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
CDR1	1038	hgsc.bcm.edu	37	X	139866424	139866441	+	In_Frame_Del	DEL	GTCTTCCAACAAAGGTAC	GTCTTCCAACAAAGGTAC	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	GTCTTCCAACAAAGGTAC	GTCTTCCAACAAAGGTAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	195.0	104.0	251.0	0.0	0.533333	0	.	.	none	.	CDR1	58	.	NM_004065	exon1	c.92_109del	p.31_37del	.	.	PASS	Atlas-Indel
MLL2	8085	hgsc.bcm.edu	37	12	49444214	49444214	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	193.0	47.0	214.0	0.0	0.244	.	.	.	none	.	MLL2	1173	.	NM_003482	exon11	c.3158delC	p.S1053fs	.	.	PASS	Pindel,Atlas-Indel
MST1	4485	hgsc.bcm.edu	37	3	49722525	49722525	+	Splice_Site	DEL	A	A	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	151.0	11.0	164.0	0.0	0.0728477	0	.	.	none	.	MST1	84	.	NM_020998	exon15	c.1545-2T>-	.	.	.	PASS	Atlas-Indel
CFTR	1080	hgsc.bcm.edu	37	7	117144306	117144307	+	Splice_Site	INS	-	-	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	87.0	20.0	88.0	0.0	0.230	.	.	.	none	.	CFTR	171	.	NM_000492	exon2	c.54-1->C	.	.	.	PASS	Pindel,Atlas-Indel
MGAM	8972	hgsc.bcm.edu	37	7	141708306	141708329	+	Frame_Shift_Del	DEL	CCCCAGATCCTGGGACAACTGGTA	CCCCAGATCCTGGGACAACTGGTA	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	CCCCAGATCCTGGGACAACTGGTA	CCCCAGATCCTGGGACAACTGGTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	135.0	40.0	154.0	0.0	0.296296	0	.	.	none	.	MGAM	767	.	NM_004668	exon3	c.128_150del	p.43_50del	.	.	PASS	Atlas-Indel
CYP3A5	1577	hgsc.bcm.edu	37	7	99273810	99273811	+	Frame_Shift_Ins	INS	-	-	C	rs200579169	by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	127.0	38.0	92.0	0.0	0.299	.	-|0.994;C|0.006	0.006	strong	.	CYP3A5	46	.	NM_001190484	exon2	c.93_94insG	p.G31fs	.	.	PASS	Pindel,Atlas-Indel
MLL2	8085	hgsc.bcm.edu	37	12	49422949	49422950	+	Frame_Shift_Ins	INS	-	-	CA	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	94.0	29.0	71.0	0.0	0.309	.	.	.	none	.	MLL2	1173	.	NM_003482	exon44	c.14146_14147insTG	p.G4716fs	.	.	PASS	Pindel,Atlas-Indel
ARHGAP30	257106	hgsc.bcm.edu	37	1	161021121	161021122	+	In_Frame_Ins	INS	-	-	GGCCAG	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	50.0	16.0	41.0	0.0	0.32	0	.	.	none	.	ARHGAP30	105	.	NM_181720	exon10	c.1403_1404insCTGGCC	p.L468delinsPGL	.	.	PASS	Atlas-Indel
ZNF844	284391	hgsc.bcm.edu	37	19	12187316	12187317	+	Frame_Shift_Del	DEL	CA	CA	-	rs201088213	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	38.0	14.0	52.0	0.0	0.368421	0	CA|0.987;-|0.013	0.013	strong	.	ZNF844	69	.	NM_001136501	exon4	c.1380_1381del	p.460_461del	.	.	PASS	Atlas-Indel
ASXL3	80816	hgsc.bcm.edu	37	18	31323500	31323500	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	68.0	33.0	78.0	0.0	0.485294	0	.	.	none	ASXL3_ENST00000269197,NS,carcinoma,+2,2	ASXL3	405	2	NM_030632	exon12	c.3687delG	p.M1229fs	.	.	PASS	Atlas-Indel
APLF	200558	hgsc.bcm.edu	37	2	68805143	68805143	+	Frame_Shift_Del	DEL	A	A	-	rs149897324	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	64.0	26.0	58.0	0.0	0.406	.	A|0.991;-|0.009	0.009	strong	.	APLF	69	.	NM_173545	exon10	c.1524delG	p.M508fs	.	.	PASS	Pindel,Atlas-Indel
HNRNPA0	10949	hgsc.bcm.edu	37	5	137088945	137088946	+	In_Frame_Ins	INS	-	-	GCT	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	91.0	22.0	59.0	0.0	0.242	.	.	.	none	.	HNRNPA0	17	.	NM_006805	exon1	c.811_812insAGC	p.G271delinsSG	.	.	PASS	Pindel,Atlas-Indel
PHF14	9678	hgsc.bcm.edu	37	7	11091329	11091330	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	76.0	16.0	82.0	0.0	0.210526	0	.	.	none	.	PHF14	90	.	NM_014660	exon14	c.2403_2404insA	p.R801fs	.	.	PASS	Atlas-Indel
KIAA0586	9786	hgsc.bcm.edu	37	14	58899157	58899157	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	171.0	61.0	154.0	0.0	0.357	.	.	.	none	.	KIAA0586	180	.	NM_001244189	exon5	c.427delA	p.R143fs	.	.	PASS	Pindel,Atlas-Indel
SLFN12L	100506736	hgsc.bcm.edu	37	17	33801989	33801990	+	Frame_Shift_Ins	INS	-	-	AAAA	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	61.0	25.0	86.0	0.0	0.410	.	.	.	none	.	SLFN12L	140	.	NM_001195790	exon4	c.1720_1721insTTTT	p.R574fs	.	.	PASS	Pindel,Atlas-Indel
HDGFRP2	0	hgsc.bcm.edu	37	19	4498017	4498019	+	In_Frame_Del	DEL	AGA	AGA	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	79.0	32.0	78.0	0.0	0.405	.	.	.	none	.	.	.	.	NM_032631	exon11	c.1390_1392del	p.464_464del	.	.	PASS	Pindel,Atlas-Indel
TLX1NB	100038246	hgsc.bcm.edu	37	10	102849370	102849370	+	Frame_Shift_Del	DEL	T	T	-	rs200664029	by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	97.0	33.0	94.0	0.0	0.340	.	T|0.996;-|0.004	0.004	strong	.	.	.	.	NM_001085398	exon3	c.294delG	p.Q98fs	.	.	PASS	Pindel,Atlas-Indel
E2F4	1874	hgsc.bcm.edu	37	16	67229794	67229811	+	In_Frame_Del	DEL	CAGCAGCAGCAGCAGCAG	CAGCAGCAGCAGCAGCAG	-	rs112970553	alternate_allele	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	CAGCAGCAGCAGCAGCAG	CAGCAGCAGCAGCAGCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	87.0	26.0	77.0	0.0	0.299	.	-|1.000;|0.000	1.000	alt	.	E2F4	25	.	NM_001950	exon7	c.917_934del	p.306_312del	.	.	PASS	Pindel,Atlas-Indel
GNAI2	2771	hgsc.bcm.edu	37	3	50294456	50294458	+	In_Frame_Del	DEL	AAG	AAG	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	174.0	18.0	160.0	0.0	0.103448	0	.	.	none	.	GNAI2	42	.	NM_002070	exon7	c.810_812del	p.270_271del	.	.	PASS	Atlas-Indel
IRF8	3394	hgsc.bcm.edu	37	16	85954879	85954879	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	36.0	10.0	39.0	0.0	0.277778	0	.	.	none	IRF8,NS,lymphoid_neoplasm,0,1	IRF8	65	1	NM_002163	exon9	c.1271delT	p.I424fs	.	.	PASS	Atlas-Indel
INHBE	83729	hgsc.bcm.edu	37	12	57850304	57850319	+	Frame_Shift_Del	DEL	TGCGACCCCCTTATGT	TGCGACCCCCTTATGT	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	TGCGACCCCCTTATGT	TGCGACCCCCTTATGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	73.0	20.0	105.0	0.0	0.274	.	.	.	none	.	INHBE	38	.	NM_031479	exon2	c.725_740del	p.242_247del	.	.	PASS	Pindel,Atlas-Indel
RNU6-71	100873774	hgsc.bcm.edu	37	6	56510983	56510983	+	RNA	DEL	A	A	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	37.0	11.0	41.0	0.0	0.297	.	.	.	none	.	.	.	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
PNPLA7	375775	hgsc.bcm.edu	37	9	140444627	140444628	+	Frame_Shift_Ins	INS	-	-	T	rs372921391		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	67.0	22.0	49.0	0.0	0.328	.	.	.	weak	.	PNPLA7	124	.	NM_001098537	exon1	c.23_24insA	p.S8fs	.	.	PASS	Pindel,Atlas-Indel
IRF8	3394	hgsc.bcm.edu	37	16	85954881	85954886	+	In_Frame_Del	DEL	CCGTCT	CCGTCT	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	CCGTCT	CCGTCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	38.0	10.0	38.0	0.0	0.263158	0	.	.	none	.	IRF8	65	.	NM_002163	exon9	c.1273_1278del	p.425_426del	.	.	PASS	Atlas-Indel
CCDC63	160762	hgsc.bcm.edu	37	12	111342460	111342460	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	164.0	52.0	107.0	0.0	0.317	.	.	.	none	.	CCDC63	89	.	NM_152591	exon11	c.1410delA	p.E470fs	.	.	PASS	Pindel,Atlas-Indel
IRF8	3394	hgsc.bcm.edu	37	16	85954879	85954886	+	Frame_Shift_Del	DEL	CACCGTCT	CACCGTCT	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	CACCGTCT	CACCGTCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	37.0	10.0	40.0	0.0	0.270	.	.	.	none	IRF8,NS,lymphoid_neoplasm,0,1	IRF8	65	1	NM_002163	exon9	c.1271_1278del	p.424_426del	.	.	PASS	Pindel
ASXL3	80816	hgsc.bcm.edu	37	18	31323501	31323501	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	68.0	25.0	76.0	0.0	0.368	.	.	.	none	.	ASXL3	405	.	NM_030632	exon12	c.3688delC	p.L1230fs	.	.	PASS	Pindel
NUDT17	200035	hgsc.bcm.edu	37	1	145586672	145586679	+	Frame_Shift_Del	DEL	TTTTACAC	TTTTACAC	-	rs201063949	by1000genomes;alternate_allele	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	TTTTACAC	TTTTACAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	133.0	27.0	137.0	0.0	0.203	.	-|0.017;TTTTA|0.983	0.017	alt	.	NUDT17	25	.	NM_001012758	exon8	c.898_905del	p.300_302del	.	.	PASS	Pindel
CERS6	253782	hgsc.bcm.edu	37	2	169312974	169312974	+	Missense_Mutation	SNP	G	G	A	rs4496303	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	82.0	36.0	55.0	0.0	0.439024	0	A|0.008;G|0.990;T|0.002	0.008	strong	.	.	.	.	NM_001256126	exon1	c.G16A	p.A6T	ATCTTAGCCTGGT	.	PASS	Atlas-SNP
LMAN1	3998	hgsc.bcm.edu	37	18	57026450	57026450	+	Silent	SNP	G	G	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	115.0	51.0	80.0	0.0	0.443478	0	.	.	none	.	LMAN1	57	.	NM_005570	exon1	c.C27G	p.L9L	GGCCCGGAGACCC	.	PASS	Atlas-SNP
POC1B	282809	hgsc.bcm.edu	37	12	89865394	89865394	+	Missense_Mutation	SNP	G	G	C	rs145981936	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	101.0	34.0	96.0	0.0	0.336634	0	G|0.999;C|0.001	0.001	strong	.	POC1B	41	.	NM_172240	exon6	c.C673G	p.Q225E	TACCTTGGTAATG	.	PASS	Atlas-SNP
TUBA3C	7278	hgsc.bcm.edu	37	13	19751274	19751274	+	Silent	SNP	G	G	A	rs143115179	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	218.0	16.0	219.0	0.0	0.0733945	0	G|0.992;A|0.008	0.008	strong	.	TUBA3C	166	.	NM_006001	exon4	c.C849T	p.H283H	CTGCTCGTGGTAG	.	PASS	Atlas-SNP
CKAP2	26586	hgsc.bcm.edu	37	13	53039547	53039547	+	Missense_Mutation	SNP	C	C	T	rs143514154	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	182.0	78.0	222.0	0.0	0.428571	0	C|0.994;T|0.006	0.006	strong	.	CKAP2	51	.	NM_001098525	exon6	c.C1426T	p.P476S	ACAAGTCCTATTG	.	PASS	Atlas-SNP
HNRNPUL1	11100	hgsc.bcm.edu	37	19	41811706	41811706	+	Silent	SNP	C	C	T	rs372346124		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	128.0	62.0	91.0	0.0	0.484375	0	.	.	weak	.	HNRNPUL1	73	.	NM_007040	exon14	c.C2388T	p.P796P	GGCCCCCTATACC	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	145015976	145015976	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	214.0	30.0	174.0	0.0	0.140187	0	.	.	none	.	PDE4DIP	817	.	NM_022359	exon3	c.G325A	p.V109M	ACTGCACTGGAGG	.	PASS	Atlas-SNP
SYCE3	644186	hgsc.bcm.edu	37	22	50989742	50989742	+	Missense_Mutation	SNP	C	C	T	rs55829948	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	137.0	70.0	124.0	0.0	0.510949	0	C|0.995;T|0.005	0.005	strong	.	SYCE3	10	.	NM_001123225	exon3	c.G199A	p.V67I	AGTTGACGAAGGC	.	PASS	Atlas-SNP
OR8B4	283162	hgsc.bcm.edu	37	11	124294127	124294127	+	Missense_Mutation	SNP	A	A	G	rs370187249		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	88.0	46.0	99.0	0.0	0.522727	0	.	.	weak	OR8B4,NS,carcinoma,-1,1	OR8B4	60	1	NM_001005196	exon1	c.T641C	p.V214A	GAGATGACGATGC	.	PASS	Atlas-SNP
FTSJ3	117246	hgsc.bcm.edu	37	17	61898928	61898928	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	41.0	26.0	55.0	0.0	0.634146	0	.	.	none	FTSJ3,NS,carcinoma,0,1	FTSJ3	63	1	NM_017647	exon16	c.C1672T	p.R558W	TCCGCCGGTTCTC	.	PASS	Atlas-SNP
PRR22	163154	hgsc.bcm.edu	37	19	5783713	5783713	+	Missense_Mutation	SNP	G	G	A	rs141874203	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	36.0	21.0	25.0	0.0	0.583333	0	G|0.984;A|0.016	0.016	strong	PRR22_ENST00000419421,NS,carcinoma,+1,2	PRR22	25	2	NM_001134316	exon3	c.C545T	p.P182L	GGCAGCGGGGCCG	.	PASS	Atlas-SNP
HIST1H4D	8360	hgsc.bcm.edu	37	6	26189010	26189010	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	152.0	71.0	163.0	0.0	0.467105	0	.	.	none	HIST1H4D,colon,carcinoma,0,1	HIST1H4D	28	1	NM_003539	exon1	c.T295G	p.Y99D	AGCCATAAAGAGT	.	PASS	Atlas-SNP
RGPD8	727851	hgsc.bcm.edu	37	2	113127773	113127773	+	Silent	SNP	A	A	G	rs186330915	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	568.0	264.0	621.0	0.0	0.464789	0	A|0.999;G|0.001	0.001	strong	RGPD8_ENST00000302558,NS,carcinoma,-2,18	RGPD8	81	18	NM_001164463	exon23	c.T5280C	p.P1760P	ACGGGAAGGATTT	.	PASS	Atlas-SNP
ANKIB1	54467	hgsc.bcm.edu	37	7	92027064	92027064	+	Missense_Mutation	SNP	G	G	T	rs200132000	bycluster;alternate_allele	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	63.0	33.0	59.0	0.0	0.52381	0	.	.	alt	ANKIB1,NS,carcinoma,0,1	ANKIB1	92	1	NM_019004	exon19	c.G2423T	p.R808L	GCAGCCGCAGGCC	.	PASS	Atlas-SNP
PHKB	5257	hgsc.bcm.edu	37	16	47533770	47533770	+	Silent	SNP	C	C	T	rs139431568	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	135.0	55.0	163.0	0.0	0.407407	0	C|0.999;T|0.001	0.001	strong	PHKB_ENST00000323584,colon,carcinoma,0,3	PHKB	298	3	NM_000293	exon3	c.C270T	p.C90C	ATACTGCGCTGCT	.	PASS	Atlas-SNP
FHAD1	114827	hgsc.bcm.edu	37	1	15723833	15723833	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	74.0	4.0	60.0	0.0	0.0540541	0	.	.	none	.	FHAD1	78	.	NM_052929	exon31	c.G4163A	p.R1388K	AAGAAAGAGAGAT	.	PASS	Atlas-SNP
ZNF98	148198	hgsc.bcm.edu	37	19	22585674	22585674	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	51.0	23.0	43.0	0.0	0.45098	0	.	.	none	ZNF98_ENST00000357774,NS,carcinoma,0,2	ZNF98	230	2	NM_001098626	exon3	c.C170T	p.S57F	GGCTTAGAGGCAG	.	PASS	Atlas-SNP
TRPC4	7223	hgsc.bcm.edu	37	13	38211046	38211046	+	Silent	SNP	T	T	C	rs731860	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	127.0	59.0	118.0	0.0	0.464567	0	T|0.959;C|0.041	0.041	strong	.	TRPC4	389	.	NM_003306	exon11	c.A2943G	p.R981R	TCACAATCTTGTG	.	PASS	Atlas-SNP
RPLP0	6175	hgsc.bcm.edu	37	12	120636498	120636498	+	Silent	SNP	G	G	A	rs138718343		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	201.0	86.0	153.0	0.0	0.427861	0	G|1.000;A|0.000	0.000	weak	.	RPLP0	27	.	NM_053275	exon6	c.C510T	p.S170S	GGCTTCGCTGGCT	.	PASS	Atlas-SNP
TG	7038	hgsc.bcm.edu	37	8	134145885	134145885	+	Silent	SNP	G	G	A	rs111563366	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	152.0	52.0	122.0	0.0	0.342105	0	G|0.500;A|0.500	0.500	weak	.	TG	416	.	NM_003235	exon47	c.G8169A	p.S2723S	CATCTCGTCTCTG	.	PASS	Atlas-SNP
WDR65	149465	hgsc.bcm.edu	37	1	43675539	43675539	+	Silent	SNP	G	G	A	rs148341430	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	117.0	58.0	117.0	0.0	0.495726	0	G|0.999;A|0.001	0.001	strong	.	WDR65	76	.	NM_152498	exon11	c.G1881A	p.L627L	GCCTCTGCAGAAG	.	PASS	Atlas-SNP
EPHA3	2042	hgsc.bcm.edu	37	3	89448530	89448530	+	Missense_Mutation	SNP	C	C	A	rs144696297	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	101.0	55.0	103.0	0.0	0.544554	0	C|0.999;A|0.001	0.001	strong	.	EPHA3	501	.	NM_005233	exon7	c.C1494A	p.S498R	CAGTAGCCTCAAG	.	PASS	Atlas-SNP
KALRN	8997	hgsc.bcm.edu	37	3	124044859	124044859	+	Silent	SNP	C	C	T	rs16835275	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	191.0	86.0	134.0	0.0	0.450262	0	C|0.992;T|0.008	0.008	strong	KALRN_ENST00000360013,NS,malignant_melanoma,+1,2	KALRN	556	2	NM_003947	exon7	c.C1119T	p.S373S	CATGTCCGTGGCT	.	PASS	Atlas-SNP
TTC18	118491	hgsc.bcm.edu	37	10	75037999	75037999	+	Missense_Mutation	SNP	C	C	A	rs12256262	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	251.0	120.0	224.0	1.0	0.478088	0.00446429	C|0.973;A|0.027	0.027	strong	.	TTC18	106	.	NM_145170	exon21	c.G2546T	p.W849L	GGATCCCAAGTTT	.	PASS	Atlas-SNP
ZNF516	9658	hgsc.bcm.edu	37	18	74154296	74154296	+	Missense_Mutation	SNP	C	C	T	rs12961584	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	39.0	26.0	22.0	0.0	0.666667	0	C|0.667;T|0.333	0.333	strong	.	ZNF516	102	.	NM_014643	exon3	c.G715A	p.G239S	GCTTGCCGTTCTC	.	PASS	Atlas-SNP
