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	TTotCov	TVarCov	NTotCov	NVarCov	TVarRat	NVarRat	dbSNP_AF	dbSNP_PopFreq	dbSNP_Strength	COSMIC_Codon	COSMIC_Gene	COSMIC_Gene_Freq	COSMIC_Site_Freq	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	Confidence	Algorithm
MLL2	8085	hgsc.bcm.edu	37	12	49426385	49426388	+	Frame_Shift_Del	DEL	AAGA	AAGA	-	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	AAGA	AAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	71.0	34.0	153.0	0.0	0.479	.	.	.	none	.	MLL2	1173	.	NM_003482	exon39	c.12101_12104del	p.4034_4035del	.	.	PASS	Pindel,Atlas-Indel
HLA-B	3106	hgsc.bcm.edu	37	6	31323097	31323098	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	56.0	20.0	65.0	0.0	0.357143	0	.	.	none	.	HLA-B	54	.	NM_005514	exon4	c.892_893insA	p.W298fs	.	.	PASS	Atlas-Indel
MUC2	4583	hgsc.bcm.edu	37	11	1092688	1092689	+	In_Frame_Ins	INS	-	-	CAA	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	119.0	13.0	122.0	0.0	0.109244	0	.	.	none	.	MUC2	614	.	NM_002457	exon30	c.4507_4508insCAA	p.P1503delinsPT	.	.	PASS	Atlas-Indel
DMD	1756	hgsc.bcm.edu	37	X	32407663	32407664	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	204.0	44.0	251.0	0.0	0.216	.	.	.	none	.	DMD	2127	.	NM_004006	exon32	c.4473_4474insA	p.K1491fs	.	.	PASS	Pindel,Atlas-Indel
UBASH3A	53347	hgsc.bcm.edu	37	21	43826425	43826436	+	In_Frame_Del	DEL	CGTTGGCAGCCA	CGTTGGCAGCCA	-	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	CGTTGGCAGCCA	CGTTGGCAGCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	66.0	14.0	77.0	0.0	0.212	.	.	.	none	.	UBASH3A	72	.	NM_018961	exon2	c.121_132del	p.41_44del	.	.	PASS	Pindel,Atlas-Indel
MRPL14	64928	hgsc.bcm.edu	37	6	44081581	44081584	+	Frame_Shift_Del	DEL	CACA	CACA	-	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	CACA	CACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	62.0	20.0	48.0	0.0	0.323	.	.	.	none	.	MRPL14	15	.	NM_032111	exon3	c.435_438del	p.145_146del	.	.	PASS	Pindel,Atlas-Indel
BFAR	51283	hgsc.bcm.edu	37	16	14738262	14738262	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	107.0	33.0	106.0	0.0	0.308411	0	.	.	none	.	BFAR	38	.	NM_016561	exon2	c.T59C	p.L20P	AACCTCTCAAAAG	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138372	37138372	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	54.0	20.0	70.0	0.0	0.37037	0	.	.	none	.	PIM1	71	.	NM_001243186	exon1	c.C294T	p.N98N	AATCAACTCGCTT	.	PASS	Atlas-SNP
PDE3A	5139	hgsc.bcm.edu	37	12	20787928	20787928	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	63.0	21.0	71.0	0.0	0.333333	0	.	.	none	.	PDE3A	184	.	NM_000921	exon8	c.A1939T	p.R647X	TGCCTGAGAGAGC	.	PASS	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121684560	121684560	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	107.0	34.0	123.0	0.0	0.317757	0	.	.	none	.	PTPRZ1	605	.	NM_002851	exon23	c.T6022C	p.Y2008H	CATGCCTATGTTA	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126370300	126370300	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	81.0	25.0	97.0	0.0	0.308642	0	.	.	none	.	FAT4	1752	.	NM_024582	exon9	c.G8129A	p.G2710D	TTAATGGCAACAT	.	PASS	Atlas-SNP
