.edu	hg19	12	978188	978188	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	WNK1	NM_213655	exon10	c.T3551A	p.F1184Y	CACTTTTCTTCTG	.	315.0	51.0	735.0	1.0	.	403	.	.	.	none	.	.	PASS	Atlas-SNP
CD27	939	hgsc.bcm.edu	hg19	12	6554287	6554287	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	CD27	NM_001242	exon1	c.T26A	p.L9Q	GGTGGCTGTGCGT	.	41.0	6.0	25.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
SOX5	6660	hgsc.bcm.edu	hg19	12	24102509	24102509	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SOX5	NM_006940	exon1	c.G27C	p.Q9H	AAACTCCTGAGGT	.	98.0	17.0	140.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
SRGAP1	57522	hgsc.bcm.edu	hg19	12	64377805	64377805	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SRGAP1	NM_020762	exon2	c.T146A	p.L49Q	AGGATCTGCAAGA	.	86.0	12.0	207.0	0.0	.	146	.	.	.	none	.	.	PASS	Atlas-SNP
METTL17	64745	hgsc.bcm.edu	hg19	14	21464719	21464719	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	METTL17	NM_022734	exon13	c.G1114T	p.V372L	TCTATGGTGATCC	.	164.0	25.0	171.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
NID2	22795	hgsc.bcm.edu	hg19	14	52485956	52485956	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	NID2	NM_007361	exon14	c.T2851G	p.Y951D	AGGCATACTGGGC	.	103.0	27.0	74.0	0.0	.	201	.	.	.	none	.	.	PASS	Atlas-SNP
KNSTRN	90417	hgsc.bcm.edu	hg19	15	40685795	40685795	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	.	NM_033286	exon9	c.G948T	p.M316I	AGAAATGTAAGAA	.	90.0	18.0	97.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
RAB27A	5873	hgsc.bcm.edu	hg19	15	55516128	55516128	+	Silent	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	RAB27A	NM_183235	exon6	c.A426T	p.V142V	TTTCACTACTCTC	.	91.0	12.0	447.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
TMC7	79905	hgsc.bcm.edu	hg19	16	19073098	19073098	+	Splice_Site	SNP	A	A	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	TMC7	NM_024847	exon16	c.2107-2A>T	.	TTTTTTAGGAAAG	.	90.0	13.0	83.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	hg19	16	21080893	21080893	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	DNAH3_ENST00000261383,NS,carcinoma,-1,2	DNAH3	NM_017539	exon23	c.G3224A	p.R1075H	TGTATGCGAATTA	.	96.0	14.0	176.0	0.0	.	1142	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM107	84314	hgsc.bcm.edu	hg19	17	8079579	8079579	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	TMEM107	NM_183065	exon1	c.C26A	p.P9H	CGAGAGGGCACAA	.	159.0	21.0	84.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM106A	113277	hgsc.bcm.edu	hg19	17	41365849	41365849	+	Silent	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	TMEM106A	NM_145041	exon4	c.C214T	p.L72L	CTAGAGCTGGAGA	.	165.0	17.0	108.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
ME2	4200	hgsc.bcm.edu	hg19	18	48442562	48442562	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	ME2	NM_001168335	exon5	c.C417G	p.D139E	CTCAGACAGAGGT	.	38.0	4.0	234.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
ACSBG2	81616	hgsc.bcm.edu	hg19	19	6177251	6177251	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	ACSBG2,NS,carcinoma,0,4	ACSBG2	NM_030924	exon8	c.T750G	p.I250M	GTGGATTGCAGGA	.	36.0	6.0	82.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
APLP1	333	hgsc.bcm.edu	hg19	19	36362560	36362560	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	APLP1	NM_005166	exon5	c.T584A	p.L195X	TGCTCTTACCCTG	.	345.0	57.0	155.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF585B	92285	hgsc.bcm.edu	hg19	19	37678072	37678072	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	ZNF585B	NM_152279	exon5	c.A367T	p.I123F	AATAAATTTTTTG	.	88.0	9.0	174.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
CSE1L	1434	hgsc.bcm.edu	hg19	20	47675025	47675025	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	CSE1L	NM_001256135	exon2	c.C25A	p.Q9K	AATCTGCAAACAC	.	234.0	24.0	173.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF512B	57473	hgsc.bcm.edu	hg19	20	62598870	62598870	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	ZNF512B	NM_020713	exon3	c.C128T	p.P43L	ACCACCGGCATCC	.	417.0	69.0	198.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
COL4A6	1288	hgsc.bcm.edu	hg19	X	107433650	107433650	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	COL4A6	NM_001847	exon20	c.A1401C	p.K467N	GTTTCCTTTTGGA	.	99.0	38.0	179.0	0.0	.	270	.	.	.	none	.	.	PASS	Atlas-SNP
LAMB2	3913	hgsc.bcm.edu	hg19	3	49167097	49167098	+	Frame_Shift_Del	DEL	GG	GG	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	GG	GG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	LAMB2	NM_002292	exon11	c.1458_1459del	p.486_487del	.	.	127.0	12.0	92.0	0.0	.	156	.	0.0944882	0	none	.	.	PASS	Atlas-INDEL
KIAA1967	57805	hgsc.bcm.edu	hg19	8	22474942	22474942	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	KIAA1967	NM_021174	exon15	c.1854delT	p.D618fs	.	.	678.0	97.0	332.0	0.0	.	72	.	0.143068	0	none	.	.	PASS	Atlas-INDEL
BAP1	8314	hgsc.bcm.edu	hg19	3	52437889	52437889	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	BAP1	NM_004656	exon13	c.1273delA	p.K425fs	.	.	333.0	62.0	158.0	0.0	.	371	.	0.186186	0	none	.	.	PASS	Atlas-INDEL
VHL	7428	hgsc.bcm.edu	hg19	3	10188203	10188204	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	VHL,colon,carcinoma,-1,3	VHL	NM_000551	exon2	c.346_347insT	p.L116fs	.	.	443.0	81.0	308.0	0.0	.	2192	.	0.182844	0	none	.	.	PASS	Atlas-INDEL
SLC25A42	284439	hgsc.bcm.edu	hg19	19	19221630	19221630	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SLC25A42	NM_178526	exon8	c.901delA	p.I301fs	.	.	198.0	24.0	106.0	0.0	.	18	.	0.121212	0	none	.	.	PASS	Atlas-INDEL
PHB	5245	hgsc.bcm.edu	hg19	17	47486482	47486483	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PHB	NM_002634	exon5	c.432_433del	p.144_145del	.	.	137.0	17.0	77.0	0.0	.	25	.	0.124088	0	none	.	.	PASS	Atlas-INDEL