CD22	933	hgsc.bcm.edu	37	19	35832468	35832468	+	Missense_Mutation	SNP	T	T	C	rs369129095		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	40.0	23.0	43.0	0.0	0.575	0	.	.	weak	.	CD22	129	.	NM_001185100	exon8	c.T1730C	p.I577T	ACTCCATAGGACA	.	PASS	Atlas-SNP
ESRP2	80004	hgsc.bcm.edu	37	16	68269820	68269820	+	Silent	SNP	C	C	T	rs150603076	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	34.0	18.0	24.0	0.0	0.529412	0	C|0.997;T|0.003	0.003	strong	.	ESRP2	118	.	NM_024939	exon1	c.G129A	p.R43R	CAGGTCCCGTCCC	.	PASS	Atlas-SNP
CDK5R2	8941	hgsc.bcm.edu	37	2	219824731	219824731	+	Silent	SNP	G	G	C	rs78141300	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	23.0	13.0	3.0	0.0	0.565217	0	G|0.972;C|0.028	0.028	strong	.	CDK5R2	17	.	NM_003936	exon1	c.G189C	p.A63A	CTCGGCGCTCACC	.	PASS	Atlas-SNP
DSG3	1830	hgsc.bcm.edu	37	18	29049138	29049138	+	Missense_Mutation	SNP	C	C	T	rs61730311	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	89.0	41.0	80.0	0.0	0.460674	0	C|0.993;T|0.007	0.007	strong	.	DSG3	172	.	NM_001944	exon12	c.C1723T	p.R575W	AACAATCGGTGTG	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	37	15	63967170	63967170	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	243.0	106.0	275.0	0.0	0.436214	0	.	.	none	.	HERC1	624	.	NM_003922	exon38	c.T7217C	p.M2406T	TTGCCCATGTCTT	.	PASS	Atlas-SNP
STK11	6794	hgsc.bcm.edu	37	19	1207176	1207176	+	Silent	SNP	C	C	A	rs56354945	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	133.0	69.0	132.0	0.0	0.518797	0	C|0.980;A|0.020	0.020	strong	STK11,brain,glioma,0,2	STK11	410	2	NM_000455	exon1	c.C264A	p.I88I	AAGGATCCCCAAC	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	37	10	16877110	16877110	+	Missense_Mutation	SNP	G	G	A	rs1801230	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	138.0	55.0	112.0	0.0	0.398551	0	G|0.982;A|0.018	0.018	strong	.	CUBN	515	.	NM_001081	exon64	c.C10265T	p.T3422I	GTAACGGTGCAAT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512242	195512242	+	Missense_Mutation	SNP	G	G	A	rs75928106		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	176.0	29.0	234.0	0.0	0.164773	0	G|0.500;A|0.500	0.500	weak	.	MUC4	1505	.	NM_018406	exon2	c.C6209T	p.P2070L	GAGGAAGGGTTAG	.	PASS	Atlas-SNP
ABCG8	64241	hgsc.bcm.edu	37	2	44078913	44078913	+	Silent	SNP	C	C	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	105.0	38.0	104.0	0.0	0.361905	0	.	.	none	.	ABCG8	98	.	NM_022437	exon4	c.C513A	p.A171A	CATTGCCCAGATG	.	PASS	Atlas-SNP
NOP58	51602	hgsc.bcm.edu	37	2	203157538	203157538	+	Silent	SNP	A	A	G	rs16839032	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	119.0	62.0	117.0	0.0	0.521008	0	A|0.989;G|0.011	0.011	strong	NOP58,NS,carcinoma,0,1	NOP58	41	1	NM_015934	exon9	c.A819G	p.E273E	CTATGAATATCTA	.	PASS	Atlas-SNP
N4BP1	9683	hgsc.bcm.edu	37	16	48595110	48595110	+	Missense_Mutation	SNP	T	T	C	rs371090316		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	118.0	64.0	145.0	0.0	0.542373	0	.	.	weak	.	N4BP1	121	.	NM_153029	exon2	c.A1444G	p.I482V	TACAAATGTAGTT	.	PASS	Atlas-SNP
FMR1	2332	hgsc.bcm.edu	37	X	146993715	146993715	+	Silent	SNP	G	G	T	rs111485627	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	114.0	113.0	94.0	0.0	0.991228	0	C|0.000;G|0.987;T|0.013	0.013	strong	.	FMR1	93	.	NM_002024	exon1	c.G18T	p.V6V	GGTGGTGGAAGTG	.	PASS	Atlas-SNP
TMEM79	84283	hgsc.bcm.edu	37	1	156255560	156255560	+	Silent	SNP	G	G	A	rs140033065	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	70.0	39.0	81.0	0.0	0.557143	0	G|0.997;A|0.003	0.003	strong	.	TMEM79	43	.	NM_032323	exon2	c.G543A	p.P181P	GAGGCCGCCTGGC	.	PASS	Atlas-SNP
EGFLAM	133584	hgsc.bcm.edu	37	5	38409147	38409147	+	Silent	SNP	C	C	T	rs16903964	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	105.0	53.0	105.0	0.0	0.504762	0	C|0.949;T|0.051	0.051	strong	.	EGFLAM	302	.	NM_001205301	exon10	c.C1290T	p.N430N	GGAGAACGAACAC	.	PASS	Atlas-SNP
OAS3	4940	hgsc.bcm.edu	37	12	113400593	113400593	+	Missense_Mutation	SNP	C	C	T	rs200778728	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	119.0	57.0	111.0	0.0	0.478992	0	.	.	weak	OAS3,NS,carcinoma,-1,1	OAS3	63	1	NM_006187	exon9	c.C1970T	p.T657M	TCCGGACGGTGCT	.	PASS	Atlas-SNP
KRTAP4-6	81871	hgsc.bcm.edu	37	17	39296521	39296521	+	Silent	SNP	G	G	A	rs201084737	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	54.0	24.0	58.0	0.0	0.444444	0	G|0.996;A|0.004	0.004	strong	.	KRTAP4-6	46	.	NM_030976	exon1	c.C219T	p.T73T	GCAGCAGGTGGTC	.	PASS	Atlas-SNP
RAB3D	9545	hgsc.bcm.edu	37	19	11436221	11436221	+	Silent	SNP	A	A	G	rs12981706	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	35.0	16.0	32.0	0.0	0.457143	0	A|0.939;G|0.061;T|0.000	0.061	strong	.	RAB3D	24	.	NM_004283	exon5	c.T513C	p.N171N	CTTCACATTGATG	.	PASS	Atlas-SNP
SLX4	84464	hgsc.bcm.edu	37	16	3656645	3656645	+	Missense_Mutation	SNP	A	A	G	rs147826749	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	186.0	90.0	197.0	0.0	0.483871	0	A|0.997;G|0.003	0.003	strong	.	SLX4	173	.	NM_032444	exon3	c.T590C	p.V197A	CTTGGCACTGCTG	.	PASS	Atlas-SNP
ZNF333	84449	hgsc.bcm.edu	37	19	14829345	14829345	+	Silent	SNP	C	C	T	rs147332855	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	81.0	43.0	78.0	0.0	0.530864	0	C|0.999;T|0.001	0.001	strong	.	ZNF333	76	.	NM_032433	exon12	c.C1206T	p.A402A	GCAAGCCTTCAAA	.	PASS	Atlas-SNP
CRNN	49860	hgsc.bcm.edu	37	1	152383373	152383373	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	88.0	44.0	60.0	0.0	0.5	0	.	.	none	.	CRNN	78	.	NM_016190	exon3	c.A185T	p.D62V	TCTTCATCCAGCA	.	PASS	Atlas-SNP
HYI	81888	hgsc.bcm.edu	37	1	43917888	43917888	+	Silent	SNP	C	C	G	rs41270373	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	94.0	51.0	87.0	0.0	0.542553	0	C|0.981;G|0.019	0.019	strong	.	HYI	23	.	NM_001243526	exon4	c.G489C	p.G163G	CAAAACCCCAGCT	.	PASS	Atlas-SNP
BTN2A1	11120	hgsc.bcm.edu	37	6	26458872	26458872	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	111.0	6.0	103.0	0.0	0.0540541	0	.	.	none	.	BTN2A1	118	.	NM_001197234	exon2	c.C8T	p.S3L	TGGAATCAGCTGC	.	PASS	Atlas-SNP
COL15A1	1306	hgsc.bcm.edu	37	9	101804366	101804366	+	Missense_Mutation	SNP	T	T	C	rs35901514	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	50.0	18.0	49.0	0.0	0.36	0	T|0.993;C|0.007	0.007	strong	.	COL15A1	211	.	NM_001855	exon24	c.T2551C	p.F851L	CCTGGCTTTCCAG	.	PASS	Atlas-SNP
C20orf194	25943	hgsc.bcm.edu	37	20	3356878	3356878	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	197.0	90.0	154.0	0.0	0.456853	0	.	.	none	.	C20orf194	83	.	NM_001009984	exon4	c.C355T	p.P119S	CATAAGGTAAGAG	.	PASS	Atlas-SNP
ATP13A3	79572	hgsc.bcm.edu	37	3	194157937	194157937	+	Silent	SNP	G	G	A	rs369809078		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	83.0	41.0	95.0	0.0	0.493976	0	.	.	weak	.	ATP13A3	94	.	NM_024524	exon19	c.C2007T	p.V669V	AAAATCGACAGGA	.	PASS	Atlas-SNP
STRIP2	57464	hgsc.bcm.edu	37	7	129093179	129093179	+	Missense_Mutation	SNP	T	T	C	rs201255678		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	110.0	46.0	77.0	0.0	0.418182	0	T|0.999;C|0.001	0.001	weak	.	.	.	.	NM_020704	exon5	c.T521C	p.M174T	TCCACATGGAAAT	.	PASS	Atlas-SNP
COPG1	22820	hgsc.bcm.edu	37	3	128971751	128971751	+	Silent	SNP	C	C	T	rs73202214	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	127.0	66.0	120.0	0.0	0.519685	0	C|0.998;T|0.002	0.002	strong	.	.	.	.	NM_016128	exon5	c.C276T	p.I92I	GACCATCAAGGAG	.	PASS	Atlas-SNP
GALNTL6	442117	hgsc.bcm.edu	37	4	172735851	172735851	+	Silent	SNP	G	G	A	rs111570068	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	94.0	42.0	93.0	0.0	0.446809	0	G|0.991;A|0.009	0.009	strong	GALNTL6,NS,carcinoma,0,1	GALNTL6	102	1	NM_001034845	exon2	c.G120A	p.A40A	GTCAGCGGAGCCC	.	PASS	Atlas-SNP
USHBP1	83878	hgsc.bcm.edu	37	19	17367354	17367354	+	Silent	SNP	G	G	A	rs141680124	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	79.0	40.0	70.0	0.0	0.506329	0	G|0.992;A|0.008	0.008	strong	.	USHBP1	85	.	NM_031941	exon9	c.C1396T	p.L466L	TCCCCAGAATGGC	.	PASS	Atlas-SNP
C6	729	hgsc.bcm.edu	37	5	41161898	41161898	+	Missense_Mutation	SNP	C	C	T	rs142896559	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	137.0	74.0	131.0	0.0	0.540146	0	C|0.996;T|0.004	0.004	strong	.	C6	197	.	NM_001115131	exon10	c.G1355A	p.G452E	GCTGCTCCATATT	.	PASS	Atlas-SNP
IQUB	154865	hgsc.bcm.edu	37	7	123152157	123152157	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	293.0	139.0	299.0	0.0	0.474403	0	.	.	none	.	IQUB	117	.	NM_178827	exon2	c.G238C	p.E80Q	CCTCTTCCATGAG	.	PASS	Atlas-SNP
KCNV1	27012	hgsc.bcm.edu	37	8	110986480	110986480	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	14.0	7.0	8.0	0.0	0.5	0	.	.	none	.	KCNV1	101	.	NM_014379	exon1	c.C138T	p.G46G	GCTGCCGCCCACG	.	PASS	Atlas-SNP
OR2AE1	81392	hgsc.bcm.edu	37	7	99474438	99474438	+	Silent	SNP	A	A	G	rs139077767	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	107.0	49.0	100.0	0.0	0.457944	0	A|0.994;G|0.006	0.006	strong	.	OR2AE1	32	.	NM_001005276	exon1	c.T219C	p.H73H	GGAGACATGCATC	.	PASS	Atlas-SNP
POLR1E	64425	hgsc.bcm.edu	37	9	37498215	37498215	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	97.0	46.0	110.0	0.0	0.474227	0	.	.	none	.	POLR1E	28	.	NM_022490	exon9	c.C880T	p.R294W	GTTAAGCGGAAAA	.	PASS	Atlas-SNP
NCAPD2	9918	hgsc.bcm.edu	37	12	6634817	6634817	+	Silent	SNP	C	C	T	rs71579347	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	87.0	51.0	116.0	0.0	0.586207	0	C|0.999;T|0.001	0.001	strong	.	NCAPD2	99	.	NM_014865	exon18	c.C2283T	p.T761T	GGCCACCGAGAAG	.	PASS	Atlas-SNP
PRKCZ	5590	hgsc.bcm.edu	37	1	2105427	2105427	+	Silent	SNP	C	C	T	rs142352833	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	98.0	89.0	134.0	0.0	0.908163	0	C|0.999;T|0.001	0.001	strong	.	PRKCZ	84	.	NM_002744	exon14	c.C1377T	p.D459D	CCCGGACATGAAC	.	PASS	Atlas-SNP
UBE4A	9354	hgsc.bcm.edu	37	11	118242324	118242324	+	Silent	SNP	A	A	G	rs145949976	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	80.0	48.0	79.0	0.0	0.6	0	A|0.999;G|0.001	0.001	strong	.	UBE4A	97	.	NM_004788	exon5	c.A504G	p.A168A	AGATGCAGGAGAG	.	PASS	Atlas-SNP
HEATR5A	25938	hgsc.bcm.edu	37	14	31856407	31856407	+	Missense_Mutation	SNP	C	C	T	rs73259359	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	178.0	91.0	156.0	0.0	0.511236	0	C|0.977;T|0.023	0.023	strong	.	HEATR5A	181	.	NM_015473	exon8	c.G1108A	p.G370S	GACCACCTATAGT	.	PASS	Atlas-SNP
NLRP14	338323	hgsc.bcm.edu	37	11	7064560	7064560	+	Missense_Mutation	SNP	A	A	T	rs200574634	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	136.0	73.0	171.0	0.0	0.536765	0	A|1.000;T|0.000	0.000	strong	.	NLRP14	187	.	NM_176822	exon4	c.A1303T	p.I435L	AAAGGAATATGGA	.	PASS	Atlas-SNP
ZSCAN30	100101467	hgsc.bcm.edu	37	18	32833766	32833766	+	Missense_Mutation	SNP	A	A	C	rs61731888	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	80.0	42.0	79.0	0.0	0.525	0	A|0.975;C|0.025	0.025	strong	.	ZSCAN30	34	.	NM_001166012	exon5	c.T1133G	p.I378S	GTGTGGATTCTCC	.	PASS	Atlas-SNP
TLE3	7090	hgsc.bcm.edu	37	15	70347482	70347482	+	Missense_Mutation	SNP	G	G	A	rs200508723	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	109.0	56.0	94.0	0.0	0.513761	0	G|0.999;A|0.001	0.001	weak	.	TLE3	104	.	NM_005078	exon15	c.C1493T	p.T498M	TGCCTCGTGGGGT	.	PASS	Atlas-SNP
AP1S3	130340	hgsc.bcm.edu	37	2	224642579	224642579	+	Missense_Mutation	SNP	A	A	C	rs116107386	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	73.0	31.0	67.0	0.0	0.424658	0	A|0.993;C|0.007	0.007	strong	.	AP1S3	10	.	NM_001039569	exon2	c.T11G	p.F4C	AATATGAAATGTA	.	PASS	Atlas-SNP
MAML2	84441	hgsc.bcm.edu	37	11	95826485	95826485	+	Missense_Mutation	SNP	T	T	C	rs61749253	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	286.0	171.0	307.0	0.0	0.597902	0	T|0.990;C|0.010	0.010	strong	.	MAML2	94	.	NM_032427	exon2	c.A710G	p.Q237R	GGTGCTTGGCTCA	.	PASS	Atlas-SNP
CEP68	23177	hgsc.bcm.edu	37	2	65299330	65299330	+	Missense_Mutation	SNP	T	T	A	rs141499084	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	77.0	39.0	97.0	0.0	0.506494	0	T|0.987;A|0.013	0.013	strong	.	CEP68	69	.	NM_015147	exon3	c.T1100A	p.F367Y	TGCCATTTTCTGG	.	PASS	Atlas-SNP
CEP97	79598	hgsc.bcm.edu	37	3	101477214	101477214	+	Silent	SNP	C	C	A	rs368609945		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	65.0	21.0	54.0	0.0	0.323077	0	.	.	weak	.	CEP97	122	.	NM_024548	exon9	c.C1764A	p.I588I	CGAAATCCGGCTA	.	PASS	Atlas-SNP
SPATA6	54558	hgsc.bcm.edu	37	1	48825355	48825355	+	Missense_Mutation	SNP	G	G	A	rs1338314	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	54.0	27.0	74.0	0.0	0.5	0	G|0.975;A|0.025	0.025	strong	.	SPATA6	45	.	NM_019073	exon10	c.C997T	p.R333W	AATGCCGGGGCTT	.	PASS	Atlas-SNP
ATL2	64225	hgsc.bcm.edu	37	2	38537579	38537579	+	Missense_Mutation	SNP	T	T	C	rs34873284	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	105.0	43.0	93.0	0.0	0.409524	0	T|0.967;C|0.033	0.033	strong	.	ATL2	49	.	NM_001135673	exon8	c.A815G	p.N272S	TGTTGATTTTGTT	.	PASS	Atlas-SNP
KTN1	3895	hgsc.bcm.edu	37	14	56105908	56105908	+	Silent	SNP	C	C	T	rs80214241	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	174.0	78.0	184.0	0.0	0.448276	0	C|0.991;T|0.009	0.009	strong	.	KTN1	147	.	NM_004986	exon13	c.C1791T	p.S597S	GACCTCCGCTTCA	.	PASS	Atlas-SNP
PLA2G4A	5321	hgsc.bcm.edu	37	1	186946869	186946869	+	Missense_Mutation	SNP	A	A	G	rs28395831	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	219.0	97.0	248.0	0.0	0.442922	0	A|0.992;G|0.008	0.008	strong	.	PLA2G4A	125	.	NM_024420	exon16	c.A1909G	p.I637V	CCAACCATCATCC	.	PASS	Atlas-SNP
FOXK2	3607	hgsc.bcm.edu	37	17	80545021	80545021	+	Silent	SNP	G	G	A	rs139592674		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	125.0	69.0	126.0	0.0	0.552	0	G|1.000;A|0.000	0.000	weak	.	FOXK2	46	.	NM_004514	exon8	c.G1659A	p.P553P	CACCCCGGTCCAG	.	PASS	Atlas-SNP
LRPAP1	4043	hgsc.bcm.edu	37	4	3534042	3534042	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	130.0	60.0	65.0	0.0	0.461538	0	.	.	none	.	LRPAP1	29	.	NM_002337	exon1	c.G98T	p.G33V	TACTTGCCGCCGT	.	PASS	Atlas-SNP
C10orf120	399814	hgsc.bcm.edu	37	10	124457480	124457480	+	Silent	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	124.0	55.0	132.0	0.0	0.443548	0	.	.	none	.	C10orf120	55	.	NM_001010912	exon3	c.T777C	p.H259H	ATTTCCATGGTAT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506579	195506579	+	Missense_Mutation	SNP	T	T	C	rs71291866	alternate_allele	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	63.0	7.0	34.0	2.0	0.111111	0.0588235	CGTC|0.500;TGTT|0.500	.	alt	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.A11872G	p.T3958A	AGGAAGTGTCGGT	.	scavenged	Atlas-SNP
ASXL2	55252	hgsc.bcm.edu	37	2	25991689	25991689	+	Missense_Mutation	SNP	T	T	C	rs147191545	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	121.0	52.0	137.0	0.0	0.429752	0	T|0.998;C|0.002	0.002	strong	.	ASXL2	217	.	NM_018263	exon6	c.A553G	p.S185G	ATATGCTTGGCCT	.	PASS	Atlas-SNP
BRCA2	675	hgsc.bcm.edu	37	13	32968840	32968840	+	Missense_Mutation	SNP	G	G	A	rs80359194		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	67.0	40.0	73.0	0.0	0.597015	0	.	.	weak	.	BRCA2	812	.	NM_000059	exon25	c.G9271A	p.V3091I	CCTTTCGTCTATT	.	PASS	Atlas-SNP