DLGAP3	58512	hgsc.bcm.edu	37	1	35369943	35369943	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	28.0	14.0	15.0	0.0	0.5	0	.	.	none	.	DLGAP3	107	.	NM_001080418	exon1	c.G1042A	p.G348R	CTGGCCCGGCCCC	.	PASS	Atlas-SNP
C7orf61	402573	hgsc.bcm.edu	37	7	100061611	100061611	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	82.0	27.0	77.0	0.0	0.329268	0	.	.	none	.	C7orf61	12	.	NM_001004323	exon1	c.G38A	p.R13Q	CAAGCCCGTCTAA	.	PASS	Atlas-SNP
ANKFN1	162282	hgsc.bcm.edu	37	17	54403699	54403699	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	118.0	35.0	145.0	0.0	0.29661	0	.	.	none	.	ANKFN1	115	.	NM_153228	exon3	c.C180T	p.A60A	TGCTGCCTCGAAC	.	PASS	Atlas-SNP
ETV6	2120	hgsc.bcm.edu	37	12	11803095	11803095	+	Splice_Site	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	26.0	16.0	47.0	0.0	0.615385	0	.	.	none	.	ETV6	91	.	NM_001987	exon1	c.33+1G>A	.	ATTAAGGTAAAAA	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37139210	37139210	+	Missense_Mutation	SNP	C	C	T	rs200495767	by1000genomes;alternate_allele	TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	70.0	31.0	73.0	0.0	0.442857	0	C|1.000;G|0.000	.	alt	PIM1,NS,NS,0,1	PIM1	71	1	NM_001243186	exon4	c.C823T	p.L275F	CTCAAGCTCATCG	.	PASS	Atlas-SNP
COX3	5742	hgsc.bcm.edu	37	MT	9445	9445	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	26.0	12.0	43.0	0.0	0.461538	0	.	.	none	.	.	.	.	ENST00000362079	exon1	c.G239A	p.R80Q	GCCTTCGATACGG	.	PASS	Atlas-SNP
ZIC3	7547	hgsc.bcm.edu	37	X	136649636	136649636	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	73.0	23.0	72.0	0.0	0.315068	0	.	.	none	.	ZIC3	93	.	NM_003413	exon1	c.C786G	p.S262R	GCTGAGCCGGCCC	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138901	37138901	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	48.0	12.0	33.0	0.0	0.25	0	.	.	none	.	PIM1	71	.	NM_001243186	exon4	c.C514T	p.P172S	CTGCAGCCTAATG	.	PASS	Atlas-SNP
SNX8	29886	hgsc.bcm.edu	37	7	2304007	2304007	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	31.0	11.0	29.0	0.0	0.354839	0	.	.	none	SNX8,NS,carcinoma,0,2	SNX8	46	2	NM_013321	exon6	c.C708T	p.R236R	CCTGTCGCGAAGC	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138765	37138765	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	86.0	21.0	70.0	0.0	0.244186	0	.	.	none	.	PIM1	71	.	NM_001243186	exon3	c.C471T	p.I157I	GGCCATCAAACAC	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82583413	82583413	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	166.0	52.0	189.0	0.0	0.313253	0	.	.	none	.	PCLO	1506	.	NM_014510	exon5	c.G6856T	p.A2286S	TGTCAGCAACTGG	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48318518	48318518	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	97.0	32.0	120.0	1.0	0.329897	0.00833333	.	.	none	ABCA13_ENST00000435803,NS,carcinoma,-1,4	ABCA13	1192	4	NM_152701	exon18	c.T7727A	p.L2576X	CTACTTTAAAAAA	.	scavenged	Atlas-SNP
ITIH5	80760	hgsc.bcm.edu	37	10	7679231	7679231	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	33.0	16.0	36.0	0.0	0.484848	0	.	.	none	.	ITIH5	343	.	NM_001001851	exon5	c.G612A	p.P204P	GTGAAGCGGCAGC	.	PASS	Atlas-SNP