ZNF781	163115	hgsc.bcm.edu	37	19	38160742	38160742	+	Missense_Mutation	SNP	T	T	C	rs149500211	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	44.0	29.0	46.0	0.0	0.659091	0	T|0.999;C|0.001	0.001	strong	.	ZNF781	66	.	NM_152605	exon4	c.A308G	p.H103R	ATAAGATGTGCAC	.	PASS	Atlas-SNP
OPLAH	26873	hgsc.bcm.edu	37	8	145108191	145108191	+	Missense_Mutation	SNP	T	T	C	rs200702041	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	152.0	63.0	124.0	0.0	0.414474	0	T|0.996;C|0.004	0.004	weak	.	OPLAH	78	.	NM_017570	exon20	c.A2792G	p.Q931R	CCCTTCTGGTTGG	.	PASS	Atlas-SNP
OR5H14	403273	hgsc.bcm.edu	37	3	97869072	97869072	+	Silent	SNP	A	A	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	228.0	106.0	276.0	0.0	0.464912	0	.	.	none	OR5H14,colon,carcinoma,+1,1	OR5H14	56	1	NM_001005514	exon1	c.A843C	p.I281I	TGTCATAGTTCCT	.	PASS	Atlas-SNP
PON1	5444	hgsc.bcm.edu	37	7	94940880	94940880	+	Missense_Mutation	SNP	A	A	C	rs144390653	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	52.0	29.0	81.0	0.0	0.557692	0	A|0.998;C|0.002	0.002	strong	PON1,NS,carcinoma,0,1	PON1	55	1	NM_000446	exon5	c.T380G	p.M127R	AGGTACATGGCAT	.	PASS	Atlas-SNP
DCHS1	8642	hgsc.bcm.edu	37	11	6647596	6647596	+	Missense_Mutation	SNP	C	C	T	rs142577975	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	67.0	40.0	50.0	0.0	0.597015	0	C|1.000;T|0.000	0.000	strong	.	DCHS1	277	.	NM_003737	exon16	c.G6380A	p.R2127H	GCTGAGCGAACTG	.	PASS	Atlas-SNP
FPGS	2356	hgsc.bcm.edu	37	9	130569258	130569258	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	84.0	42.0	69.0	0.0	0.5	0	.	.	none	.	FPGS	30	.	NM_004957	exon5	c.C393T	p.P131P	CTCTCCCCACCTG	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60885978	60885978	+	Silent	SNP	G	G	T	rs201094237	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	42.0	30.0	11.0	0.0	0.714286	0	.	.	weak	.	LAMA5	268	.	NM_005560	exon74	c.C10261A	p.R3421R	CAGGCCGGGAGCG	.	PASS	Atlas-SNP
ATOH7	220202	hgsc.bcm.edu	37	10	69991099	69991099	+	Silent	SNP	G	G	A	rs201955526	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	74.0	41.0	44.0	0.0	0.554054	0	G|0.999;A|0.001	0.001	weak	.	ATOH7	4	.	NM_145178	exon1	c.C336T	p.H112H	CTCACAGTGGAGA	.	PASS	Atlas-SNP
SLC16A4	9122	hgsc.bcm.edu	37	1	110924316	110924316	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	228.0	110.0	259.0	0.0	0.482456	0	.	.	none	.	SLC16A4	47	.	NM_004696	exon4	c.A322G	p.T108A	TACTTGTGGCCCA	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47850107	47850107	+	Missense_Mutation	SNP	G	G	A	rs8131693	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	111.0	55.0	93.0	0.0	0.495495	0	G|0.933;A|0.067	0.067	strong	.	PCNT	283	.	NM_006031	exon36	c.G7874A	p.R2625Q	TGTCCCGGTCCCT	.	PASS	Atlas-SNP
MYO7A	4647	hgsc.bcm.edu	37	11	76883797	76883797	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	88.0	45.0	105.0	0.0	0.511364	0	.	.	none	.	MYO7A	164	.	NM_001127179	exon16	c.G1801A	p.A601T	CAGGGCGCCGAGA	.	PASS	Atlas-SNP
CD276	80381	hgsc.bcm.edu	37	15	73995247	73995247	+	Missense_Mutation	SNP	C	C	T	rs142744437	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	228.0	120.0	204.0	0.0	0.526316	0	C|0.999;T|0.001	0.001	strong	.	CD276	29	.	NM_001024736	exon4	c.C553T	p.P185S	GGTGTGCCCCTGA	.	PASS	Atlas-SNP
SEZ6L	23544	hgsc.bcm.edu	37	22	26692953	26692953	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	100.0	4.0	104.0	0.0	0.04	0	.	.	none	.	SEZ6L	174	.	NM_001184777	exon4	c.G1069A	p.G357R	GTGGAGGGGCAGG	.	PASS	Atlas-SNP
RNF31	55072	hgsc.bcm.edu	37	14	24620821	24620821	+	Missense_Mutation	SNP	A	A	T	rs149481717	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	42.0	23.0	47.0	0.0	0.547619	0	A|0.998;T|0.002	0.002	strong	.	RNF31	95	.	NM_017999	exon10	c.A1865T	p.Q622L	TCCGCCAGCGCCT	.	PASS	Atlas-SNP
SLFN13	146857	hgsc.bcm.edu	37	17	33767943	33767943	+	Missense_Mutation	SNP	C	C	T	rs138317636	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	82.0	40.0	76.0	0.0	0.487805	0	C|1.000;T|0.000	0.000	strong	.	SLFN13	79	.	NM_144682	exon6	c.G2365A	p.V789M	AGGTCACTATTTG	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28459092	28459092	+	Silent	SNP	G	G	A	rs187225254	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	194.0	12.0	219.0	0.0	0.0618557	0	G|0.993;A|0.007	0.007	strong	.	HERC2	501	.	NM_004667	exon42	c.C6582T	p.D2194D	CTCGGAGTCGGGG	.	PASS	Atlas-SNP
CPED1	79974	hgsc.bcm.edu	37	7	120876835	120876835	+	Missense_Mutation	SNP	A	A	G	rs35793694	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	89.0	48.0	93.0	0.0	0.539326	0	A|0.939;G|0.061	0.061	strong	.	.	.	.	NM_001105533	exon16	c.A2123G	p.E708G	ACATTGAAGCCAT	.	PASS	Atlas-SNP
AP5Z1	9907	hgsc.bcm.edu	37	7	4827859	4827859	+	Missense_Mutation	SNP	G	G	A	rs77890266	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	154.0	68.0	136.0	0.0	0.441558	0	G|0.986;A|0.014	0.014	strong	.	.	.	.	NM_014855	exon12	c.G1529A	p.R510Q	CCTTCCGGGACCC	.	PASS	Atlas-SNP
CS	1431	hgsc.bcm.edu	37	12	56669799	56669799	+	Silent	SNP	G	G	A	rs61738833	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	215.0	104.0	163.0	0.0	0.483721	0	G|0.991;A|0.009	0.009	strong	.	CS	44	.	NM_004077	exon7	c.C769T	p.L257L	GGTACAGGCGCGT	.	PASS	Atlas-SNP
INTS3	65123	hgsc.bcm.edu	37	1	153737498	153737498	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	105.0	31.0	86.0	0.0	0.295238	0	.	.	none	.	INTS3	83	.	NM_023015	exon20	c.G2049T	p.Q683H	GAAGCAGCCCAAG	.	PASS	Atlas-SNP
ZKSCAN2	342357	hgsc.bcm.edu	37	16	25255503	25255503	+	Missense_Mutation	SNP	G	G	C	rs116889865	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	94.0	41.0	89.0	0.0	0.43617	0	G|0.999;C|0.001	0.001	strong	.	ZKSCAN2	90	.	NM_001012981	exon6	c.C1584G	p.S528R	CAATTTGCTCTTC	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	37	6	51613012	51613012	+	Silent	SNP	C	C	T	rs143737660	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	91.0	43.0	108.0	0.0	0.472527	0	C|0.999;T|0.001	0.001	strong	.	PKHD1	927	.	NM_170724	exon58	c.G9402A	p.K3134K	ACTTTCCTTATAG	.	PASS	Atlas-SNP
ADRA1D	146	hgsc.bcm.edu	37	20	4228779	4228779	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	29.0	16.0	32.0	0.0	0.551724	0	.	.	none	.	ADRA1D	36	.	NM_000678	exon1	c.C826A	p.R276S	ACACGCGGCAGTA	.	PASS	Atlas-SNP
GNAS	2778	hgsc.bcm.edu	37	20	57429163	57429163	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	63.0	22.0	53.0	0.0	0.349206	0	.	.	none	.	GNAS	867	.	NM_001077490	exon1	c.C656T	p.S219L	CGCCATCGGCAGC	.	PASS	Atlas-SNP
POLDIP3	84271	hgsc.bcm.edu	37	22	43010821	43010821	+	Missense_Mutation	SNP	C	C	T	rs61744232	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	99.0	41.0	52.0	0.0	0.414141	0	C|0.995;T|0.005	0.005	strong	.	POLDIP3	58	.	NM_178136	exon1	c.G43A	p.A15T	CCGCCGCCCCGCG	.	PASS	Atlas-SNP
TRPM5	29850	hgsc.bcm.edu	37	11	2436201	2436201	+	Missense_Mutation	SNP	C	C	T	rs202052284	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	20.0	16.0	13.0	0.0	0.8	0	C|0.998;T|0.002	0.002	weak	.	TRPM5	86	.	NM_014555	exon10	c.G1556A	p.R519Q	AGGTCCCGCCAGG	.	PASS	Atlas-SNP
ENOX1	55068	hgsc.bcm.edu	37	13	43987003	43987003	+	Missense_Mutation	SNP	C	C	G	rs7338624	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	69.0	21.0	80.0	0.0	0.304348	0	C|0.955;G|0.045	0.045	strong	.	ENOX1	158	.	NM_017993	exon4	c.G48C	p.E16D	AGGAAGCTCCTGG	.	PASS	Atlas-SNP
TXNDC2	84203	hgsc.bcm.edu	37	18	9886275	9886275	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	72.0	34.0	94.0	0.0	0.472222	0	.	.	none	.	TXNDC2	168	.	NM_001098529	exon1	c.C104T	p.A35V	GTGATGCTAATGG	.	PASS	Atlas-SNP
TAF7L	54457	hgsc.bcm.edu	37	X	100547805	100547805	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	46.0	44.0	52.0	0.0	0.956522	0	.	.	none	.	TAF7L	64	.	NM_024885	exon1	c.G229A	p.A77T	CTGGGGCCTGGGC	.	PASS	Atlas-SNP
ODF2	4957	hgsc.bcm.edu	37	9	131245130	131245130	+	Silent	SNP	G	G	A	rs139481144	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	82.0	41.0	57.0	0.0	0.5	0	G|0.999;A|0.001	0.001	strong	.	ODF2	227	.	NM_153435	exon10	c.G1143A	p.E381E	CAAGGAGGTGGAA	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46875586	46875586	+	Missense_Mutation	SNP	C	C	G	rs61749002	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	145.0	66.0	111.0	0.0	0.455172	0	C|0.976;G|0.024	0.024	strong	.	COL18A1	129	.	NM_030582	exon1	c.C142G	p.P48A	CCTGAGCCCCAGG	.	PASS	Atlas-SNP
ZNF215	7762	hgsc.bcm.edu	37	11	6977109	6977109	+	Missense_Mutation	SNP	T	T	C	rs149189074	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	108.0	51.0	74.0	0.0	0.472222	0	T|0.996;C|0.004	0.004	strong	.	ZNF215	72	.	NM_013250	exon7	c.T901C	p.F301L	GAAGATTTTGAAT	.	PASS	Atlas-SNP
RAD54B	25788	hgsc.bcm.edu	37	8	95399378	95399378	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	180.0	81.0	190.0	0.0	0.45	0	.	.	none	.	RAD54B	88	.	NM_012415	exon11	c.T1819C	p.C607R	AGCTACATTCCTT	.	PASS	Atlas-SNP
GPRIN2	9721	hgsc.bcm.edu	37	10	46998904	46998904	+	Silent	SNP	G	G	A	rs140651048	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	140.0	32.0	239.0	0.0	0.228571	0	G|0.999;A|0.001	0.001	strong	.	GPRIN2	94	.	NM_014696	exon3	c.G24A	p.P8P	CGAGCCGGGTCCC	.	PASS	Atlas-SNP
NRG1	3084	hgsc.bcm.edu	37	8	32611970	32611970	+	Missense_Mutation	SNP	G	G	T	rs74942016	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	168.0	76.0	146.0	0.0	0.452381	0	G|0.968;T|0.032	0.032	strong	.	NRG1	260	.	NM_013956	exon9	c.G796T	p.V266L	ATGTGTGTGGTGG	.	PASS	Atlas-SNP
IFT122	55764	hgsc.bcm.edu	37	3	129237966	129237966	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	100.0	42.0	81.0	0.0	0.42	0	.	.	none	.	IFT122	117	.	NM_052985	exon29	c.G3561A	p.R1187R	TCTGCGGCTAGTG	.	PASS	Atlas-SNP
MAP3K9	4293	hgsc.bcm.edu	37	14	71267772	71267772	+	Silent	SNP	G	G	A	rs147891121	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	75.0	35.0	68.0	0.0	0.466667	0	G|1.000;A|0.000	0.000	strong	.	MAP3K9	109	.	NM_033141	exon2	c.C432T	p.L144L	CAAGGTGAGCTCC	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4843307	4843307	+	Missense_Mutation	SNP	T	T	C	rs187128776	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	72.0	27.0	97.0	0.0	0.375	0	T|0.985;C|0.015	0.015	strong	RADIL,brain,glioma,0,1	RADIL	110	1	NM_018059	exon11	c.A2369G	p.N790S	AGGCAGTTGGCTT	.	PASS	Atlas-SNP
ASB17	127247	hgsc.bcm.edu	37	1	76387795	76387795	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	104.0	48.0	105.0	0.0	0.461538	0	.	.	none	.	ASB17	53	.	NM_080868	exon2	c.G651A	p.V217V	AGAAAGCACTCTG	.	PASS	Atlas-SNP
CYP3A5	1577	hgsc.bcm.edu	37	7	99273815	99273815	+	Missense_Mutation	SNP	G	G	A	rs28383468	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	124.0	50.0	88.0	0.0	0.403226	0	G|0.994;A|0.006	0.006	strong	.	CYP3A5	46	.	NM_001190484	exon2	c.C88T	p.H30Y	GTCCATGTGTACG	.	PASS	Atlas-SNP
H2AFX	3014	hgsc.bcm.edu	37	11	118965688	118965688	+	Silent	SNP	G	G	A	rs1064180	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	25.0	12.0	9.0	0.0	0.48	0	G|0.999;A|0.001	0.001	weak	.	H2AFX	8	.	NM_002105	exon1	c.C417T	p.A139A	CTGGGAGGCCTGG	.	PASS	Atlas-SNP
C1QTNF8	390664	hgsc.bcm.edu	37	16	1143496	1143496	+	Splice_Site	SNP	C	C	A	rs150337362	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	17.0	13.0	7.0	0.0	0.764706	0	C|0.984;A|0.016	0.016	strong	.	C1QTNF8	15	.	NM_207419	exon5	c.763+1G>T	.	CCCTCACCCGGCT	.	PASS	Atlas-SNP
C16orf55	124045	hgsc.bcm.edu	37	16	89724755	89724755	+	Missense_Mutation	SNP	C	C	T	rs13329897	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	84.0	35.0	62.0	0.0	0.416667	0	C|0.987;T|0.013	0.013	strong	.	C16orf55	6	.	NM_001271910	exon2	c.C137T	p.S46L	GGGAGTCGGAGAA	.	PASS	Atlas-SNP
PLXNA4	91584	hgsc.bcm.edu	37	7	131864652	131864652	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	66.0	21.0	64.0	0.0	0.318182	0	.	.	none	.	PLXNA4	873	.	NM_020911	exon20	c.C3668T	p.P1223L	ATCCCCGGGGAGT	.	PASS	Atlas-SNP
COL14A1	7373	hgsc.bcm.edu	37	8	121357700	121357700	+	Missense_Mutation	SNP	C	C	G	rs137867605	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	124.0	73.0	99.0	0.0	0.58871	0	C|0.999;G|0.001	0.001	strong	.	COL14A1	292	.	NM_021110	exon45	c.C4975G	p.P1659A	GGGGAGCCTGGGA	.	PASS	Atlas-SNP
PCDHB10	56126	hgsc.bcm.edu	37	5	140573956	140573956	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	19.0	13.0	5.0	0.0	0.684211	0	.	.	none	.	PCDHB10	177	.	NM_018930	exon1	c.G1831A	p.E611K	GCCACGGAGCCCG	.	PASS	Atlas-SNP
NLRP1	22861	hgsc.bcm.edu	37	17	5442790	5442790	+	Missense_Mutation	SNP	C	C	T	rs61754791	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	67.0	25.0	51.0	0.0	0.373134	0	A|0.000;C|0.986;T|0.014	0.014	strong	.	NLRP1	358	.	NM_033007	exon7	c.G2815A	p.V939M	GTCGCACGCCAAC	.	PASS	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057635	46057635	+	Missense_Mutation	SNP	G	G	A	rs114397261	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	145.0	85.0	142.0	0.0	0.586207	0	G|0.928;A|0.072	0.072	strong	.	KRTAP10-10	37	.	NM_181688	exon1	c.G301A	p.V101M	TGCTGTGTGCCCG	.	PASS	Atlas-SNP
ITGB4	3691	hgsc.bcm.edu	37	17	73729660	73729660	+	Missense_Mutation	SNP	G	G	A	rs61735297	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	53.0	23.0	36.0	0.0	0.433962	0	G|0.988;A|0.012	0.012	strong	ITGB4,caecum,carcinoma,0,1	ITGB4	165	1	NM_001005731	exon13	c.G1544A	p.R515H	CCGGCCGTGGGGA	.	PASS	Atlas-SNP
INPP5F	22876	hgsc.bcm.edu	37	10	121587116	121587116	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	116.0	58.0	134.0	0.0	0.5	0	.	.	none	INPP5F,NS,carcinoma,0,1	INPP5F	112	1	NM_014937	exon20	c.C3223T	p.R1075X	AAGATTCGAAGTT	.	PASS	Atlas-SNP
RPL4	6124	hgsc.bcm.edu	37	15	66791920	66791920	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	89.0	33.0	122.0	0.0	0.370787	0	.	.	none	.	RPL4	29	.	NM_000968	exon10	c.C1109T	p.A370V	GCAACCGCCGCCT	.	PASS	Atlas-SNP
KAT2A	2648	hgsc.bcm.edu	37	17	40266533	40266533	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	95.0	57.0	85.0	0.0	0.6	0	.	.	none	.	KAT2A	54	.	NM_021078	exon14	c.C2109T	p.I703I	CACAGGGATCTGC	.	PASS	Atlas-SNP
CSNK1A1L	122011	hgsc.bcm.edu	37	13	37679120	37679120	+	Missense_Mutation	SNP	G	G	C	rs139953443	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	127.0	65.0	134.0	0.0	0.511811	0	G|0.998;C|0.002	0.002	strong	.	CSNK1A1L	69	.	NM_145203	exon1	c.C274G	p.L92V	CCAGAAGGTCCAT	.	PASS	Atlas-SNP
COBLL1	22837	hgsc.bcm.edu	37	2	165551000	165551000	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	147.0	65.0	137.0	0.0	0.442177	0	.	.	none	.	COBLL1	122	.	NM_014900	exon12	c.C3016T	p.L1006L	TCTTCAGATTTTG	.	PASS	Atlas-SNP
FYB	2533	hgsc.bcm.edu	37	5	39124367	39124367	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	302.0	149.0	332.0	1.0	0.493377	0.00301205	.	.	none	.	FYB	354	.	NM_001243093	exon13	c.C2089T	p.P697S	GTTTAGGAGGAGC	.	PASS	Atlas-SNP
ZNF236	7776	hgsc.bcm.edu	37	18	74672703	74672703	+	Missense_Mutation	SNP	A	A	G	rs183845634	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	68.0	31.0	44.0	0.0	0.455882	0	A|0.999;G|0.001	0.001	strong	.	ZNF236	325	.	NM_007345	exon30	c.A5305G	p.M1769V	GTGCACATGAAGA	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	12633	12633	+	Silent	SNP	C	C	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	11.0	11.0	3.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.C297A	p.S99S	ATGGTCCATCATA	.	PASS	Atlas-SNP
GRIN2B	2904	hgsc.bcm.edu	37	12	13724742	13724742	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	163.0	7.0	144.0	0.0	0.0429448	0	.	.	none	.	GRIN2B	303	.	NM_000834	exon10	c.A2167G	p.T723A	ACCCTGTTTTCAG	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1016630	1016630	+	Silent	SNP	G	G	A	rs369775657		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	446.0	27.0	429.0	0.0	0.0605381	0	.	.	weak	.	MUC6	408	.	NM_005961	exon31	c.C6171T	p.S2057S	GTGGGTGGACCCT	.	PASS	Atlas-SNP
ZNF189	7743	hgsc.bcm.edu	37	9	104170227	104170227	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	78.0	40.0	57.0	0.0	0.512821	0	.	.	none	.	ZNF189	79	.	NM_003452	exon3	c.T177G	p.D59E	CAGAGATAAGGAT	.	PASS	Atlas-SNP
LGI3	203190	hgsc.bcm.edu	37	8	22006123	22006123	+	Silent	SNP	G	G	A	rs201271501	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	68.0	34.0	55.0	0.0	0.5	0	G|1.000;A|0.000	0.000	strong	.	LGI3	44	.	NM_139278	exon8	c.C1197T	p.P399P	GATGACGGGTGCC	.	PASS	Atlas-SNP
SLK	9748	hgsc.bcm.edu	37	10	105762933	105762933	+	Missense_Mutation	SNP	G	G	A	rs7071400	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	101.0	44.0	94.0	0.0	0.435644	0	G|0.982;A|0.018	0.018	strong	.	SLK	107	.	NM_014720	exon9	c.G1997A	p.G666E	CTTTAGGAAGTGA	.	PASS	Atlas-SNP
CASK	8573	hgsc.bcm.edu	37	X	41604809	41604809	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	127.0	126.0	70.0	0.0	0.992126	0	.	.	none	.	CASK	93	.	NM_001126054	exon4	c.C324T	p.D108D	ACCAGCGTCAGCT	.	PASS	Atlas-SNP
ISM1	140862	hgsc.bcm.edu	37	20	13251325	13251325	+	Missense_Mutation	SNP	C	C	T	rs76665689	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	93.0	47.0	90.0	0.0	0.505376	0	C|0.997;T|0.003	0.003	strong	.	ISM1	41	.	NM_080826	exon2	c.C313T	p.L105F	TTTCTCCTTGATC	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	37	MT	14767	14767	+	Silent	SNP	T	T	C	rs3135031	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	50.0	49.0	26.0	0.0	0.98	0	T|0.826;C|0.174	0.174	strong	.	.	.	.	ENST00000361789	exon1	c.T21C	p.T7T	CAAAACTAACCCC	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	216363590	216363590	+	Silent	SNP	C	C	T	rs56013136	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	86.0	42.0	115.0	0.0	0.488372	0	C|0.987;T|0.013	0.013	strong	.	USH2A	1168	.	NM_007123	exon20	c.G4371A	p.S1457S	TGCTCCCGAAGCA	.	PASS	Atlas-SNP
SDC3	9672	hgsc.bcm.edu	37	1	31349642	31349642	+	Silent	SNP	C	C	T	rs41269521	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	82.0	9.0	55.0	0.0	0.109756	0	C|0.972;G|0.000;T|0.028	0.028	strong	.	SDC3	45	.	NM_014654	exon3	c.G627A	p.R209R	AAGCCTCCGTACG	.	PASS	Atlas-SNP
CCDC34	91057	hgsc.bcm.edu	37	11	27379026	27379026	+	Missense_Mutation	SNP	C	C	T	rs138159804	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	151.0	72.0	187.0	0.0	0.476821	0	C|1.000;T|0.000	0.000	weak	.	CCDC34	48	.	NM_030771	exon2	c.G422A	p.R141H	GTCAGGCGGCTTT	.	PASS	Atlas-SNP
SDC4	6385	hgsc.bcm.edu	37	20	43964514	43964514	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	52.0	24.0	27.0	0.0	0.461538	0	.	.	none	.	SDC4	16	.	NM_002999	exon2	c.G107A	p.R36Q	AAGTATCGGCCTT	.	PASS	Atlas-SNP
ZNF442	79973	hgsc.bcm.edu	37	19	12463856	12463856	+	Missense_Mutation	SNP	T	T	C	rs73921445	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	87.0	38.0	71.0	0.0	0.436782	0	T|0.986;C|0.014	0.014	strong	.	ZNF442	102	.	NM_030824	exon4	c.A151G	p.K51E	GACTCTTCTGTGA	.	PASS	Atlas-SNP
NEIL1	79661	hgsc.bcm.edu	37	15	75641682	75641682	+	Splice_Site	SNP	T	T	C	rs5745908	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	31.0	15.0	23.0	0.0	0.483871	0	T|0.993;C|0.007	0.007	strong	.	NEIL1	36	.	NM_024608	exon2	c.434+2T>C	.	TTCAGGTAGGGCC	.	PASS	Atlas-SNP
OR52E6	390078	hgsc.bcm.edu	37	11	5862416	5862416	+	Missense_Mutation	SNP	C	C	T	rs61735020	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	123.0	60.0	125.0	0.0	0.487805	0	C|0.984;T|0.016	0.016	strong	.	OR52E6	70	.	NM_001005167	exon1	c.G712A	p.A238T	TGAGAGCTTTGAG	.	PASS	Atlas-SNP
TKTL1	8277	hgsc.bcm.edu	37	X	153537783	153537783	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	53.0	53.0	56.0	0.0	1	0	.	.	none	.	TKTL1	61	.	NM_012253	exon3	c.C339T	p.F113F	GTACTTCGACAGG	.	PASS	Atlas-SNP
FURIN	5045	hgsc.bcm.edu	37	15	91419548	91419548	+	Missense_Mutation	SNP	C	C	T	rs148110342	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	83.0	37.0	78.0	0.0	0.445783	0	C|0.998;T|0.002	0.002	strong	FURIN,NS,carcinoma,-1,1	FURIN	85	1	NM_002569	exon3	c.C241T	p.R81C	CCTCACCGCCCGC	.	PASS	Atlas-SNP
DHODH	1723	hgsc.bcm.edu	37	16	72055078	72055078	+	Silent	SNP	G	G	A	rs148523165	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	82.0	45.0	68.0	0.0	0.548781	0	G|0.996;A|0.004	0.004	strong	.	DHODH	33	.	NM_001361	exon5	c.G573A	p.A191A	CGCCGCGGAGGAC	.	PASS	Atlas-SNP
ASTN2	23245	hgsc.bcm.edu	37	9	119448979	119448979	+	Missense_Mutation	SNP	C	C	T	rs10983304	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	47.0	22.0	55.0	0.0	0.468085	0	C|0.979;T|0.021	0.021	strong	.	ASTN2	307	.	NM_198186	exon1	c.G106A	p.E36K	TACCTTCAGTCTG	.	PASS	Atlas-SNP
PDSS1	23590	hgsc.bcm.edu	37	10	27035396	27035396	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	74.0	31.0	82.0	0.0	0.418919	0	.	.	none	.	PDSS1	36	.	NM_014317	exon12	c.T1242A	p.D414E	AAGAGATAAATGA	.	PASS	Atlas-SNP
UBXN11	91544	hgsc.bcm.edu	37	1	26608849	26608849	+	Missense_Mutation	SNP	T	T	A	rs199707978		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	40.0	16.0	25.0	0.0	0.4	0	.	.	weak	.	UBXN11	54	.	NM_183008	exon16	c.A1504T	p.S502C	CGGGACTGGGGCC	.	PASS	Atlas-SNP
PEX13	5194	hgsc.bcm.edu	37	2	61258816	61258816	+	Missense_Mutation	SNP	G	G	A	rs147707348	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	132.0	70.0	157.0	0.0	0.530303	0	G|0.998;A|0.002	0.002	strong	.	PEX13	27	.	NM_002618	exon2	c.G355A	p.V119I	AGATTTGTTCAGC	.	PASS	Atlas-SNP
CRMP1	1400	hgsc.bcm.edu	37	4	5837708	5837708	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	183.0	77.0	175.0	0.0	0.420765	0	.	.	none	CRMP1,NS,carcinoma,-1,2	CRMP1	118	2	NM_001014809	exon11	c.G1557A	p.S519S	GGCATCCGAGCCC	.	PASS	Atlas-SNP
GADL1	339896	hgsc.bcm.edu	37	3	30819751	30819751	+	Missense_Mutation	SNP	C	C	T	rs143542109	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	259.0	117.0	235.0	0.0	0.451737	0	C|0.995;T|0.005	0.005	strong	.	GADL1	91	.	NM_207359	exon14	c.G1312A	p.A438T	TATTGGCATATTC	.	PASS	Atlas-SNP
PLK1	5347	hgsc.bcm.edu	37	16	23701313	23701313	+	Missense_Mutation	SNP	C	C	T	rs34359215	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	50.0	18.0	51.0	0.0	0.36	0	.	.	weak	.	PLK1	67	.	NM_005030	exon10	c.C1741T	p.R581C	CGGCTCCGCTACG	.	PASS	Atlas-SNP
YIPF2	78992	hgsc.bcm.edu	37	19	11036415	11036415	+	Missense_Mutation	SNP	C	C	T	rs148361413	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	83.0	49.0	58.0	0.0	0.590361	0	C|1.000;T|0.000	0.000	strong	.	YIPF2	13	.	NM_024029	exon5	c.G314A	p.R105Q	CCAGGCCGGGGCA	.	PASS	Atlas-SNP
FLRT2	23768	hgsc.bcm.edu	37	14	86089032	86089032	+	Missense_Mutation	SNP	A	A	G	rs137990800	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	81.0	42.0	79.0	0.0	0.518519	0	A|0.999;G|0.001	0.001	strong	.	FLRT2	168	.	NM_013231	exon2	c.A1174G	p.S392G	AACCCTAGCAGAA	.	PASS	Atlas-SNP
CREBBP	1387	hgsc.bcm.edu	37	16	3788618	3788618	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	53.0	22.0	54.0	0.0	0.415094	0	.	.	none	CREBBP,rectum,carcinoma,0,21	CREBBP	546	21	NM_004380	exon26	c.C4336T	p.R1446C	CTGTGCGGAGGCA	.	PASS	Atlas-SNP
CD1D	912	hgsc.bcm.edu	37	1	158151892	158151892	+	Silent	SNP	T	T	C	rs140563679	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	218.0	107.0	201.0	0.0	0.490826	0	T|0.999;C|0.001	0.001	strong	.	CD1D	60	.	NM_001766	exon4	c.T399C	p.H133H	CTTCCATGTAGCA	.	PASS	Atlas-SNP
EXOC3L1	283849	hgsc.bcm.edu	37	16	67222676	67222676	+	Silent	SNP	G	G	A	rs13334403	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	141.0	72.0	124.0	0.0	0.510638	0	G|0.920;A|0.080	0.080	strong	LOC283849,NS,carcinoma,-1,2	EXOC3L1	52	2	NM_178516	exon4	c.C375T	p.A125A	GTGCTGGGCAACC	.	PASS	Atlas-SNP
FGFR3	2261	hgsc.bcm.edu	37	4	1803704	1803704	+	Silent	SNP	T	T	C	rs2234909	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	108.0	45.0	88.0	1.0	0.416667	0.0113636	T|0.799;C|0.201	0.201	strong	FGFR3_ENST00000340107,caecum,carcinoma,+2,11	FGFR3	3320	11	NM_001163213	exon7	c.T882C	p.N294N	GGTGAATGGCAGC	.	scavenged	Atlas-SNP
HFM1	164045	hgsc.bcm.edu	37	1	91809036	91809036	+	Silent	SNP	T	T	C	rs148872247	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	246.0	113.0	211.0	0.0	0.45935	0	T|0.999;C|0.001	0.001	strong	.	HFM1	188	.	NM_001017975	exon20	c.A2286G	p.S762S	CAGGGATGATAAA	.	PASS	Atlas-SNP
NR4A2	4929	hgsc.bcm.edu	37	2	157184995	157184995	+	Silent	SNP	G	G	A	rs201103933		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	215.0	102.0	207.0	0.0	0.474419	0	G|0.999;A|0.001	0.001	weak	.	NR4A2	82	.	NM_006186	exon4	c.C915T	p.C305C	CACTGGGCAGTTT	.	PASS	Atlas-SNP
ATP5J2-PTCD1	100526740	hgsc.bcm.edu	37	7	99032559	99032559	+	Missense_Mutation	SNP	G	G	A	rs150504114	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	137.0	76.0	144.0	0.0	0.554745	0	G|0.991;A|0.009	0.009	strong	.	.	.	.	NM_001198879	exon3	c.C454T	p.R152C	ATTTGCGGAATAG	.	PASS	Atlas-SNP
LZIC	84328	hgsc.bcm.edu	37	1	9992024	9992024	+	Missense_Mutation	SNP	C	C	G	rs146375448	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	104.0	7.0	68.0	0.0	0.0673077	0	C|0.999;G|0.001	0.001	strong	LZIC,NS,carcinoma,+1,1	LZIC	11	1	NM_032368	exon6	c.G439C	p.A147P	CATCTGCAGTCAG	.	PASS	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	37	16	2161087	2161087	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	122.0	64.0	66.0	0.0	0.52459	0	.	.	none	.	PKD1	184	.	NM_000296	exon15	c.C4081G	p.L1361V	TGGACAGCACCAG	.	PASS	Atlas-SNP
COL17A1	1308	hgsc.bcm.edu	37	10	105836066	105836066	+	Silent	SNP	C	C	T	rs61731085	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	142.0	70.0	132.0	0.0	0.492958	0	C|0.988;T|0.012	0.012	strong	.	COL17A1	149	.	NM_000494	exon5	c.G324A	p.A108A	TTCATACGCATGG	.	PASS	Atlas-SNP
PLEKHB1	58473	hgsc.bcm.edu	37	11	73371842	73371842	+	Silent	SNP	C	C	G	rs147173613	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	103.0	48.0	69.0	0.0	0.466019	0	C|0.993;G|0.007	0.007	strong	.	PLEKHB1	16	.	NM_021200	exon7	c.C540G	p.P180P	GGTGCCCCCCAAT	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4876100	4876100	+	Silent	SNP	G	G	A	rs138811640	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	19.0	17.0	8.0	0.0	0.894737	0	G|0.987;A|0.013	0.013	strong	RADIL,brain,glioma,0,2	RADIL	110	2	NM_018059	exon3	c.C672T	p.N224N	CAGGGCGTTCACT	.	PASS	Atlas-SNP
PBDC1	51260	hgsc.bcm.edu	37	X	75394784	75394784	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	99.0	99.0	97.0	0.0	1	0	.	.	none	.	.	.	.	NM_016500	exon3	c.G156T	p.K52N	TTACAAGGTGAGT	.	PASS	Atlas-SNP
RHPN2	85415	hgsc.bcm.edu	37	19	33482821	33482821	+	Missense_Mutation	SNP	G	G	A	rs79314177	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	204.0	113.0	173.0	0.0	0.553922	0	G|0.974;A|0.026	0.026	strong	.	RHPN2	107	.	NM_033103	exon13	c.C1552T	p.R518C	TGAAGCGGATGCT	.	PASS	Atlas-SNP
MMRN1	22915	hgsc.bcm.edu	37	4	90857518	90857518	+	Missense_Mutation	SNP	T	T	A	rs200343754	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	111.0	52.0	116.0	0.0	0.468468	0	T|0.999;A|0.001	0.001	weak	.	MMRN1	174	.	NM_007351	exon6	c.T2687A	p.L896Q	TTCAACTGCAAGT	.	PASS	Atlas-SNP
PCDH17	27253	hgsc.bcm.edu	37	13	58207711	58207711	+	Missense_Mutation	SNP	G	G	T	rs41292834	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	31.0	21.0	22.0	0.0	0.677419	0	G|0.993;T|0.007	0.007	strong	.	PCDH17	304	.	NM_001040429	exon1	c.G1031T	p.R344L	TCGACCGCAACGA	.	PASS	Atlas-SNP
HFM1	164045	hgsc.bcm.edu	37	1	91816313	91816313	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	108.0	53.0	65.0	0.0	0.490741	0	.	.	none	.	HFM1	188	.	NM_001017975	exon18	c.A2188G	p.K730E	GATTTTTCAAGGC	.	PASS	Atlas-SNP
ATM	472	hgsc.bcm.edu	37	11	108163487	108163487	+	Silent	SNP	C	C	T	rs1800889	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	147.0	67.0	164.0	0.0	0.455782	0	C|0.972;T|0.028	0.028	strong	.	ATM	1657	.	NM_000051	exon30	c.C4578T	p.P1526P	TATACCCCTTGTG	.	PASS	Atlas-SNP
NAT6	24142	hgsc.bcm.edu	37	3	50334592	50334592	+	Silent	SNP	G	G	A	rs374560438		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	131.0	74.0	112.0	0.0	0.564885	0	.	.	weak	.	NAT6	14	.	NM_012191	exon2	c.C369T	p.F123F	GAGGGGGAAGGCA	.	PASS	Atlas-SNP
SLFNL1	200172	hgsc.bcm.edu	37	1	41482917	41482917	+	Missense_Mutation	SNP	A	A	G	rs147062455	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	51.0	48.0	44.0	0.0	0.941176	0	A|0.998;G|0.002	0.002	strong	.	SLFNL1	37	.	NM_001168247	exon5	c.T1090C	p.W364R	TGCACCACTCCTG	.	PASS	Atlas-SNP
MSH6	2956	hgsc.bcm.edu	37	2	48027375	48027375	+	Silent	SNP	T	T	C	rs2020913	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	101.0	47.0	108.0	0.0	0.465347	0	T|0.980;C|0.020	0.020	strong	.	MSH6	341	.	NM_000179	exon4	c.T2253C	p.N751N	AACAAATGGTTCT	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82785304	82785304	+	Missense_Mutation	SNP	G	G	A	rs61738783	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	238.0	134.0	235.0	1.0	0.563025	0.00425532	G|0.989;A|0.011	0.011	strong	Q9Y6V0-3,NS,carcinoma,+1,5	PCLO	1506	5	NM_014510	exon2	c.C653T	p.P218L	GGAATCGGCTTGG	.	PASS	Atlas-SNP
ANK3	288	hgsc.bcm.edu	37	10	61832131	61832131	+	Silent	SNP	A	A	G	rs11815168	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	116.0	67.0	121.0	0.0	0.577586	0	A|0.995;G|0.005	0.005	strong	.	ANK3	703	.	NM_020987	exon37	c.T8508C	p.H2836H	GGTTATATGACAT	.	PASS	Atlas-SNP
PI16	221476	hgsc.bcm.edu	37	6	36926952	36926952	+	Missense_Mutation	SNP	A	A	G	rs113848006	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	107.0	54.0	96.0	0.0	0.504673	0	A|0.982;G|0.018	0.018	strong	.	PI16	50	.	NM_001199159	exon3	c.A203G	p.K68R	TCGCCAAGGCCTA	.	PASS	Atlas-SNP
VPS13B	157680	hgsc.bcm.edu	37	8	100443885	100443885	+	Missense_Mutation	SNP	C	C	T	rs61753722	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	19.0	7.0	17.0	0.0	0.368421	0	C|0.994;T|0.006	0.006	strong	.	VPS13B	811	.	NM_152564	exon22	c.C3203T	p.T1068I	ATCTCACACTACA	.	PASS	Atlas-SNP
ASPSCR1	79058	hgsc.bcm.edu	37	17	79941511	79941511	+	Silent	SNP	C	C	T	rs11539917	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	56.0	31.0	55.0	0.0	0.553571	0	C|0.988;T|0.012	0.012	strong	ASPSCR1_ENST00000306729,colon,carcinoma,0,1	ASPSCR1	27	1	NM_001251888	exon3	c.C240T	p.P80P	GGTGCCCGCTTCC	.	PASS	Atlas-SNP
DCP2	167227	hgsc.bcm.edu	37	5	112349109	112349109	+	Silent	SNP	C	C	T	rs149633478	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	81.0	36.0	84.0	0.0	0.444444	0	C|0.999;T|0.001	0.001	strong	.	DCP2	34	.	NM_152624	exon11	c.C1191T	p.F397F	CAAGTTCCCCTTT	.	PASS	Atlas-SNP