BCOR	54880	hgsc.bcm.edu	37	X	39933243	39933243	+	Silent	SNP	A	A	G	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	97.0	39.0	86.0	0.0	0.402062	0	.	.	none	.	BCOR	351	.	NM_001123385	exon4	c.T1356C	p.A452A	TTTGGAAGCATCT	.	PASS	Atlas-SNP
EGR1	1958	hgsc.bcm.edu	37	5	137801553	137801553	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	113.0	48.0	140.0	0.0	0.424779	0	.	.	none	.	EGR1	52	.	NM_001964	exon1	c.C103T	p.L35L	CCTAAGCTGGAGG	.	PASS	Atlas-SNP
NEURL	9148	hgsc.bcm.edu	37	10	105331517	105331517	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	80.0	30.0	83.0	0.0	0.375	0	.	.	none	NEURL,NS,lymphoid_neoplasm,0,1	NEURL	38	1	NM_004210	exon3	c.C587T	p.T196M	TCCGCACGGCCGA	.	PASS	Atlas-SNP
TACC2	10579	hgsc.bcm.edu	37	10	123843062	123843062	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	52.0	14.0	48.0	0.0	0.269231	0	.	.	none	.	TACC2	271	.	NM_206862	exon4	c.C1047T	p.G349G	CTGGGGCTTGCCA	.	PASS	Atlas-SNP
NEB	4703	hgsc.bcm.edu	37	2	152432838	152432838	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	163.0	63.0	169.0	0.0	0.386503	0	.	.	none	NEB_ENST00000427231,NS,carcinoma,+1,3	NEB	1697	3	NM_001271208	exon106	c.C16735T	p.R5579C	TGCCACGCAACCA	.	PASS	Atlas-SNP
KRIT1	889	hgsc.bcm.edu	37	7	91855062	91855062	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	252.0	85.0	262.0	0.0	0.337302	0	.	.	none	KRIT1,NS,carcinoma,-1,1	KRIT1	66	1	NM_194456	exon13	c.A1226C	p.K409T	AACAATTTTGCAG	.	PASS	Atlas-SNP
EMC6	83460	hgsc.bcm.edu	37	17	3572623	3572623	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	116.0	39.0	120.0	0.0	0.336207	0	.	.	none	.	.	.	.	NM_001014764	exon2	c.G183A	p.L61L	CGTCCTGCTCTCC	.	PASS	Atlas-SNP
SYNDIG1L	646658	hgsc.bcm.edu	37	14	74874557	74874557	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	82.0	28.0	78.0	0.0	0.341463	0	.	.	none	.	SYNDIG1L	24	.	NM_001105579	exon3	c.C553A	p.Q185K	CCCCCTGGGAGAA	.	PASS	Atlas-SNP
FAM124A	220108	hgsc.bcm.edu	37	13	51855115	51855115	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	55.0	22.0	48.0	0.0	0.4	0	.	.	none	.	FAM124A	61	.	NM_145019	exon5	c.C1472A	p.A491E	ACTGGGCAGCTCA	.	PASS	Atlas-SNP
GABRP	2568	hgsc.bcm.edu	37	5	170222292	170222292	+	Silent	SNP	G	G	T	rs41315922	bycluster;by1000genomes;alternate_allele	TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	67.0	23.0	89.0	0.0	0.343284	0	G|1.000;C|0.000	.	alt	.	GABRP	65	.	NM_014211	exon5	c.G321T	p.L107L	CACTCTGGATGCC	.	PASS	Atlas-SNP
MYD88	4615	hgsc.bcm.edu	37	3	38182641	38182641	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	37.0	29.0	47.0	0.0	0.783784	0	.	.	none	MYD88,NS,lymphoid_neoplasm,0,828	MYD88	900	828	NM_001172569	exon4	c.T613C	p.X205R	AGCGACTGATCCC	.	PASS	Atlas-SNP
PDE3A	5139	hgsc.bcm.edu	37	12	20522715	20522715	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	104.0	35.0	102.0	0.0	0.336538	0	.	.	none	.	PDE3A	184	.	NM_000921	exon1	c.C497T	p.A166V	TGGCCGCCTGCTG	.	PASS	Atlas-SNP
NKD2	85409	hgsc.bcm.edu	37	5	1036421	1036421	+	Missense_Mutation	SNP	G	G	A	rs376557535		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	37.0	15.0	50.0	0.0	0.405405	0	.	.	weak	.	NKD2	39	.	NM_001271082	exon9	c.G709A	p.V237M	TACTGCGTGGACG	.	PASS	Atlas-SNP