KITLG	4254	hgsc.bcm.edu	37	12	88900891	88900891	+	Missense_Mutation	SNP	C	C	A	rs41283112	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	29.0	14.0	46.0	0.0	0.482759	0	C|0.991;A|0.009	0.009	strong	.	KITLG	26	.	NM_000899	exon7	c.G628T	p.D210Y	TGGAGTCTCCAGG	.	PASS	Atlas-SNP
SLC25A22	79751	hgsc.bcm.edu	37	11	794790	794790	+	Silent	SNP	G	G	A	rs146402942	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	148.0	73.0	140.0	0.0	0.493243	0	G|0.999;A|0.001	0.001	strong	.	SLC25A22	19	.	NM_001191061	exon3	c.C132T	p.R44R	GTACACGCGCTGG	.	PASS	Atlas-SNP
DCAF4L1	285429	hgsc.bcm.edu	37	4	41984782	41984782	+	Missense_Mutation	SNP	G	G	A	rs369307123		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	205.0	86.0	156.0	0.0	0.419512	0	.	.	weak	.	DCAF4L1	70	.	NM_001029955	exon1	c.G973A	p.E325K	CACGAGGAAGAGG	.	PASS	Atlas-SNP
PEBP4	157310	hgsc.bcm.edu	37	8	22570904	22570904	+	Silent	SNP	C	C	T	rs61732772	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	108.0	58.0	129.0	0.0	0.537037	0	C|0.986;T|0.014	0.014	strong	.	PEBP4	23	.	NM_144962	exon7	c.G663A	p.Q221Q	CTCCGCCTGGTTT	.	PASS	Atlas-SNP
ATAD3A	55210	hgsc.bcm.edu	37	1	1458150	1458150	+	Silent	SNP	T	T	C	rs1135025	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	384.0	346.0	255.0	1.0	0.901042	0.00392157	T|0.991;C|0.009	0.009	strong	.	ATAD3A	35	.	NM_018188	exon8	c.T921C	p.V307V	GGCTGTTGGGGTC	.	PASS	Atlas-SNP
C7orf33	202865	hgsc.bcm.edu	37	7	148288135	148288135	+	Silent	SNP	C	C	T	rs111320068	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	116.0	57.0	89.0	0.0	0.491379	0	C|0.974;T|0.026	0.026	strong	.	C7orf33	28	.	NM_145304	exon1	c.C118T	p.L40L	CTTCGCCTGAGTG	.	PASS	Atlas-SNP
MS4A6A	64231	hgsc.bcm.edu	37	11	59945789	59945789	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	130.0	60.0	98.0	0.0	0.461538	0	.	.	none	.	MS4A6A	85	.	NM_001247999	exon5	c.T367C	p.F123L	TGATAAACTAAGA	.	PASS	Atlas-SNP
OR13A1	79290	hgsc.bcm.edu	37	10	45799451	45799451	+	Silent	SNP	C	C	T	rs17157674	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	81.0	37.0	59.0	0.0	0.45679	0	C|0.992;T|0.008	0.008	strong	.	OR13A1	49	.	NM_001004297	exon4	c.G420A	p.R140R	TGCGTACCGGTCA	.	PASS	Atlas-SNP
PLEKHH1	57475	hgsc.bcm.edu	37	14	68022572	68022572	+	Missense_Mutation	SNP	G	G	A	rs200379117		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	263.0	120.0	256.0	1.0	0.456274	0.00390625	.	.	weak	.	PLEKHH1	118	.	NM_020715	exon3	c.G157A	p.A53T	CTGGAGGCAGAGC	.	PASS	Atlas-SNP
ZSCAN1	284312	hgsc.bcm.edu	37	19	58549395	58549395	+	Missense_Mutation	SNP	G	G	A	rs369859464		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	24.0	12.0	12.0	0.0	0.5	0	.	.	weak	.	ZSCAN1	102	.	NM_182572	exon3	c.G191A	p.R64H	TGTGCCGCCAGTG	.	PASS	Atlas-SNP
MICALCL	84953	hgsc.bcm.edu	37	11	12313845	12313845	+	Splice_Site	SNP	G	G	A	rs200949393	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	100.0	52.0	87.0	0.0	0.52	0	.	.	weak	.	MICALCL	59	.	NM_032867	exon2	c.129+1G>A	.	CCTCAGGTGAGTG	.	PASS	Atlas-SNP
GRIN2D	2906	hgsc.bcm.edu	37	19	48908452	48908452	+	Silent	SNP	G	G	A	rs369747884		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	21.0	13.0	8.0	0.0	0.619048	0	.	.	weak	.	GRIN2D	76	.	NM_000836	exon3	c.G927A	p.S309S	GCGCTCGGCTGGC	.	PASS	Atlas-SNP
RPRD2	23248	hgsc.bcm.edu	37	1	150445058	150445058	+	Missense_Mutation	SNP	C	C	T	rs201108869	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	132.0	76.0	127.0	0.0	0.575758	0	.	.	weak	.	RPRD2	189	.	NM_015203	exon11	c.C3634T	p.P1212S	GTGGGGCCATCAT	.	PASS	Atlas-SNP
BTG1	694	hgsc.bcm.edu	37	12	92539246	92539246	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	164.0	8.0	110.0	0.0	0.0487805	0	.	.	none	.	BTG1	30	.	NM_001731	exon1	c.C66T	p.I22I	CTTGGAGATGAAG	.	PASS	Atlas-SNP
HIST1H4B	8366	hgsc.bcm.edu	37	6	26027286	26027286	+	Silent	SNP	G	G	A	rs115249469	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	116.0	66.0	87.0	0.0	0.568965	0	G|0.998;A|0.002	0.002	strong	.	HIST1H4B	27	.	NM_003544	exon1	c.C195T	p.N65N	GATCACGTTCTCC	.	PASS	Atlas-SNP
RBMX	27316	hgsc.bcm.edu	37	X	135961560	135961560	+	Missense_Mutation	SNP	C	C	G	rs80321628	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	158.0	35.0	123.0	0.0	0.221519	0	.	.	weak	.	RBMX	149	.	NM_001164803	exon2	c.G27C	p.K9N	GAAGAGCTTTCCT	.	PASS	Atlas-SNP
NXPE3	91775	hgsc.bcm.edu	37	3	101540552	101540552	+	Silent	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	124.0	63.0	139.0	0.0	0.508065	0	.	.	none	.	.	.	.	NM_145037	exon8	c.G1434T	p.V478V	GACCGTGGTGGTC	.	PASS	Atlas-SNP
MSX1	4487	hgsc.bcm.edu	37	4	4864582	4864582	+	Silent	SNP	G	G	T	rs369820958		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	119.0	70.0	100.0	0.0	0.588235	0	.	.	weak	MSX1,NS,carcinoma,+1,1	MSX1	19	1	NM_002448	exon2	c.G624T	p.S208S	CAGCTCGCTCAGC	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134691496	134691496	+	Missense_Mutation	SNP	A	A	C	rs187274296	by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	231.0	28.0	265.0	0.0	0.121212	0	A|0.993;C|0.007	0.007	strong	.	TTC40	100	.	NM_001200049	exon30	c.T4101G	p.N1367K	CCTCTCATTCTCC	.	PASS	Atlas-SNP
GSTA3	2940	hgsc.bcm.edu	37	6	52767193	52767193	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	202.0	84.0	148.0	0.0	0.415842	0	.	.	none	.	GSTA3	21	.	NM_000847	exon4	c.A223G	p.I75V	TGGCAATGTAGTT	.	PASS	Atlas-SNP
SNAPC3	6619	hgsc.bcm.edu	37	9	15459821	15459821	+	Missense_Mutation	SNP	A	A	C	rs3087653	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	134.0	72.0	95.0	0.0	0.537313	0	A|0.956;C|0.044	0.044	strong	.	SNAPC3	28	.	NM_001039697	exon9	c.A1193C	p.E398A	TGGGGGAATTCCT	.	PASS	Atlas-SNP
MED17	9440	hgsc.bcm.edu	37	11	93529674	93529674	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	83.0	4.0	55.0	0.0	0.0481928	0	.	.	none	.	MED17	37	.	NM_004268	exon7	c.C1111T	p.L371L	TATGTCCTAGAGC	.	PASS	Atlas-SNP
USP17L7	392197	hgsc.bcm.edu	37	8	11990882	11990882	+	Missense_Mutation	SNP	C	C	T	rs9720235	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	6.0	6.0	5.0	0.0	1	0	C|0.499;T|0.501	0.501	strong	.	.	.	.	NM_001256869	exon1	c.G637A	p.V213I	CTGAAACGCCGTG	.	PASS	Atlas-SNP
FBXW8	26259	hgsc.bcm.edu	37	12	117402583	117402583	+	Missense_Mutation	SNP	G	G	C	rs141777878	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	83.0	47.0	93.0	0.0	0.566265	0	G|0.999;C|0.001	0.001	strong	.	FBXW8	53	.	NM_153348	exon5	c.G759C	p.E253D	CGAGGAGGATGAG	.	PASS	Atlas-SNP
UBR1	197131	hgsc.bcm.edu	37	15	43299467	43299467	+	Missense_Mutation	SNP	A	A	C	rs141543407	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	69.0	37.0	83.0	0.0	0.536232	0	A|0.999;C|0.001	0.001	strong	.	UBR1	124	.	NM_174916	exon30	c.T3225G	p.S1075R	GTAGTCACTGACT	.	PASS	Atlas-SNP
AZU1	566	hgsc.bcm.edu	37	19	831865	831865	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	67.0	30.0	41.0	0.0	0.447761	0	.	.	none	.	AZU1	31	.	NM_001700	exon5	c.G744A	p.P248P	GGGACCGGGGCCA	.	PASS	Atlas-SNP
LPPR1	0	hgsc.bcm.edu	37	9	103947810	103947810	+	Missense_Mutation	SNP	T	T	G	rs41296085	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	207.0	99.0	214.0	1.0	0.478261	0.0046729	T|0.990;G|0.010	0.010	strong	.	.	.	.	NM_207299	exon2	c.T34G	p.S12A	AGTTATTCCATCA	.	PASS	Atlas-SNP
IGF2BP2	10644	hgsc.bcm.edu	37	3	185542653	185542653	+	Silent	SNP	T	T	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	187.0	81.0	132.0	0.0	0.433155	0	.	.	none	.	IGF2BP2	69	.	NM_001007225	exon1	c.A96T	p.G32G	GACCTGTCCCGCC	.	PASS	Atlas-SNP
TBC1D14	57533	hgsc.bcm.edu	37	4	7006636	7006636	+	Missense_Mutation	SNP	G	G	C	rs11731231	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	57.0	27.0	62.0	0.0	0.473684	0	G|0.997;C|0.003	0.003	strong	.	TBC1D14	110	.	NM_001113361	exon8	c.G1336C	p.E446Q	GGCTCTGAAGTGG	.	PASS	Atlas-SNP
RAD50	10111	hgsc.bcm.edu	37	5	131924538	131924538	+	Missense_Mutation	SNP	A	A	G	rs200017020	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	174.0	95.0	182.0	0.0	0.545977	0	A|1.000;G|0.000	0.000	strong	.	RAD50	246	.	NM_005732	exon8	c.A1211G	p.Q404R	AGAGACAAGAAGG	.	PASS	Atlas-SNP
FGFR2	2263	hgsc.bcm.edu	37	10	123239112	123239112	+	Silent	SNP	G	G	A	rs1047057	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	102.0	100.0	84.0	0.0	0.980392	0	G|0.609;A|0.391	0.391	strong	FGFR2_ENST00000357555,NS,carcinoma,0,1	FGFR2	758	1	NM_001144915	exon17	c.C2107T	p.L703L	CAGCCAGTACGCA	.	PASS	Atlas-SNP
MPDZ	8777	hgsc.bcm.edu	37	9	13183486	13183486	+	Silent	SNP	T	T	C	rs34704118	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	91.0	41.0	109.0	0.0	0.450549	0	T|0.997;C|0.003	0.003	strong	MPDZ_ENST00000541718,colon,carcinoma,-2,2	MPDZ	324	2	NM_003829	exon19	c.A2580G	p.L860L	AAGAGATAAAATA	.	PASS	Atlas-SNP
DNMT3L	29947	hgsc.bcm.edu	37	21	45675997	45675997	+	Missense_Mutation	SNP	C	C	T	rs142917827	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	183.0	98.0	139.0	0.0	0.535519	0	C|0.999;T|0.001	0.001	strong	.	DNMT3L	33	.	NM_013369	exon7	c.G557A	p.R186K	TGTCTCCTCCACA	.	PASS	Atlas-SNP
STK16	8576	hgsc.bcm.edu	37	2	220113145	220113145	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	91.0	42.0	107.0	0.0	0.461538	0	.	.	none	.	STK16	22	.	NM_001008910	exon8	c.A782G	p.H261R	ACAGGCATTCTTC	.	PASS	Atlas-SNP
ZNF570	148268	hgsc.bcm.edu	37	19	37975379	37975379	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	39.0	16.0	35.0	0.0	0.410256	0	.	.	none	.	ZNF570	58	.	NM_144694	exon5	c.G855A	p.Q285Q	CAGTCAGAATGCA	.	PASS	Atlas-SNP
SPATA31D1	389763	hgsc.bcm.edu	37	9	84605344	84605344	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	138.0	59.0	137.0	0.0	0.427536	0	.	.	none	.	.	.	.	NM_001001670	exon3	c.G245A	p.W82X	CAGACTGGAAAAG	.	PASS	Atlas-SNP
HELZ	9931	hgsc.bcm.edu	37	17	65103373	65103373	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	315.0	147.0	306.0	0.0	0.466667	0	.	.	none	.	HELZ	160	.	NM_014877	exon31	c.A5153G	p.Q1718R	TGATTCTGTATTT	.	PASS	Atlas-SNP
POLR3A	11128	hgsc.bcm.edu	37	10	79744042	79744042	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	77.0	34.0	70.0	0.0	0.441558	0	.	.	none	.	POLR3A	104	.	NM_007055	exon25	c.C3257A	p.T1086K	TGTGCTGTGATAA	.	PASS	Atlas-SNP
METTL4	64863	hgsc.bcm.edu	37	18	2554915	2554915	+	Silent	SNP	G	G	A	rs61749937	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	172.0	71.0	201.0	0.0	0.412791	0	G|0.984;A|0.016	0.016	strong	.	METTL4	40	.	NM_022840	exon4	c.C582T	p.D194D	GCAGGCGTCAAGT	.	PASS	Atlas-SNP
TCP10L2	401285	hgsc.bcm.edu	37	6	167592571	167592571	+	Missense_Mutation	SNP	G	G	A	rs28690444	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	61.0	15.0	113.0	0.0	0.245902	0	G|0.965;A|0.035	0.035	strong	.	TCP10L2	41	.	NM_001145121	exon6	c.G730A	p.A244T	CAGGCCGCCACGC	.	PASS	Atlas-SNP
ABR	29	hgsc.bcm.edu	37	17	1028676	1028676	+	Missense_Mutation	SNP	C	C	T	rs117732533	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	71.0	38.0	56.0	0.0	0.535211	0	C|0.992;T|0.008	0.008	strong	.	ABR	119	.	NM_021962	exon2	c.G88A	p.D30N	CTCCGTCGTACTC	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017522	1017522	+	Missense_Mutation	SNP	T	T	G	rs199592093	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	596.0	32.0	479.0	0.0	0.0536913	0	.	.	weak	.	MUC6	408	.	NM_005961	exon31	c.A5279C	p.E1760A	GTGACTTCAGGAT	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46875683	46875683	+	Missense_Mutation	SNP	C	C	G	rs61739237	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	114.0	47.0	107.0	0.0	0.412281	0	C|0.976;G|0.024	0.024	strong	.	COL18A1	129	.	NM_030582	exon1	c.C239G	p.P80R	GCAGCCCTGAGCC	.	PASS	Atlas-SNP
DHCR7	1717	hgsc.bcm.edu	37	11	71152459	71152459	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	142.0	68.0	155.0	0.0	0.478873	0	.	.	none	DHCR7_ENST00000355527,NS,haematopoietic_neoplasm,-1,2	DHCR7	98	2	NM_001163817	exon6	c.G440A	p.G147D	TGCAGGCCATTGA	.	PASS	Atlas-SNP
KIR3DL1	3811	hgsc.bcm.edu	37	19	55329851	55329851	+	Missense_Mutation	SNP	A	A	G	rs145262243	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	35.0	20.0	26.0	0.0	0.571429	0	A|0.992;G|0.008	0.008	strong	.	KIR3DL1	174	.	NM_013289	exon3	c.A152G	p.Y51C	GTCACTATCGTCA	.	PASS	Atlas-SNP
TRIM17	51127	hgsc.bcm.edu	37	1	228602459	228602459	+	Silent	SNP	G	G	A	rs142505325	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	122.0	56.0	115.0	0.0	0.459016	0	G|0.999;A|0.001	0.001	strong	.	TRIM17	66	.	NM_001024940	exon2	c.C315T	p.P105P	CTTGAGGGGCTCG	.	PASS	Atlas-SNP
KCNK13	56659	hgsc.bcm.edu	37	14	90651079	90651079	+	Missense_Mutation	SNP	G	G	A	rs150186575	bycluster;by1000genomes;alternate_allele	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	141.0	74.0	129.0	0.0	0.524823	0	G|0.999;T|0.001	.	alt	.	KCNK13	76	.	NM_022054	exon2	c.G959A	p.R320Q	GCGTCCGGAACCG	.	PASS	Atlas-SNP
DST	667	hgsc.bcm.edu	37	6	56505175	56505175	+	Silent	SNP	T	T	A	rs113432929	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	156.0	69.0	168.0	0.0	0.442308	0	T|0.997;A|0.003	0.003	strong	.	DST	1427	.	NM_001723	exon4	c.A645T	p.S215S	CATCCCTGATGAC	.	PASS	Atlas-SNP
MAP4K1	11184	hgsc.bcm.edu	37	19	39101772	39101772	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	164.0	65.0	117.0	0.0	0.396341	0	.	.	none	.	MAP4K1	165	.	NM_007181	exon11	c.G729A	p.W243X	AGCCGACCTTGGG	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225155191	225155191	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	90.0	37.0	94.0	0.0	0.411111	0	.	.	none	.	DNAH14	300	.	NM_144989	exon6	c.C557G	p.S186C	CTAAATCCCTTTA	.	PASS	Atlas-SNP
LRIG1	26018	hgsc.bcm.edu	37	3	66432717	66432717	+	Missense_Mutation	SNP	T	T	C	rs148946048	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	100.0	55.0	113.0	0.0	0.55	0	T|0.995;C|0.005	0.005	strong	.	LRIG1	138	.	NM_015541	exon16	c.A2597G	p.N866S	TGCCCATTGGCCT	.	PASS	Atlas-SNP
JPH3	57338	hgsc.bcm.edu	37	16	87678302	87678302	+	Missense_Mutation	SNP	C	C	T	rs144403955	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	60.0	34.0	46.0	0.0	0.566667	0	C|0.998;T|0.002	0.002	strong	.	JPH3	95	.	NM_020655	exon2	c.C821T	p.A274V	AGCTGGCGGTCAT	.	PASS	Atlas-SNP
FOXK2	3607	hgsc.bcm.edu	37	17	80543901	80543901	+	Silent	SNP	C	C	T	rs61737960	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	98.0	48.0	85.0	0.0	0.489796	0	C|0.986;T|0.014	0.014	strong	.	FOXK2	46	.	NM_004514	exon7	c.C1401T	p.V467V	ACCCGTCGTGCAG	.	PASS	Atlas-SNP
HNF1A	6927	hgsc.bcm.edu	37	12	121435342	121435342	+	Silent	SNP	C	C	T	rs2259820	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	103.0	45.0	116.0	0.0	0.436893	0	C|0.718;T|0.282	0.282	strong	.	HNF1A	302	.	NM_000545	exon7	c.C1375T	p.L459L	ACCACCCTGCAGC	.	PASS	Atlas-SNP
CALCRL	10203	hgsc.bcm.edu	37	2	188245439	188245439	+	Missense_Mutation	SNP	A	A	G	rs61739909	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	174.0	96.0	192.0	0.0	0.551724	0	A|0.999;G|0.001	0.001	strong	.	CALCRL	73	.	NM_001271751	exon5	c.T260C	p.L87P	GGGCAGAGCTGCA	.	PASS	Atlas-SNP
ERAP2	64167	hgsc.bcm.edu	37	5	96231056	96231056	+	Missense_Mutation	SNP	T	T	G	rs34261036	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	91.0	40.0	75.0	0.0	0.43956	0	T|0.997;G|0.003	0.003	strong	.	ERAP2	77	.	NM_001130140	exon7	c.T1232G	p.L411R	CAGAGCTGCAATT	.	PASS	Atlas-SNP
SCRIB	23513	hgsc.bcm.edu	37	8	144895018	144895018	+	Silent	SNP	C	C	T	rs75171224	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	57.0	40.0	32.0	0.0	0.701754	0	C|0.991;T|0.009	0.009	strong	.	SCRIB	192	.	NM_015356	exon8	c.G756A	p.Q252Q	CAGGTTCTGGGAC	.	PASS	Atlas-SNP
ATP5J2-PTCD1	100526740	hgsc.bcm.edu	37	7	99022873	99022873	+	Missense_Mutation	SNP	C	C	T	rs147045279	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	92.0	51.0	78.0	0.0	0.554348	0	C|1.000;T|0.000	0.000	strong	.	.	.	.	NM_001198879	exon7	c.G1429A	p.A477T	CCACTGCGGTGAG	.	PASS	Atlas-SNP
LAMB2	3913	hgsc.bcm.edu	37	3	49161004	49161004	+	Silent	SNP	C	C	A	rs34967349	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	143.0	70.0	134.0	0.0	0.48951	0	C|0.996;A|0.004	0.004	strong	.	LAMB2	156	.	NM_002292	exon25	c.G3858T	p.V1286V	ATCTTGCACATCT	.	PASS	Atlas-SNP
ERMP1	79956	hgsc.bcm.edu	37	9	5787439	5787439	+	Missense_Mutation	SNP	T	T	C	rs148237651	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	56.0	27.0	51.0	0.0	0.482143	0	T|1.000;C|0.000	0.000	weak	.	ERMP1	63	.	NM_024896	exon14	c.A2541G	p.I847M	CACTTCTATCCAG	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116339315	116339315	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	129.0	58.0	139.0	0.0	0.449612	0	.	.	none	.	MET	412	.	NM_000245	exon2	c.G177A	p.E59E	ACATGAGCATCAC	.	PASS	Atlas-SNP
ZWINT	11130	hgsc.bcm.edu	37	10	58118569	58118569	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	243.0	117.0	278.0	0.0	0.481481	0	.	.	none	.	ZWINT	39	.	NM_007057	exon6	c.A620G	p.Q207R	TACCTCTGCAGCT	.	PASS	Atlas-SNP
NPBWR1	2831	hgsc.bcm.edu	37	8	53853160	53853160	+	Silent	SNP	T	T	C	rs75387626	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	62.0	29.0	68.0	0.0	0.467742	0	T|0.975;C|0.025	0.025	strong	.	NPBWR1	38	.	NM_005285	exon1	c.T693C	p.H231H	GCTGCATGCCATG	.	PASS	Atlas-SNP
SIGLEC10	89790	hgsc.bcm.edu	37	19	51919231	51919231	+	Silent	SNP	A	A	G	rs112584540	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	120.0	41.0	199.0	0.0	0.341667	0	A|0.994;G|0.006	0.006	strong	.	SIGLEC10	112	.	NM_001171157	exon5	c.T945C	p.A315A	ATCCCCAGCCTTC	.	PASS	Atlas-SNP
LPP	4026	hgsc.bcm.edu	37	3	188478055	188478055	+	Silent	SNP	C	C	T	rs6771786	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	185.0	88.0	167.0	0.0	0.475676	0	C|0.994;T|0.006	0.006	strong	.	LPP	72	.	NM_005578	exon8	c.C1395T	p.C465C	ATACTGCGAGCCC	.	PASS	Atlas-SNP
VENTX	27287	hgsc.bcm.edu	37	10	135053784	135053784	+	Missense_Mutation	SNP	A	A	G	rs148086757	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	41.0	15.0	19.0	0.0	0.365854	0	A|0.995;G|0.005	0.005	strong	.	VENTX	24	.	NM_014468	exon3	c.A751G	p.M251V	TGTGCTATGCCAC	.	PASS	Atlas-SNP
GSPT1	2935	hgsc.bcm.edu	37	16	11969985	11969985	+	Silent	SNP	C	C	T	rs369462446		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	122.0	56.0	121.0	0.0	0.459016	0	.	.	weak	.	GSPT1	71	.	NM_002094	exon13	c.G1650A	p.A550A	CAGCACCGCATTA	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28459227	28459227	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	245.0	22.0	192.0	1.0	0.0897959	0.00520833	.	.	none	HERC2,NS,carcinoma,0,1	HERC2	501	1	NM_004667	exon41	c.G6550A	p.E2184K	CCCCTTCGGAAGG	.	scavenged	Atlas-SNP
WDR45B	56270	hgsc.bcm.edu	37	17	80573888	80573888	+	Silent	SNP	G	G	A	rs147083174	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	53.0	24.0	23.0	0.0	0.45283	0	G|0.995;A|0.005	0.005	strong	.	.	.	.	NM_019613	exon10	c.C942T	p.D314D	GCTGCCGTCTGCA	.	PASS	Atlas-SNP
HTR1A	3350	hgsc.bcm.edu	37	5	63257310	63257310	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	155.0	62.0	125.0	0.0	0.4	0	.	.	none	HTR1A,colon,carcinoma,-1,2	HTR1A	128	2	NM_000524	exon1	c.G237A	p.A79A	GGTGACCGCCAAA	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124886979	124886979	+	Silent	SNP	C	C	T	rs202047482	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	122.0	70.0	101.0	0.0	0.57377	0	C|0.999;T|0.001	0.001	weak	.	NCOR2	475	.	NM_006312	exon16	c.G1611A	p.E537E	CTCCACCTCCGGC	.	PASS	Atlas-SNP
FAM210B	116151	hgsc.bcm.edu	37	20	54940148	54940148	+	Silent	SNP	C	C	T	rs148836702	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	80.0	38.0	82.0	0.0	0.475	0	C|0.998;T|0.002	0.002	strong	.	.	.	.	NM_080821	exon2	c.C192T	p.P64P	GGACCCCAGCCAG	.	PASS	Atlas-SNP
USP19	10869	hgsc.bcm.edu	37	3	49146612	49146612	+	Missense_Mutation	SNP	G	G	A	rs79965514	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	103.0	30.0	124.0	0.0	0.291262	0	G|0.999;A|0.001	0.001	strong	.	USP19	158	.	NM_001199160	exon27	c.C4039T	p.R1347W	AAATCCGGGAAGC	.	PASS	Atlas-SNP
CR1L	1379	hgsc.bcm.edu	37	1	207870916	207870916	+	Missense_Mutation	SNP	G	G	A	rs201832831	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	480.0	231.0	394.0	0.0	0.48125	0	G|0.999;A|0.001	0.001	strong	.	CR1L	97	.	NM_175710	exon6	c.G931A	p.G311R	TCACCCGGGCAGG	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	29449819	29449819	+	Silent	SNP	C	C	T	rs2293563	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	109.0	109.0	135.0	0.0	1	0	C|0.816;T|0.184	0.184	strong	ALK,NS,carcinoma,0,1	ALK	533	1	NM_004304	exon18	c.G3036A	p.T1012T	CAGCACCGTCCCG	.	PASS	Atlas-SNP
POU2F1	5451	hgsc.bcm.edu	37	1	167358837	167358837	+	Missense_Mutation	SNP	A	A	G	rs142378150	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	153.0	72.0	115.0	0.0	0.470588	0	A|0.997;G|0.003	0.003	strong	.	POU2F1	120	.	NM_002697	exon9	c.A826G	p.T276A	ACCCCAACACGCA	.	PASS	Atlas-SNP
CHRNA2	1135	hgsc.bcm.edu	37	8	27327369	27327369	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	92.0	43.0	79.0	0.0	0.467391	0	.	.	none	CHRNA2,caecum,carcinoma,-1,2	CHRNA2	48	2	NM_000742	exon3	c.G203A	p.R68Q	TAGCCCCGGAAGA	.	PASS	Atlas-SNP
FN3KRP	79672	hgsc.bcm.edu	37	17	80676896	80676896	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	109.0	59.0	94.0	0.0	0.541284	0	.	.	none	.	FN3KRP	31	.	NM_024619	exon2	c.C256T	p.L86L	AGCGTGCTGGTGA	.	PASS	Atlas-SNP
MAML3	55534	hgsc.bcm.edu	37	4	140640527	140640527	+	Missense_Mutation	SNP	G	G	A	rs61743025	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	94.0	41.0	68.0	0.0	0.43617	0	G|0.999;A|0.001	0.001	strong	.	MAML3	192	.	NM_018717	exon6	c.C3355T	p.P1119S	CCCCTGGCCCGCC	.	PASS	Atlas-SNP
RALGAPB	57148	hgsc.bcm.edu	37	20	37198582	37198582	+	Missense_Mutation	SNP	C	C	T	rs142678293	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	138.0	66.0	149.0	0.0	0.478261	0	C|0.995;T|0.005	0.005	strong	.	RALGAPB	134	.	NM_020336	exon27	c.C4006T	p.P1336S	GTTCCTCCCCTTG	.	PASS	Atlas-SNP
OTUD5	55593	hgsc.bcm.edu	37	X	48783183	48783183	+	Silent	SNP	G	G	C	rs141488277	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	30.0	30.0	39.0	0.0	1	0	G|0.998;C|0.002	0.002	strong	.	OTUD5	66	.	NM_017602	exon6	c.C1218G	p.S406S	CAGGTAGGATTCC	.	PASS	Atlas-SNP
TEF	7008	hgsc.bcm.edu	37	22	41790179	41790179	+	Silent	SNP	G	G	A	rs17365991	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	71.0	23.0	55.0	0.0	0.323944	0	G|0.970;A|0.030	0.030	strong	.	TEF	21	.	NM_003216	exon3	c.G555A	p.P185P	CAATCCGGACCCC	.	PASS	Atlas-SNP
ATE1	11101	hgsc.bcm.edu	37	10	123670575	123670575	+	Silent	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	188.0	104.0	197.0	0.0	0.553191	0	.	.	none	ATE1,mouth,carcinoma,0,1	ATE1	67	1	NM_001001976	exon5	c.C429A	p.L143L	ATCACTGAGTGTT	.	PASS	Atlas-SNP
C7orf33	202865	hgsc.bcm.edu	37	7	148288020	148288020	+	Missense_Mutation	SNP	G	G	T	rs62624492	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	54.0	28.0	43.0	0.0	0.518519	0	G|0.974;T|0.026	0.026	strong	.	C7orf33	28	.	NM_145304	exon1	c.G3T	p.M1I	CAAAATGCAAGTG	.	PASS	Atlas-SNP
CSNK2A2	1459	hgsc.bcm.edu	37	16	58201631	58201631	+	Silent	SNP	G	G	A	rs55748630	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	89.0	43.0	88.0	0.0	0.483146	0	G|0.997;A|0.003	0.003	strong	.	CSNK2A2	25	.	NM_001896	exon7	c.C582T	p.A194A	CCTTGAGGCTACA	.	PASS	Atlas-SNP
EVPL	2125	hgsc.bcm.edu	37	17	74006317	74006317	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	101.0	54.0	105.0	0.0	0.534653	0	.	.	none	.	EVPL	155	.	NM_001988	exon22	c.A2969G	p.Q990R	TCTGCCTGCAGGC	.	PASS	Atlas-SNP
SPECC1L	23384	hgsc.bcm.edu	37	22	24718408	24718408	+	Missense_Mutation	SNP	G	G	A	rs55723436	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	91.0	42.0	105.0	0.0	0.461538	0	G|0.993;A|0.007	0.007	strong	.	SPECC1L	85	.	NM_001145468	exon4	c.G1460A	p.R487H	GTGGGCGCTATAT	.	PASS	Atlas-SNP
RALGAPA2	57186	hgsc.bcm.edu	37	20	20565512	20565512	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	75.0	36.0	64.0	0.0	0.48	0	.	.	none	.	RALGAPA2	274	.	NM_020343	exon19	c.A2527T	p.K843X	TACTCTTCTGTCT	.	PASS	Atlas-SNP
VLDLR	7436	hgsc.bcm.edu	37	9	2644799	2644799	+	Missense_Mutation	SNP	T	T	C	rs142885301	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	131.0	70.0	109.0	0.0	0.534351	0	T|0.999;C|0.001	0.001	strong	.	VLDLR	68	.	NM_003383	exon8	c.T1132C	p.Y378H	ATAGGCTACGAGT	.	PASS	Atlas-SNP
FKBP5	2289	hgsc.bcm.edu	37	6	35544942	35544942	+	Silent	SNP	G	G	A	rs34866878	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	168.0	90.0	160.0	0.0	0.535714	0	G|0.928;A|0.072	0.072	strong	.	FKBP5	64	.	NM_001145775	exon11	c.C1095T	p.N365N	AAACTCGTTCATG	.	PASS	Atlas-SNP
COL6A2	1292	hgsc.bcm.edu	37	21	47552449	47552449	+	Missense_Mutation	SNP	A	A	C	rs11910483	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	65.0	29.0	24.0	0.0	0.446154	0	A|0.975;C|0.025	0.025	strong	.	COL6A2	351	.	NM_001849	exon28	c.A3043C	p.I1015L	CGCTTCATCCGCT	.	PASS	Atlas-SNP
SIGLEC10	89790	hgsc.bcm.edu	37	19	51919237	51919237	+	Silent	SNP	C	C	T	rs199590261	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	109.0	33.0	193.0	0.0	0.302752	0	C|0.994;T|0.006	0.006	strong	.	SIGLEC10	112	.	NM_001171157	exon5	c.G939A	p.V313V	AGCCTTCACCCCG	.	PASS	Atlas-SNP
DCPS	28960	hgsc.bcm.edu	37	11	126215285	126215285	+	Missense_Mutation	SNP	G	G	A	rs140377449	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	54.0	23.0	56.0	0.0	0.425926	0	G|0.999;A|0.001	0.001	strong	.	DCPS	33	.	NM_014026	exon6	c.G791A	p.R264Q	ATCTGCGAGTATA	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47925520	47925520	+	Missense_Mutation	SNP	C	C	T	rs141646493	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	194.0	98.0	145.0	2.0	0.505155	0.0137931	C|0.995;T|0.005	0.005	strong	PKD1L1,colon,carcinoma,-1,1	PKD1L1	328	1	NM_138295	exon18	c.G2969A	p.R990Q	GGTTCCCGTGAGA	.	scavenged	Atlas-SNP
FBXO45	200933	hgsc.bcm.edu	37	3	196295974	196295974	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	55.0	27.0	19.0	0.0	0.490909	0	.	.	none	.	FBXO45	18	.	NM_001105573	exon1	c.C119T	p.P40L	GGCTGCCCAGCCG	.	PASS	Atlas-SNP
EML6	400954	hgsc.bcm.edu	37	2	55119771	55119771	+	Missense_Mutation	SNP	T	T	A	rs200933456	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	89.0	41.0	87.0	0.0	0.460674	0	T|0.995;A|0.005	0.005	strong	.	EML6	85	.	NM_001039753	exon18	c.T2720A	p.F907Y	CTGTGTTTGCTAT	.	PASS	Atlas-SNP
PDE1C	5137	hgsc.bcm.edu	37	7	31793087	31793087	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	124.0	62.0	157.0	1.0	0.5	0.00636943	.	.	none	PDE1C_ENST00000396193,right_upper_lobe,carcinoma,0,2	PDE1C	465	2	NM_001191058	exon19	c.G2221A	p.D741N	GCTCATCAGTTTT	.	scavenged	Atlas-SNP
SPATA31D1	389763	hgsc.bcm.edu	37	9	84605350	84605350	+	Missense_Mutation	SNP	G	G	C	rs367877053		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	145.0	70.0	142.0	0.0	0.482759	0	.	.	weak	.	.	.	.	NM_001001670	exon3	c.G251C	p.S84T	GGAAAAGTTTCCA	.	PASS	Atlas-SNP
TAF6L	10629	hgsc.bcm.edu	37	11	62543326	62543326	+	Missense_Mutation	SNP	C	C	T	rs76769410	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	57.0	33.0	53.0	0.0	0.578947	0	C|0.995;T|0.005	0.005	strong	.	TAF6L	39	.	NM_006473	exon2	c.C71T	p.T24M	AGAGCACGGGCCT	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134691472	134691472	+	Missense_Mutation	SNP	C	C	A	rs181912601	by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	255.0	66.0	301.0	0.0	0.258824	0	C|0.992;A|0.008	0.008	strong	.	TTC40	100	.	NM_001200049	exon30	c.G4125T	p.K1375N	CCTCTCCTTCTCC	.	PASS	Atlas-SNP
TENM2	57451	hgsc.bcm.edu	37	5	167689162	167689162	+	Missense_Mutation	SNP	G	G	A	rs370473451		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	125.0	59.0	117.0	0.0	0.472	0	.	.	weak	.	.	.	.	NM_001122679	exon29	c.G7645A	p.G2549S	AAAGCAGGTCACT	.	PASS	Atlas-SNP
PNKD	25953	hgsc.bcm.edu	37	2	219206738	219206738	+	Silent	SNP	C	C	A	rs34745867	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	102.0	47.0	127.0	0.0	0.460784	0	C|0.982;A|0.018	0.018	strong	.	PNKD	58	.	NM_015488	exon7	c.C652A	p.R218R	GTGGGACGGCTTC	.	PASS	Atlas-SNP
PIK3R6	146850	hgsc.bcm.edu	37	17	8733110	8733110	+	Splice_Site	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	35.0	12.0	44.0	0.0	0.342857	0	.	.	none	.	.	.	.	NM_001010855	exon11	c.803-1G>A	.	GGTCACCTGCAGA	.	PASS	Atlas-SNP
SLC4A1	6521	hgsc.bcm.edu	37	17	42328846	42328846	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	138.0	47.0	133.0	0.0	0.34058	0	.	.	none	SLC4A1,NS,carcinoma,+1,2	SLC4A1	104	2	NM_000342	exon18	c.C2422T	p.R808C	AGATGCGGTCAAA	.	PASS	Atlas-SNP
SSTR5	6755	hgsc.bcm.edu	37	16	1129441	1129441	+	Silent	SNP	G	G	A	rs34608001	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	70.0	37.0	33.0	0.0	0.528571	0	G|0.983;A|0.017	0.017	strong	.	SSTR5	36	.	NM_001172560	exon2	c.G573A	p.P191P	CTGGCCGGAGCCC	.	PASS	Atlas-SNP
RTP2	344892	hgsc.bcm.edu	37	3	187419764	187419764	+	Silent	SNP	G	G	A	rs150707467	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	124.0	65.0	124.0	0.0	0.524194	0	G|1.000;A|0.000	0.000	weak	RTP2,right_upper_lobe,carcinoma,-2,1	RTP2	38	1	NM_001004312	exon1	c.C153T	p.H51H	TGAGGCGTGCTGC	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134694391	134694391	+	Missense_Mutation	SNP	A	A	G	rs145022957	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	30.0	14.0	15.0	0.0	0.466667	0	A|0.993;G|0.007	0.007	strong	.	TTC40	100	.	NM_001200049	exon28	c.T3773C	p.V1258A	TCAGGGACATCGC	.	PASS	Atlas-SNP
NOTCH3	4854	hgsc.bcm.edu	37	19	15299048	15299048	+	Missense_Mutation	SNP	G	G	A	rs114207045	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	47.0	16.0	51.0	0.0	0.340426	0	G|0.991;A|0.009	0.009	strong	NOTCH3,rectum,carcinoma,0,1	NOTCH3	340	1	NM_000435	exon9	c.C1490T	p.S497L	TCACCCGAGGGGC	.	PASS	Atlas-SNP
MOCOS	55034	hgsc.bcm.edu	37	18	33828916	33828916	+	Silent	SNP	A	A	G	rs55701019	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	59.0	29.0	56.0	0.0	0.491525	0	A|0.995;G|0.005	0.005	strong	.	MOCOS	84	.	NM_017947	exon10	c.A1992G	p.E664E	TGAGGAAAATAGT	.	PASS	Atlas-SNP
RXFP2	122042	hgsc.bcm.edu	37	13	32367214	32367214	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	68.0	3.0	50.0	0.0	0.0441176	0	.	.	none	RXFP2,colon,carcinoma,0,1	RXFP2	95	1	NM_130806	exon16	c.G1775A	p.G592E	CTCTTGGAATTTT	.	scavenged	Atlas-SNP
PRPF39	55015	hgsc.bcm.edu	37	14	45564675	45564675	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	94.0	4.0	84.0	0.0	0.0425532	0	.	.	none	.	PRPF39	46	.	NM_017922	exon2	c.C233T	p.P78L	ATTTCCCTCCAGA	.	PASS	Atlas-SNP