CACNG7	59284	hgsc.bcm.edu	37	19	54445378	54445378	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	153.0	41.0	103.0	0.0	0.267974	0	.	.	none	.	CACNG7	58	.	NM_031896	exon5	c.G659A	p.R220H	GCCCGCGTCTCAG	.	PASS	Atlas-SNP
ASXL3	80816	hgsc.bcm.edu	37	18	31324989	31324989	+	Missense_Mutation	SNP	C	C	A	rs369543627	alternate_allele	TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	61.0	15.0	57.0	0.0	0.245902	0	.	.	alt	.	ASXL3	405	.	NM_030632	exon12	c.C5177A	p.A1726D	CCGATGCCCTGAA	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152763351	152763351	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	90.0	29.0	108.0	0.0	0.322222	0	.	.	none	.	SYNE1	3227	.	NM_033071	exon31	c.G3888T	p.K1296N	ATCTCTCTTCTTT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	8962366	8962366	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	133.0	41.0	103.0	0.0	0.308271	0	.	.	none	.	MUC16	4315	.	NM_024690	exon82	c.A43333C	p.T14445P	TCCCAGTTAAGGG	.	PASS	Atlas-SNP
TRIM29	23650	hgsc.bcm.edu	37	11	120008144	120008144	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	26.0	14.0	23.0	0.0	0.538462	0	.	.	none	.	TRIM29	78	.	NM_012101	exon1	c.T596C	p.L199P	GGCTTGAGATGCA	.	PASS	Atlas-SNP
AGAP6	414189	hgsc.bcm.edu	37	10	51769455	51769455	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	39.0	11.0	38.0	0.0	0.282051	0	.	.	none	.	AGAP6	53	.	NM_001077665	exon8	c.T1570C	p.W524R	GATGACTGGCCAG	.	PASS	Atlas-SNP
ITGA6	3655	hgsc.bcm.edu	37	2	173368882	173368882	+	Missense_Mutation	SNP	C	C	T	rs370676535		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	181.0	76.0	217.0	0.0	0.41989	0	.	.	weak	.	ITGA6	171	.	NM_001079818	exon25	c.C3178T	p.R1060W	AGGATCCGGAAAG	.	PASS	Atlas-SNP
TACC2	10579	hgsc.bcm.edu	37	10	123987498	123987498	+	Missense_Mutation	SNP	G	G	A	rs114249776	bycluster;byfrequency;by1000genomes	TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	52.0	20.0	48.0	0.0	0.384615	0	G|0.999;A|0.001	0.001	strong	.	TACC2	271	.	NM_206862	exon14	c.G7871A	p.G2624D	GCTTGGGCACCCC	.	PASS	Atlas-SNP
AAGAB	79719	hgsc.bcm.edu	37	15	67528329	67528329	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	143.0	42.0	138.0	0.0	0.293706	0	.	.	none	.	AAGAB	24	.	NM_024666	exon4	c.C439T	p.P147S	CCTCAGGCAACTC	.	PASS	Atlas-SNP
LRRK2	120892	hgsc.bcm.edu	37	12	40704416	40704416	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	101.0	5.0	90.0	0.0	0.049505	0	.	.	none	LRRK2_ENST00000298910,NS,carcinoma,0,3	LRRK2	763	3	NM_198578	exon31	c.C4501T	p.R1501W	AAACTTCGGAAAA	.	PASS	Atlas-SNP
SLC44A2	57153	hgsc.bcm.edu	37	19	10738451	10738451	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	86.0	26.0	73.0	0.0	0.302326	0	.	.	none	.	SLC44A2	56	.	NM_020428	exon3	c.A140C	p.Y47S	TGGGCTACGTGGC	.	PASS	Atlas-SNP
GRHL3	57822	hgsc.bcm.edu	37	1	24690825	24690825	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	57.0	25.0	76.0	0.0	0.438596	0	.	.	none	.	GRHL3	69	.	NM_198174	exon16	c.C1845T	p.T615T	CACCACCGTCAAC	.	PASS	Atlas-SNP