HECTD4	283450	hgsc.bcm.edu	37	12	112600883	112600883	+	Silent	SNP	C	C	T	rs183882784	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	178.0	86.0	164.0	0.0	0.483146	0	C|0.995;T|0.005	0.005	strong	.	.	.	.	NM_001109662	exon75	c.G12681A	p.P4227P	GGGGTACGGGGGC	.	PASS	Atlas-SNP
AXL	558	hgsc.bcm.edu	37	19	41745608	41745608	+	Missense_Mutation	SNP	A	A	C	rs199928489	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	130.0	67.0	109.0	0.0	0.515385	0	A|1.000;C|0.000	0.000	strong	.	AXL	126	.	NM_021913	exon10	c.A1295C	p.Q432P	AAGCACAGCCAGT	.	PASS	Atlas-SNP
AP5Z1	9907	hgsc.bcm.edu	37	7	4821352	4821352	+	Missense_Mutation	SNP	G	G	C	rs11549840	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	114.0	57.0	122.0	0.0	0.5	0	G|0.986;C|0.014	0.014	strong	.	.	.	.	NM_014855	exon3	c.G333C	p.Q111H	CCGGCAGCTGAGC	.	PASS	Atlas-SNP
MSH2	4436	hgsc.bcm.edu	37	2	47637439	47637439	+	Silent	SNP	C	C	T	rs1800151	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	98.0	49.0	79.0	0.0	0.5	0	C|0.977;T|0.023	0.023	strong	.	MSH2	198	.	NM_000251	exon3	c.C573T	p.L191L	TCTCCTCATCCAG	.	PASS	Atlas-SNP
KHDRBS2	202559	hgsc.bcm.edu	37	6	62390920	62390920	+	Missense_Mutation	SNP	G	G	A	rs61753606	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	88.0	69.0	157.0	0.0	0.784091	0	G|0.987;A|0.013	0.013	strong	KHDRBS2,NS,carcinoma,+1,2	KHDRBS2	103	2	NM_152688	exon9	c.C998T	p.P333L	CTTTGCGGTGGTG	.	PASS	Atlas-SNP
IGSF9B	22997	hgsc.bcm.edu	37	11	133801990	133801990	+	Silent	SNP	G	G	A	rs375960322		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	155.0	84.0	143.0	0.0	0.541936	0	.	.	weak	.	IGSF9B	290	.	NM_014987	exon8	c.C1086T	p.D362D	ACGGCCGTCCTTG	.	PASS	Atlas-SNP
MRPL19	9801	hgsc.bcm.edu	37	2	75879359	75879359	+	Missense_Mutation	SNP	G	G	A	rs41382847	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	349.0	177.0	371.0	0.0	0.507163	0	G|0.992;A|0.008	0.008	strong	.	MRPL19	21	.	NM_014763	exon3	c.G313A	p.V105I	AGAAAAGTACTCC	.	PASS	Atlas-SNP
MAK	4117	hgsc.bcm.edu	37	6	10775600	10775600	+	Missense_Mutation	SNP	G	G	A	rs567083	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	196.0	98.0	165.0	0.0	0.5	0	A|0.017;C|0.006	0.017	strong	.	MAK	47	.	NM_005906	exon12	c.C1558T	p.P520S	CAACGGGTCCCAG	.	PASS	Atlas-SNP
PCOLCE	5118	hgsc.bcm.edu	37	7	100205365	100205365	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	145.0	61.0	140.0	0.0	0.42069	0	.	.	none	.	PCOLCE	37	.	NM_002593	exon8	c.C1118T	p.S373F	TGCCTTCTCCACC	.	PASS	Atlas-SNP
SMPD4	55627	hgsc.bcm.edu	37	2	130939163	130939163	+	Missense_Mutation	SNP	G	G	T	rs146359515	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	69.0	33.0	48.0	0.0	0.478261	0	G|0.996;T|0.004	0.004	strong	.	SMPD4	67	.	NM_017751	exon1	c.C12A	p.F4L	GGCGCCGAAAGTC	.	PASS	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190876283	190876283	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	271.0	20.0	234.0	0.0	0.0738007	0	.	.	none	.	FRG1	76	.	NM_004477	exon5	c.C409A	p.Q137K	AGAGAACAATGGG	.	PASS	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	37	11	57080352	57080352	+	Missense_Mutation	SNP	G	G	A	rs12801000	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	136.0	56.0	112.0	0.0	0.411765	0	G|0.968;A|0.032	0.032	strong	TNKS1BP1,caecum,carcinoma,+1,1	TNKS1BP1	148	1	NM_033396	exon5	c.C1810T	p.P604S	CCAGGGGGAGAGG	.	PASS	Atlas-SNP
ADAM18	8749	hgsc.bcm.edu	37	8	39468070	39468070	+	Missense_Mutation	SNP	A	A	C	rs139114737	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	225.0	93.0	208.0	0.0	0.413333	0	A|0.997;C|0.003	0.003	strong	.	ADAM18	169	.	NM_001190956	exon6	c.A367C	p.I123L	GAAAATATCAGTT	.	PASS	Atlas-SNP
PPP6R1	22870	hgsc.bcm.edu	37	19	55752662	55752662	+	Missense_Mutation	SNP	T	T	C	rs200841391	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	128.0	61.0	126.0	0.0	0.476562	0	T|0.998;C|0.002	0.002	strong	.	PPP6R1	63	.	NM_014931	exon9	c.A1106G	p.N369S	GCATCATTGGCGC	.	PASS	Atlas-SNP
PADI2	11240	hgsc.bcm.edu	37	1	17405814	17405814	+	Missense_Mutation	SNP	C	C	T	rs148233687	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	57.0	48.0	65.0	0.0	0.842105	0	C|0.999;T|0.001	0.001	strong	.	PADI2	72	.	NM_007365	exon11	c.G1255A	p.V419M	CGTTCACGGTCAC	.	PASS	Atlas-SNP
TNFRSF10C	8794	hgsc.bcm.edu	37	8	22960654	22960654	+	Missense_Mutation	SNP	C	C	T	rs10107826	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	76.0	44.0	47.0	0.0	0.578947	0	C|0.958;T|0.042	0.042	strong	.	TNFRSF10C	30	.	NM_003841	exon1	c.C20T	p.T7I	CCAAGACCCTAAA	.	PASS	Atlas-SNP
LBR	3930	hgsc.bcm.edu	37	1	225603029	225603029	+	Silent	SNP	T	T	C	rs61749339	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	177.0	82.0	131.0	0.0	0.463277	0	T|0.991;C|0.009	0.009	strong	.	LBR	54	.	NM_194442	exon7	c.A843G	p.V281V	TCCTTCTACAACC	.	PASS	Atlas-SNP
UGT3A1	133688	hgsc.bcm.edu	37	5	35965611	35965611	+	Silent	SNP	A	A	G	rs61733467	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	223.0	114.0	237.0	0.0	0.511211	0	A|0.988;G|0.012	0.012	strong	.	UGT3A1	95	.	NM_152404	exon4	c.T720C	p.L240L	CAGTAGAAGATGA	.	PASS	Atlas-SNP
CCT8	10694	hgsc.bcm.edu	37	21	30437344	30437344	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	94.0	4.0	85.0	0.0	0.0425532	0	.	.	none	.	CCT8	38	.	NM_006585	exon7	c.A707G	p.D236G	TTTGCATCTTTGA	.	PASS	Atlas-SNP
TENM4	26011	hgsc.bcm.edu	37	11	78565314	78565314	+	Missense_Mutation	SNP	C	C	G	rs17137261	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	15.0	9.0	30.0	0.0	0.6	0	C|0.969;G|0.031	0.031	strong	.	.	.	.	NM_001098816	exon12	c.G1516C	p.E506Q	GCGCCTCCTGGGT	.	PASS	Atlas-SNP
NECAB2	54550	hgsc.bcm.edu	37	16	84030848	84030848	+	Silent	SNP	C	C	T	rs7193267	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	133.0	64.0	108.0	0.0	0.481203	0	C|0.992;T|0.008	0.008	strong	.	NECAB2	36	.	NM_019065	exon9	c.C823T	p.L275L	CAGCGCCTGTCAG	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187509931	187509931	+	Missense_Mutation	SNP	C	C	T	rs192609167	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	110.0	49.0	108.0	0.0	0.445455	0	C|0.999;T|0.001	0.001	strong	.	FAT1	500	.	NM_005245	exon27	c.G13582A	p.E4528K	GCGCCTCGAAGTG	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134691427	134691427	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	298.0	23.0	314.0	0.0	0.0771812	0	.	.	none	.	TTC40	100	.	NM_001200049	exon30	c.C4170G	p.D1390E	CTCCTTGTCCTTC	.	PASS	Atlas-SNP
GLTSCR2	29997	hgsc.bcm.edu	37	19	48254799	48254799	+	Silent	SNP	T	T	C	rs11538669	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	81.0	39.0	74.0	0.0	0.481481	0	T|0.987;C|0.013	0.013	strong	.	GLTSCR2	45	.	NM_015710	exon5	c.T621C	p.V207V	GTTGGTTGGCCAG	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88537115	88537115	+	Missense_Mutation	SNP	G	G	A	rs201186956		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	12.0	5.0	25.0	0.0	0.416667	0	.	.	weak	.	DSPP	174	.	NM_014208	exon5	c.G3301A	p.D1101N	AGCAGCGACAGCA	.	PASS	Atlas-SNP
RRP12	23223	hgsc.bcm.edu	37	10	99130282	99130282	+	Silent	SNP	T	T	G	rs11189170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	110.0	57.0	109.0	2.0	0.518182	0.0183486	T|0.952;G|0.048	0.048	strong	RRP12,NS,carcinoma,-2,1	RRP12	97	1	NM_015179	exon23	c.A2619C	p.A873A	CTTCCGTGCGCCC	.	scavenged	Atlas-SNP
BBX	56987	hgsc.bcm.edu	37	3	107491892	107491892	+	Missense_Mutation	SNP	G	G	A	rs138961599	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	112.0	58.0	86.0	0.0	0.517857	0	G|0.993;A|0.007	0.007	strong	.	BBX	156	.	NM_001142568	exon11	c.G1324A	p.A442T	GATCCCGCAGCAT	.	PASS	Atlas-SNP
NPAP1	23742	hgsc.bcm.edu	37	15	24923129	24923129	+	Silent	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	271.0	110.0	280.0	0.0	0.405904	0	.	.	none	.	.	.	.	NM_018958	exon1	c.T2115C	p.P705P	TCCTCCTTCCAAG	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48318242	48318242	+	Missense_Mutation	SNP	G	G	A	rs79834369	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	100.0	54.0	108.0	0.0	0.54	0	G|0.996;A|0.004	0.004	strong	.	ABCA13	1192	.	NM_152701	exon18	c.G7451A	p.R2484K	TTTCAAGAGCAAG	.	PASS	Atlas-SNP
PIGZ	80235	hgsc.bcm.edu	37	3	196675397	196675397	+	Missense_Mutation	SNP	G	G	A	rs144088027	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	75.0	44.0	47.0	0.0	0.586667	0	G|0.997;A|0.003	0.003	strong	.	PIGZ	34	.	NM_025163	exon3	c.C371T	p.A124V	AGCAGCGCATAGC	.	PASS	Atlas-SNP
SBF1	6305	hgsc.bcm.edu	37	22	50885658	50885658	+	Silent	SNP	C	C	T	rs371139013		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	178.0	80.0	135.0	0.0	0.449438	0	.	.	weak	.	SBF1	211	.	NM_002972	exon41	c.G5595A	p.T1865T	GCGACGCGTTGTC	.	PASS	Atlas-SNP
RPS6KC1	26750	hgsc.bcm.edu	37	1	213414948	213414948	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	93.0	4.0	100.0	0.0	0.0430108	0	.	.	none	.	RPS6KC1	114	.	NM_012424	exon11	c.C2129T	p.P710L	TGGGACCTACTAA	.	PASS	Atlas-SNP
PUS7L	83448	hgsc.bcm.edu	37	12	44130330	44130330	+	Missense_Mutation	SNP	G	G	A	rs116948464	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	168.0	74.0	142.0	0.0	0.440476	0	G|0.996;A|0.004	0.004	strong	PUS7L,NS,carcinoma,+1,1	PUS7L	73	1	NM_001098614	exon7	c.C1579T	p.R527C	ATATGCGCATGGA	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134694526	134694526	+	Missense_Mutation	SNP	A	A	G	rs148582169	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	66.0	36.0	58.0	0.0	0.545455	0	A|0.993;G|0.007	0.007	strong	.	TTC40	100	.	NM_001200049	exon28	c.T3638C	p.M1213T	CACTCCATCTCAG	.	PASS	Atlas-SNP
TRMT6	51605	hgsc.bcm.edu	37	20	5924828	5924828	+	Silent	SNP	A	A	G	rs35861347	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	71.0	33.0	53.0	0.0	0.464789	0	A|0.958;G|0.042	0.042	strong	.	TRMT6	28	.	NM_015939	exon4	c.T438C	p.Y146Y	TTTAATATATTTA	.	PASS	Atlas-SNP
DGKI	9162	hgsc.bcm.edu	37	7	137263068	137263068	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	115.0	49.0	120.0	0.0	0.426087	0	.	.	none	DGKI_ENST00000288490,NS,carcinoma,-1,2	DGKI	335	2	NM_004717	exon16	c.C1646A	p.A549E	GGATTTGCTTCTG	.	PASS	Atlas-SNP
ZNF154	7710	hgsc.bcm.edu	37	19	58213743	58213743	+	Nonsense_Mutation	SNP	G	G	A	rs74939505	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	207.0	101.0	169.0	0.0	0.487923	0	G|0.993;A|0.007	0.007	strong	.	ZNF154	34	.	NM_001085384	exon3	c.C574T	p.R192X	ACTCTCGACATTC	.	PASS	Atlas-SNP
PRSS53	339105	hgsc.bcm.edu	37	16	31095999	31095999	+	Silent	SNP	G	G	A	rs138417092	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	177.0	65.0	177.0	1.0	0.367232	0.00564972	G|0.988;A|0.012	0.012	strong	PRSS53,NS,haematopoietic_neoplasm,0,1	PRSS53	29	1	NM_001039503	exon9	c.C1305T	p.P435P	GGTCACGGGCACT	.	scavenged	Atlas-SNP
BRSK1	84446	hgsc.bcm.edu	37	19	55817694	55817694	+	Silent	SNP	C	C	T	rs200320831		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	71.0	35.0	56.0	0.0	0.492958	0	C|0.999;T|0.001	0.001	weak	BRSK1_ENST00000309383,NS,carcinoma,0,2	BRSK1	192	2	NM_032430	exon17	c.C1965T	p.S655S	CCCCTCCGTCTTC	.	PASS	Atlas-SNP
EGFR	1956	hgsc.bcm.edu	37	7	55259450	55259450	+	Silent	SNP	C	C	T	rs2229066	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	19.0	3.0	20.0	0.0	0.157895	0	C|0.986;T|0.014	0.014	strong	EGFR,NS,carcinoma,0,8	EGFR	20426	8	NM_005228	exon21	c.C2508T	p.R836R	GCACCGCGACCTG	.	scavenged	Atlas-SNP
MAPK15	225689	hgsc.bcm.edu	37	8	144804000	144804000	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	69.0	22.0	75.0	0.0	0.318841	0	.	.	none	.	MAPK15	32	.	NM_139021	exon13	c.C1408T	p.R470W	CTGATCCGGGGTG	.	PASS	Atlas-SNP
RBMXL1	494115	hgsc.bcm.edu	37	1	89449037	89449037	+	Missense_Mutation	SNP	C	C	A	rs200081893	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	486.0	23.0	473.0	0.0	0.0473251	0	C|0.997;A|0.003	0.003	weak	.	.	.	.	NM_001162536	exon3	c.G473T	p.G158V	GGACCCCCACTTC	.	PASS	Atlas-SNP
GPR153	387509	hgsc.bcm.edu	37	1	6314758	6314758	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	115.0	9.0	115.0	0.0	0.0782609	0	.	.	none	.	GPR153	44	.	NM_207370	exon2	c.C208T	p.R70W	GCCGCCGCAGCTG	.	PASS	Atlas-SNP
BOC	91653	hgsc.bcm.edu	37	3	112989763	112989763	+	Silent	SNP	C	C	T	rs9819129	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	65.0	21.0	82.0	0.0	0.323077	0	C|0.974;T|0.026	0.026	strong	.	BOC	139	.	NM_033254	exon6	c.C639T	p.S213S	AACCTCCGGCTCC	.	PASS	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	37	15	79065483	79065483	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	709.0	69.0	610.0	0.0	0.0973202	0	.	.	none	.	ADAMTS7	142	.	NM_014272	exon14	c.C2073T	p.H691H	GTTGCCGTGGCAC	.	PASS	Atlas-SNP
SLC11A2	4891	hgsc.bcm.edu	37	12	51390685	51390685	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	148.0	63.0	132.0	0.0	0.425676	0	.	.	none	SLC11A2,caecum,carcinoma,0,1	SLC11A2	51	1	NM_001174125	exon9	c.G833A	p.R278H	GGAGTGCGACAGC	.	PASS	Atlas-SNP
CCDC171	203238	hgsc.bcm.edu	37	9	15874585	15874585	+	Missense_Mutation	SNP	T	T	G	rs149814894	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	196.0	92.0	175.0	0.0	0.469388	0	T|0.993;G|0.007	0.007	strong	C9orf93_ENST00000380689,NS,lymphoid_neoplasm,0,2	.	.	2	NM_173550	exon24	c.T3524G	p.L1175R	TCACCCTACAGCT	.	PASS	Atlas-SNP
USP31	57478	hgsc.bcm.edu	37	16	23079408	23079408	+	Missense_Mutation	SNP	T	T	C	rs114976439	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	106.0	44.0	99.0	0.0	0.415094	0	T|0.997;C|0.003	0.003	strong	.	USP31	122	.	NM_020718	exon16	c.A4018G	p.S1340G	GCATGCTAGAAGA	.	PASS	Atlas-SNP
KLHL3	26249	hgsc.bcm.edu	37	5	136975604	136975604	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	139.0	58.0	150.0	0.0	0.417266	0	.	.	none	.	KLHL3	54	.	NM_017415	exon9	c.C966T	p.F322F	CTCCTCGAAATCA	.	PASS	Atlas-SNP
UNC13C	440279	hgsc.bcm.edu	37	15	54838957	54838957	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	133.0	54.0	112.0	0.0	0.406015	0	.	.	none	.	UNC13C	674	.	NM_001080534	exon25	c.C5734A	p.L1912I	ACAGTCCTAAAGC	.	PASS	Atlas-SNP
RASSF4	83937	hgsc.bcm.edu	37	10	45488738	45488738	+	Silent	SNP	G	G	A	rs145503557	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	20.0	11.0	31.0	0.0	0.55	0	G|0.999;A|0.001	0.001	strong	.	RASSF4	33	.	NM_032023	exon11	c.G927A	p.T309T	TCTGACGATGCTG	.	PASS	Atlas-SNP
TBC1D4	9882	hgsc.bcm.edu	37	13	75861001	75861001	+	Missense_Mutation	SNP	A	A	G	rs557337	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	305.0	163.0	307.0	0.0	0.534426	0	A|0.827;G|0.173	0.173	strong	.	TBC1D4	142	.	NM_014832	exon21	c.T3824C	p.V1275A	CAATTGACTAGAG	.	PASS	Atlas-SNP
CAPN2	824	hgsc.bcm.edu	37	1	223949900	223949900	+	Missense_Mutation	SNP	G	G	A	rs145816861	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	83.0	36.0	64.0	0.0	0.433735	0	G|1.000;A|0.000	0.000	weak	.	CAPN2	69	.	NM_001748	exon14	c.G1579A	p.E527K	ATCAGCGAGGATG	.	PASS	Atlas-SNP