ZFP92	139735	hgsc.bcm.edu	37	X	152686543	152686543	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	101.0	33.0	90.0	0.0	0.326733	0	.	.	none	.	ZFP92	26	.	NM_001136273	exon4	c.C708T	p.F236F	GCCCTTCGCCTGC	.	PASS	Atlas-SNP
SHISA7	729956	hgsc.bcm.edu	37	19	55954006	55954006	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	25.0	8.0	39.0	0.0	0.32	0	.	.	none	.	SHISA7	14	.	NM_001145176	exon1	c.G225A	p.A75A	AGGGGGCGCCCGG	.	PASS	Atlas-SNP
VWF	7450	hgsc.bcm.edu	37	12	6076733	6076733	+	Silent	SNP	G	G	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	31.0	18.0	44.0	0.0	0.580645	0	.	.	none	.	VWF	338	.	NM_000552	exon47	c.C7806A	p.T2602T	GCGGCAGGTCGTG	.	PASS	Atlas-SNP
PAQR7	164091	hgsc.bcm.edu	37	1	26189430	26189430	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	110.0	47.0	143.0	0.0	0.427273	0	.	.	none	.	PAQR7	23	.	NM_178422	exon2	c.C901T	p.R301W	TGGGCCGTCGGGC	.	PASS	Atlas-SNP
KRT6A	3853	hgsc.bcm.edu	37	12	52886934	52886934	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	136.0	31.0	102.0	0.0	0.227941	0	.	.	none	.	KRT6A	89	.	NM_005554	exon1	c.C39A	p.S13R	GCGGCTGCTGCTG	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138309	37138309	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	48.0	14.0	37.0	0.0	0.291667	0	.	.	none	.	PIM1	71	.	NM_001243186	exon1	c.C231T	p.S77S	CGGCAGCTCCTCT	.	PASS	Atlas-SNP
YTHDF2	51441	hgsc.bcm.edu	37	1	29070284	29070284	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	155.0	64.0	129.0	0.0	0.412903	0	.	.	none	.	YTHDF2	47	.	NM_016258	exon4	c.T1502C	p.F501S	GGATTTTTGTGAA	.	PASS	Atlas-SNP
ELAVL2	1993	hgsc.bcm.edu	37	9	23762079	23762079	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	233.0	63.0	227.0	0.0	0.270386	0	.	.	none	ELAVL2,colon,carcinoma,+1,1	ELAVL2	80	1	NM_001171195	exon2	c.C154T	p.Q52X	CCTCCTGTGTCAT	.	PASS	Atlas-SNP
NOP2	4839	hgsc.bcm.edu	37	12	6672843	6672843	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	68.0	27.0	71.0	0.0	0.397059	0	.	.	none	.	NOP2	44	.	NM_001258309	exon8	c.G724A	p.G242S	GCAGGCCCCCATC	.	PASS	Atlas-SNP
FGF3	2248	hgsc.bcm.edu	37	11	69625283	69625283	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	99.0	7.0	144.0	0.0	0.0707071	0	.	.	none	FGF3,NS,carcinoma,0,1	FGF3	27	1	NM_005247	exon3	c.C510T	p.R170R	TGTGCGGCGGGTC	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37139042	37139042	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	86.0	38.0	78.0	0.0	0.44186	0	.	.	none	.	PIM1	71	.	NM_001243186	exon4	c.G655A	p.D219N	GTGCAAGATCTCT	.	PASS	Atlas-SNP
TENM4	26011	hgsc.bcm.edu	37	11	78516504	78516504	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	24.0	11.0	23.0	0.0	0.458333	0	.	.	none	.	.	.	.	NM_001098816	exon15	c.G2012T	p.G671V	CAGACACCCCGGC	.	PASS	Atlas-SNP
MTMR8	55613	hgsc.bcm.edu	37	X	63568661	63568661	+	Missense_Mutation	SNP	C	C	T	rs201816063	bycluster	TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	90.0	31.0	77.0	0.0	0.344444	0	.	.	weak	.	MTMR8	178	.	NM_017677	exon6	c.G611A	p.R204H	CTACAGCGGCAAA	.	PASS	Atlas-SNP
DHX38	9785	hgsc.bcm.edu	37	16	72137944	72137944	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	66.0	23.0	96.0	0.0	0.348485	0	.	.	none	DHX38,NS,carcinoma,0,1	DHX38	91	1	NM_014003	exon14	c.G1924A	p.D642N	GAAGCCGACCTGG	.	PASS	Atlas-SNP
KRT3	3850	hgsc.bcm.edu	37	12	53185490	53185490	+	Silent	SNP	C	C	T	rs369576134		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	178.0	99.0	154.0	0.0	0.55618	0	.	.	weak	.	KRT3	65	.	NM_057088	exon6	c.G1299A	p.E433E	GACACCCTCGATC	.	PASS	Atlas-SNP
KLHL17	339451	hgsc.bcm.edu	37	1	898557	898557	+	Missense_Mutation	SNP	G	G	A	rs201246933	bycluster;by1000genomes	TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	48.0	23.0	57.0	0.0	0.479167	0	G|0.999;A|0.001	0.001	strong	.	KLHL17	31	.	NM_198317	exon7	c.G1111A	p.V371M	TGGCACGTGGTGG	.	PASS	Atlas-SNP
OR4K5	79317	hgsc.bcm.edu	37	14	20388876	20388876	+	Silent	SNP	C	C	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	177.0	56.0	182.0	0.0	0.316384	0	.	.	none	OR4K5,NS,carcinoma,0,1	OR4K5	111	1	NM_001005483	exon1	c.C111A	p.V37V	TACAGTCATTGTG	.	PASS	Atlas-SNP
ZDHHC14	79683	hgsc.bcm.edu	37	6	158074641	158074641	+	Silent	SNP	G	G	A	rs35358008	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	33.0	13.0	22.0	0.0	0.393939	0	G|0.959;T|0.041	.	alt	.	ZDHHC14	39	.	NM_024630	exon8	c.G1050A	p.T350T	GGCCACGCAGTCA	.	PASS	Atlas-SNP
SERPINH1	871	hgsc.bcm.edu	37	11	75277917	75277917	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	58.0	22.0	39.0	0.0	0.37931	0	.	.	none	.	SERPINH1	33	.	NM_001235	exon2	c.G523A	p.E175K	ATCAACGAGTGGG	.	PASS	Atlas-SNP
ZFPM2	23414	hgsc.bcm.edu	37	8	106815063	106815063	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	62.0	21.0	61.0	0.0	0.33871	0	.	.	none	ZFPM2,colon,carcinoma,0,1	ZFPM2	219	1	NM_012082	exon8	c.A2753C	p.K918T	GTGAGAAAAATGG	.	PASS	Atlas-SNP
FCRL5	83416	hgsc.bcm.edu	37	1	157516959	157516959	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	121.0	48.0	113.0	0.0	0.396694	0	.	.	none	FCRL5,mouth,carcinoma,-1,1	FCRL5	177	1	NM_031281	exon3	c.C81T	p.L27L	AGGCTGGAGGAAA	.	PASS	Atlas-SNP
ZFP112	7771	hgsc.bcm.edu	37	19	44832834	44832834	+	Silent	SNP	T	T	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	138.0	46.0	142.0	0.0	0.333333	0	.	.	none	.	ZFP112	219	.	NM_001083335	exon5	c.A1494T	p.P498P	CTTACGTGGTTTC	.	PASS	Atlas-SNP
ALDH1B1	219	hgsc.bcm.edu	37	9	38397089	38397089	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	65.0	22.0	68.0	0.0	0.338462	0	.	.	none	.	ALDH1B1	50	.	NM_000692	exon2	c.G1344A	p.V448V	GGCTGTGTTCACC	.	PASS	Atlas-SNP
LCN8	138307	hgsc.bcm.edu	37	9	139651501	139651501	+	Silent	SNP	A	A	C	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	50.0	19.0	53.0	0.0	0.38	0	.	.	none	.	LCN8	14	.	NM_178469	exon2	c.T144G	p.V48V	ATATGCAACCTTC	.	PASS	Atlas-SNP
ETV6	2120	hgsc.bcm.edu	37	12	11803094	11803094	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	25.0	16.0	47.0	0.0	0.64	0	.	.	none	.	ETV6	91	.	NM_001987	exon1	c.G33C	p.K11N	CATTAAGGTAAAA	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138951	37138951	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	50.0	28.0	48.0	0.0	0.56	0	.	.	none	PIM1,NS,lymphoid_neoplasm,+1,5	PIM1	71	5	NM_001243186	exon4	c.C564T	p.S188S	GGTGAGCTCGGGT	.	PASS	Atlas-SNP
PPEF1	5475	hgsc.bcm.edu	37	X	18824536	18824536	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	152.0	54.0	185.0	0.0	0.355263	0	.	.	none	.	PPEF1	89	.	NM_006240	exon15	c.T1267C	p.S423P	ATATTTTCTGCTT	.	PASS	Atlas-SNP
NXF3	56000	hgsc.bcm.edu	37	X	102338561	102338561	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	226.0	75.0	235.0	0.0	0.331858	0	.	.	none	.	NXF3	81	.	NM_022052	exon4	c.C411T	p.C137C	TACACTGCATTCA	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37140894	37140894	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	133.0	44.0	112.0	0.0	0.330827	0	.	.	none	.	PIM1	71	.	NM_001243186	exon5	c.C1003T	p.H335Y	TTCGAGCATGACG	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138549	37138549	+	Missense_Mutation	SNP	G	G	A	rs377274719		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	47.0	24.0	65.0	0.0	0.510638	0	.	.	weak	PIM1,NS,lymphoid_neoplasm,0,3	PIM1	71	3	NM_001243186	exon2	c.G356A	p.G119D	TCCTAGGCAAGGA	.	PASS	Atlas-SNP
GPR50	9248	hgsc.bcm.edu	37	X	150348670	150348670	+	Silent	SNP	T	T	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	25.0	10.0	27.0	0.0	0.4	0	.	.	none	.	GPR50	195	.	NM_004224	exon2	c.T615A	p.G205G	CGTGGGTTTCTGC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239047	31239047	+	Missense_Mutation	SNP	G	G	A	rs281860470		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	56.0	22.0	114.0	0.0	0.392857	0	.	.	weak	.	HLA-C	92	.	NM_002117	exon3	c.C422T	p.A141V	TCGTAGGCGGACT	.	PASS	Atlas-SNP
TNS4	84951	hgsc.bcm.edu	37	17	38645133	38645133	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	77.0	34.0	70.0	0.0	0.441558	0	.	.	none	.	TNS4	72	.	NM_032865	exon3	c.C528T	p.F176F	GGAGCCGAAGGGC	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37139203	37139203	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	67.0	31.0	75.0	1.0	0.462687	0.0133333	.	.	none	PIM1,NS,lymphoid_neoplasm,0,1	PIM1	71	1	NM_001243186	exon4	c.G816C	p.E272D	CGGCGAGCTCAAG	.	scavenged	Atlas-SNP
HIST1H4H	8365	hgsc.bcm.edu	37	6	26285531	26285531	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	72.0	29.0	102.0	0.0	0.402778	0	.	.	none	.	HIST1H4H	16	.	NM_003543	exon1	c.T197A	p.V66E	CGAATCACGTTCT	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385790	58385790	+	Missense_Mutation	SNP	G	G	T	rs111727691	bycluster	TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	253.0	23.0	168.0	0.0	0.0909091	0	G|0.500;T|0.500	0.500	weak	.	ZNF814	93	.	NM_001144989	exon3	c.C968A	p.P323H	TCATAAGGTCTTT	.	PASS	Atlas-SNP
ZNF630	57232	hgsc.bcm.edu	37	X	47919314	47919314	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	140.0	46.0	145.0	0.0	0.328571	0	.	.	none	.	ZNF630	71	.	NM_001037735	exon5	c.C517A	p.Q173K	ATTTTTGACTTAA	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	37	MT	15785	15785	+	Missense_Mutation	SNP	T	T	C	rs28357375	bycluster;byfrequency	TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	17.0	12.0	44.0	0.0	0.705882	0	T|0.936;C|0.064	0.064	strong	.	.	.	.	ENST00000361789	exon1	c.T1039C	p.F347L	TACCCTTTTACCA	.	PASS	Atlas-SNP
ALLC	55821	hgsc.bcm.edu	37	2	3745027	3745027	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	100.0	42.0	102.0	0.0	0.42	0	.	.	none	ALLC,rectum,carcinoma,0,1	ALLC	61	1	NM_018436	exon10	c.T831G	p.I277M	TGAAATTGACACA	.	PASS	Atlas-SNP
HCN4	10021	hgsc.bcm.edu	37	15	73617312	73617312	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	46.0	17.0	43.0	0.0	0.369565	0	.	.	none	.	HCN4	150	.	NM_005477	exon6	c.C1962T	p.D654D	GGAGCCGTCGGCC	.	PASS	Atlas-SNP
DAPK1	1612	hgsc.bcm.edu	37	9	90219907	90219907	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	80.0	24.0	78.0	0.0	0.3	0	.	.	none	DAPK1_ENST00000408954,NS,carcinoma,-1,1	DAPK1	329	1	NM_004938	exon3	c.G101T	p.S34I	AGAAAAGCACCGG	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1260239	1260239	+	Silent	SNP	C	C	A	rs374136981		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	77.0	26.0	94.0	0.0	0.337662	0	.	.	weak	.	MUC5B	473	.	NM_002458	exon26	c.C3436A	p.R1146R	TCCTGGCGGACTC	.	PASS	Atlas-SNP
ANKK1	255239	hgsc.bcm.edu	37	11	113264381	113264381	+	Missense_Mutation	SNP	C	C	T	rs370146394		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	81.0	27.0	76.0	0.0	0.333333	0	.	.	weak	ANKK1,NS,carcinoma,0,1	ANKK1	83	1	NM_178510	exon2	c.C364T	p.R122C	AGGTTCCGCATCA	.	PASS	Atlas-SNP
ZFP37	7539	hgsc.bcm.edu	37	9	115818843	115818843	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	69.0	24.0	65.0	0.0	0.347826	0	.	.	none	.	ZFP37	93	.	NM_003408	exon1	c.C126T	p.S42S	CGCGGCGCTGGCC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239416	31239416	+	Silent	SNP	G	G	A	rs281860412	bycluster	TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	74.0	50.0	88.0	0.0	0.675676	0	.	.	weak	.	HLA-C	92	.	NM_002117	exon2	c.C303T	p.S101S	CCGCAGGCTCACT	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10467580	10467580	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	206.0	21.0	207.0	0.0	0.101942	0	.	.	none	.	RP1L1	453	.	NM_178857	exon4	c.A4028C	p.E1343A	TCTGTTTCTTTAG	.	PASS	Atlas-SNP
KIAA1731	85459	hgsc.bcm.edu	37	11	93462694	93462694	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	86.0	26.0	83.0	0.0	0.302326	0	.	.	none	.	KIAA1731	173	.	NM_033395	exon26	c.C7397T	p.T2466I	CATCTACAGGTAA	.	PASS	Atlas-SNP
SECISBP2L	9728	hgsc.bcm.edu	37	15	49338480	49338480	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	134.0	42.0	146.0	0.0	0.313433	0	.	.	none	.	SECISBP2L	118	.	NM_001193489	exon1	c.C17T	p.T6M	TGCTCCGTGGGGG	.	PASS	Atlas-SNP
ERBB4	2066	hgsc.bcm.edu	37	2	212522545	212522545	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	73.0	39.0	78.0	0.0	0.534247	0	.	.	none	ERBB4,NS,malignant_melanoma,0,1	ERBB4	480	1	NM_001042599	exon16	c.G1880C	p.G627A	GTGGGACCGTTAC	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138577	37138577	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7DS-01A-11D-A382-10	TCGA-FA-A7DS-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	d742814c-f5f3-4231-a2e0-6014e315d672	8e110330-8f35-4680-b920-cca0e6156105	52.0	28.0	79.0	0.0	0.538462	0	.	.	none	PIM1,NS,lymphoid_neoplasm,0,2	PIM1	71	2	NM_001243186	exon2	c.G384A	p.Q128Q	GTCGCAGTACCAG	.	PASS	Atlas-SNP