KNTC1	9735	hgsc.bcm.edu	37	12	123032478	123032478	+	Missense_Mutation	SNP	C	C	T	rs61751321	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	40.0	14.0	43.0	0.0	0.35	0	C|0.991;T|0.008	0.008	strong	.	KNTC1	182	.	NM_014708	exon12	c.C949T	p.L317F	ACAAATCTCAAAT	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139391636	139391636	+	Silent	SNP	G	G	A	rs2229974	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	107.0	107.0	115.0	0.0	1	0	G|0.341;A|0.659	0.659	strong	.	NOTCH1	1980	.	NM_017617	exon34	c.C6555T	p.D2185D	CTTGCCGTCCTGG	.	PASS	Atlas-SNP
C3orf20	84077	hgsc.bcm.edu	37	3	14769980	14769980	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	150.0	49.0	165.0	0.0	0.326667	0	.	.	none	.	C3orf20	109	.	NM_032137	exon12	c.G1725A	p.E575E	AAAGGAGGAGGAA	.	PASS	Atlas-SNP
FRY	10129	hgsc.bcm.edu	37	13	32768428	32768428	+	Missense_Mutation	SNP	G	G	A	rs41292163	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	106.0	58.0	93.0	0.0	0.54717	0	G|0.996;A|0.004	0.004	strong	.	FRY	312	.	NM_023037	exon29	c.G3740A	p.G1247E	TGTGTGGAAGCAG	.	PASS	Atlas-SNP
CACHD1	57685	hgsc.bcm.edu	37	1	65142686	65142686	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	169.0	67.0	161.0	0.0	0.39645	0	.	.	none	.	CACHD1	125	.	NM_020925	exon22	c.G2931A	p.L977L	GAGGCTGGAAAGT	.	PASS	Atlas-SNP
LRFN2	57497	hgsc.bcm.edu	37	6	40360492	40360492	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	119.0	67.0	106.0	0.0	0.563025	0	.	.	none	.	LRFN2	133	.	NM_020737	exon3	c.G1560A	p.P520P	GCACTGCGGGTAG	.	PASS	Atlas-SNP
UBXN11	91544	hgsc.bcm.edu	37	1	26608853	26608853	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	38.0	15.0	24.0	0.0	0.394737	0	.	.	none	.	UBXN11	54	.	NM_183008	exon16	c.C1500T	p.G500G	ACTGGGGCCGGGA	.	PASS	Atlas-SNP
LAMB2	3913	hgsc.bcm.edu	37	3	49159152	49159152	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	103.0	36.0	77.0	0.0	0.349515	0	.	.	none	.	LAMB2	156	.	NM_002292	exon30	c.G5065T	p.G1689C	CACTGCCTGCCGT	.	PASS	Atlas-SNP
OPTN	10133	hgsc.bcm.edu	37	10	13168025	13168025	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	64.0	26.0	79.0	0.0	0.40625	0	.	.	none	.	OPTN	57	.	NM_001008212	exon11	c.C1228A	p.L410I	GAGGAACTAACAA	.	PASS	Atlas-SNP
KRAS	3845	hgsc.bcm.edu	37	12	25398284	25398284	+	Missense_Mutation	SNP	C	C	A	rs121913529	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	211.0	89.0	165.0	0.0	0.421801	0	.	.	weak	KRAS_ENST00000256078,NS,adenocarcinoma,0,25136	KRAS	30930	25136	NM_004985	exon2	c.G35T	p.G12V	ACGCCACCAGCTC	.	PASS	Atlas-SNP
FAM209B	388799	hgsc.bcm.edu	37	20	55108589	55108589	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	260.0	19.0	203.0	0.0	0.0730769	0	.	.	none	.	.	.	.	NM_001013646	exon1	c.G192T	p.L64F	GCTTTTGTTTGCT	.	PASS	Atlas-SNP
SCNN1D	6339	hgsc.bcm.edu	37	1	1222622	1222622	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	79.0	75.0	77.0	0.0	0.949367	0	.	.	none	.	SCNN1D	60	.	NM_001130413	exon9	c.G1253A	p.S418N	ACGGGAGCCAGGA	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28420676	28420676	+	Silent	SNP	C	C	T	rs139728053		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	91.0	49.0	73.0	0.0	0.538462	0	C|1.000;T|0.000	0.000	weak	.	HERC2	501	.	NM_004667	exon64	c.G9813A	p.A3271A	CGTGACCGCCAGG	.	PASS	Atlas-SNP
GRID2	2895	hgsc.bcm.edu	37	4	94137954	94137954	+	Silent	SNP	G	G	A	rs75225211	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	96.0	48.0	112.0	0.0	0.5	0	G|0.990;A|0.010	0.010	strong	GRID2,NS,malignant_melanoma,+2,1	GRID2	233	1	NM_001510	exon6	c.G855A	p.R285R	TATTCGGCAGACA	.	PASS	Atlas-SNP
GPR133	283383	hgsc.bcm.edu	37	12	131471699	131471699	+	Missense_Mutation	SNP	G	G	A	rs61732860	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	129.0	63.0	133.0	0.0	0.488372	0	G|0.985;A|0.015	0.015	strong	GPR133,NS,carcinoma,0,1	GPR133	136	1	NM_198827	exon6	c.G550A	p.V184I	GTCTACGTCAACG	.	PASS	Atlas-SNP
SCAF8	22828	hgsc.bcm.edu	37	6	155152262	155152262	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	21.0	20.0	25.0	0.0	0.952381	0	.	.	none	.	SCAF8	122	.	NM_014892	exon19	c.A2347G	p.N783D	GGTGAAAACACCA	.	PASS	Atlas-SNP
MROH9	80133	hgsc.bcm.edu	37	1	170952652	170952652	+	Missense_Mutation	SNP	C	C	A	rs112394419	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	36.0	16.0	27.0	0.0	0.444444	0	C|0.996;A|0.004	0.004	strong	.	.	.	.	NM_025063	exon9	c.C706A	p.Q236K	TTTCAACAAGACG	.	PASS	Atlas-SNP
FAM63B	54629	hgsc.bcm.edu	37	15	59064214	59064214	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	82.0	36.0	79.0	0.0	0.439024	0	.	.	none	.	FAM63B	33	.	NM_001040450	exon1	c.G620A	p.G207D	AGGAGGGCGCGGC	.	PASS	Atlas-SNP
SLC4A11	83959	hgsc.bcm.edu	37	20	3208967	3208967	+	Missense_Mutation	SNP	C	C	T	rs34224785	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	156.0	64.0	170.0	0.0	0.410256	0	C|0.988;T|0.012	0.012	strong	.	SLC4A11	188	.	NM_001174090	exon19	c.G2625A	p.M875I	GGAGCTCATGCCG	.	PASS	Atlas-SNP
PRMT2	3275	hgsc.bcm.edu	37	21	48071901	48071901	+	Missense_Mutation	SNP	C	C	T	rs77776707	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	154.0	70.0	93.0	0.0	0.454545	0	C|0.992;T|0.008	0.008	strong	.	PRMT2	48	.	NM_001242865	exon7	c.C838T	p.P280S	TCCTGGCCCATCT	.	PASS	Atlas-SNP
RTN4	57142	hgsc.bcm.edu	37	2	55253973	55253973	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	227.0	120.0	232.0	0.0	0.528634	0	.	.	none	.	RTN4	189	.	NM_020532	exon3	c.A1262C	p.D421A	TTTTTATCCACTT	.	PASS	Atlas-SNP
C8B	732	hgsc.bcm.edu	37	1	57409459	57409459	+	Missense_Mutation	SNP	C	C	A	rs139498867	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	173.0	74.0	159.0	0.0	0.427746	0	C|0.994;A|0.006	0.006	strong	.	C8B	107	.	NM_000066	exon8	c.G1144T	p.D382Y	TAAAATCATTTTT	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1264795	1264795	+	Missense_Mutation	SNP	G	G	C	rs200138247	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	322.0	117.0	347.0	0.0	0.363354	0	.	.	weak	.	MUC5B	473	.	NM_002458	exon31	c.G6685C	p.E2229Q	ATCACAGAGCCTT	.	PASS	Atlas-SNP
PEBP4	157310	hgsc.bcm.edu	37	8	22570905	22570905	+	Missense_Mutation	SNP	T	T	G	rs79936857	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	108.0	59.0	131.0	0.0	0.546296	0	T|0.962;G|0.038	0.038	strong	.	PEBP4	23	.	NM_144962	exon7	c.A662C	p.Q221P	TCCGCCTGGTTTT	.	PASS	Atlas-SNP
PJA1	64219	hgsc.bcm.edu	37	X	68382422	68382422	+	Silent	SNP	C	C	T	rs149179614	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	92.0	91.0	89.0	0.0	0.98913	0	C|0.999;T|0.001	0.001	strong	.	PJA1	106	.	NM_145119	exon2	c.G660A	p.S220S	CCTCTCCGAGCTG	.	PASS	Atlas-SNP
EYS	346007	hgsc.bcm.edu	37	6	65622420	65622420	+	Silent	SNP	G	G	A	rs183814213	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	167.0	19.0	291.0	0.0	0.113772	0	G|1.000;A|0.000	0.000	strong	.	EYS	527	.	NM_001142800	exon16	c.C2598T	p.C866C	AGCTAAGCATGTT	.	PASS	Atlas-SNP
HNF1A	6927	hgsc.bcm.edu	37	12	121435427	121435427	+	Missense_Mutation	SNP	G	G	A	rs2464196	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	133.0	62.0	148.0	0.0	0.466165	0	G|0.725;A|0.275	0.275	strong	.	HNF1A	302	.	NM_000545	exon7	c.G1460A	p.S487N	CCCAGAGCCCCTT	.	PASS	Atlas-SNP
UNC5C	8633	hgsc.bcm.edu	37	4	96127799	96127799	+	Missense_Mutation	SNP	C	C	T	rs146123204	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	118.0	51.0	119.0	0.0	0.432203	0	C|0.998;T|0.002	0.002	strong	.	UNC5C	141	.	NM_003728	exon11	c.G1882A	p.A628T	GTGCTGCCTGGTT	.	PASS	Atlas-SNP
CLSPN	63967	hgsc.bcm.edu	37	1	36202125	36202125	+	Missense_Mutation	SNP	C	C	T	rs115320551	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	144.0	132.0	133.0	0.0	0.916667	0	C|0.999;T|0.001	0.001	strong	CLSPN,colon,carcinoma,-1,4	CLSPN	248	4	NM_022111	exon25	c.G3992A	p.R1331Q	ATGCTTCGCGTCA	.	PASS	Atlas-SNP
MCM8	84515	hgsc.bcm.edu	37	20	5974265	5974265	+	Missense_Mutation	SNP	A	A	G	rs16991638	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	52.0	20.0	44.0	0.0	0.384615	0	A|0.934;G|0.066	0.066	strong	.	MCM8	125	.	NM_032485	exon18	c.A2354G	p.N785S	TCAACAACGTTGC	.	PASS	Atlas-SNP
FAM129B	64855	hgsc.bcm.edu	37	9	130270782	130270782	+	Silent	SNP	G	G	A	rs11545937	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	37.0	12.0	28.0	0.0	0.324324	0	G|0.957;C|0.000;A|0.043	0.043	strong	.	FAM129B	84	.	NM_022833	exon11	c.C1353T	p.L451L	GTGCAGGAGGGTC	.	PASS	Atlas-SNP
DTX2	113878	hgsc.bcm.edu	37	7	76112299	76112299	+	Missense_Mutation	SNP	A	A	G	rs145151450	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	266.0	116.0	329.0	1.0	0.43609	0.00303951	A|0.997;G|0.003	0.003	strong	.	DTX2	64	.	NM_001102596	exon2	c.A743G	p.N248S	CGTACAACAAACC	.	PASS	Atlas-SNP
LAMP2	3920	hgsc.bcm.edu	37	X	119576455	119576455	+	Silent	SNP	G	G	A	rs73219144	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	44.0	44.0	44.0	0.0	1	0	G|0.975;A|0.025	0.025	strong	.	LAMP2	101	.	NM_013995	exon7	c.C927T	p.S309S	CTTACCGGAGCCA	.	PASS	Atlas-SNP
DUOX2	50506	hgsc.bcm.edu	37	15	45398797	45398797	+	Missense_Mutation	SNP	C	C	T	rs373620034		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	154.0	72.0	158.0	0.0	0.467532	0	.	.	weak	DUOX2,NS,carcinoma,-1,1	DUOX2	137	1	NM_014080	exon16	c.G1874A	p.R625Q	TGTTCTCGGCCCC	.	PASS	Atlas-SNP
GLTSCR2	29997	hgsc.bcm.edu	37	19	48259787	48259787	+	Silent	SNP	C	C	T	rs11538664	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	48.0	21.0	40.0	0.0	0.4375	0	C|0.984;T|0.016	0.016	strong	.	GLTSCR2	45	.	NM_015710	exon11	c.C1299T	p.P433P	GTAGCCCGAGGGC	.	PASS	Atlas-SNP
ZNF587	84914	hgsc.bcm.edu	37	19	58371212	58371212	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	250.0	17.0	199.0	0.0	0.068	0	.	.	none	.	ZNF587	53	.	NM_032828	exon3	c.A1432T	p.S478C	AAGCACAGCGTGA	.	PASS	Atlas-SNP
CCDC111	201973	hgsc.bcm.edu	37	4	185578337	185578337	+	Nonsense_Mutation	SNP	C	C	T	rs145651098		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	63.0	31.0	67.0	0.0	0.492063	0	C|1.000;T|0.000	0.000	weak	.	CCDC111	43	.	NM_152683	exon3	c.C43T	p.R15X	GAAGAACGAGCAT	.	PASS	Atlas-SNP
MAGEB3	4114	hgsc.bcm.edu	37	X	30254064	30254064	+	Missense_Mutation	SNP	C	C	T	rs201131077	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	130.0	129.0	122.0	1.0	0.992308	0.00819672	.	.	weak	.	MAGEB3	54	.	NM_002365	exon5	c.C23T	p.T8M	AGAGTACGCTCCA	.	PASS	Atlas-SNP
KRT26	353288	hgsc.bcm.edu	37	17	38927462	38927462	+	Silent	SNP	G	G	A	rs113285472	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	128.0	66.0	118.0	0.0	0.515625	0	G|0.997;A|0.003	0.003	strong	.	KRT26	49	.	NM_181539	exon2	c.C468T	p.A156A	AATGCTGGCATTG	.	PASS	Atlas-SNP
TESC	54997	hgsc.bcm.edu	37	12	117486947	117486947	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	73.0	31.0	66.0	0.0	0.424658	0	.	.	none	.	TESC	16	.	NM_017899	exon4	c.C226A	p.P76T	CACTGGGTCCCTT	.	PASS	Atlas-SNP
AMT	275	hgsc.bcm.edu	37	3	49459683	49459683	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	95.0	23.0	111.0	0.0	0.242105	0	.	.	none	.	AMT	22	.	NM_001164712	exon2	c.C112T	p.L38F	CATAGAGCGGTGT	.	PASS	Atlas-SNP
CD2BP2	10421	hgsc.bcm.edu	37	16	30364805	30364805	+	Missense_Mutation	SNP	C	C	T	rs13330462	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	56.0	30.0	57.0	0.0	0.535714	0	C|0.892;T|0.108	0.108	strong	.	CD2BP2	30	.	NM_006110	exon5	c.G692A	p.G231D	CCCAAACCCTTCA	.	PASS	Atlas-SNP
ACOXL	55289	hgsc.bcm.edu	37	2	111551725	111551725	+	Missense_Mutation	SNP	G	G	A	rs150003283	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	109.0	57.0	100.0	0.0	0.522936	0	G|0.995;A|0.005	0.005	strong	ACOXL_ENST00000439055,colon,carcinoma,0,2	ACOXL	93	2	NM_001142807	exon5	c.G319A	p.E107K	CAGACCGAAGCCA	.	PASS	Atlas-SNP
ADAMTS19	171019	hgsc.bcm.edu	37	5	129001247	129001247	+	Silent	SNP	G	G	A	rs77945368	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	62.0	25.0	83.0	0.0	0.403226	0	G|0.993;A|0.007	0.007	strong	ADAMTS19,NS,carcinoma,0,1	ADAMTS19	216	1	NM_133638	exon16	c.G2463A	p.E821E	TGTGGAGGAAAAG	.	PASS	Atlas-SNP
TM4SF20	79853	hgsc.bcm.edu	37	2	228228462	228228462	+	Missense_Mutation	SNP	T	T	G	rs137891000	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	84.0	42.0	70.0	0.0	0.5	0	T|0.995;G|0.005	0.005	strong	.	TM4SF20	24	.	NM_024795	exon4	c.A668C	p.K223T	CTTCGCTTAGAGA	.	PASS	Atlas-SNP
PCDHB12	56124	hgsc.bcm.edu	37	5	140590641	140590641	+	Missense_Mutation	SNP	C	C	G	rs150562956	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	90.0	46.0	53.0	0.0	0.511111	0	C|0.998;G|0.002;T|0.000	0.002	strong	PCDHB12,colon,carcinoma,0,1	PCDHB12	179	1	NM_018932	exon1	c.C2162G	p.P721R	CGGCCCCGGTCGG	.	PASS	Atlas-SNP
NEK1	4750	hgsc.bcm.edu	37	4	170506525	170506525	+	Missense_Mutation	SNP	C	C	T	rs200161705	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	133.0	63.0	172.0	0.0	0.473684	0	C|0.999;T|0.001	0.001	strong	NEK1_ENST00000507142,NS,carcinoma,0,2	NEK1	203	2	NM_001199399	exon10	c.G782A	p.R261H	TCAATGCGTTTGG	.	PASS	Atlas-SNP
TMEM38B	55151	hgsc.bcm.edu	37	9	108536246	108536246	+	Missense_Mutation	SNP	G	G	C	rs35232724	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	65.0	37.0	79.0	0.0	0.569231	0	G|0.960;C|0.040	0.040	strong	.	TMEM38B	31	.	NM_018112	exon6	c.G761C	p.C254S	CATCATGTGAGAA	.	PASS	Atlas-SNP
SLC23A2	9962	hgsc.bcm.edu	37	20	4855309	4855309	+	Silent	SNP	G	G	A	rs41282100	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	80.0	36.0	58.0	0.0	0.45	0	G|0.990;A|0.010	0.010	strong	.	SLC23A2	62	.	NM_203327	exon10	c.C858T	p.Y286Y	TCTGGCGTATTGA	.	PASS	Atlas-SNP
EFCAB4B	84766	hgsc.bcm.edu	37	12	3805977	3805977	+	Missense_Mutation	SNP	A	A	C	rs144314920	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	85.0	42.0	66.0	0.0	0.494118	0	A|1.000;C|0.000	0.000	strong	.	EFCAB4B	100	.	NM_001144958	exon4	c.T189G	p.D63E	TTCAGCATCACAG	.	PASS	Atlas-SNP
C15orf55	256646	hgsc.bcm.edu	37	15	34649336	34649336	+	Missense_Mutation	SNP	G	G	A	rs149177074	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	55.0	26.0	56.0	0.0	0.472727	0	G|0.998;A|0.002	0.002	strong	C15orf55_ENST00000333756,NS,lymphoid_neoplasm,0,1	C15orf55	110	1	NM_175741	exon7	c.G3043A	p.E1015K	GAGGATGAGGAAC	.	PASS	Atlas-SNP
PGAM1	5223	hgsc.bcm.edu	37	10	99190185	99190185	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	81.0	41.0	82.0	0.0	0.506173	0	.	.	none	PGAM1,caecum,carcinoma,+1,1	PGAM1	11	1	NM_002629	exon2	c.G189A	p.A63A	GAGAGCGATCCGG	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100686291	100686291	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	101.0	55.0	99.0	0.0	0.544554	0	.	.	none	MUC17,NS,carcinoma,+1,1	MUC17	804	1	NM_001040105	exon3	c.G11594A	p.R3865H	CCATACGTATTTC	.	PASS	Atlas-SNP
MANEAL	149175	hgsc.bcm.edu	37	1	38265653	38265653	+	Silent	SNP	T	T	C	rs41267339	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	125.0	118.0	128.0	1.0	0.944	0.0078125	T|0.982;C|0.018	0.018	strong	.	MANEAL	43	.	NM_001113482	exon4	c.T1152C	p.Y384Y	GTACTATGAGACG	.	PASS	Atlas-SNP
ATAD3B	83858	hgsc.bcm.edu	37	1	1431048	1431048	+	Missense_Mutation	SNP	A	A	G	rs201429000		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	147.0	9.0	119.0	2.0	0.0612245	0.0168067	.	.	weak	ATAD3B,NS,neuroblastoma,0,1	ATAD3B	68	1	NM_031921	exon16	c.A1798G	p.T600A	CTGGCCACGGACC	.	scavenged	Atlas-SNP
OR2H1	26716	hgsc.bcm.edu	37	6	29429766	29429766	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	203.0	93.0	206.0	0.0	0.458128	0	.	.	none	.	OR2H1	38	.	NM_030883	exon3	c.A220G	p.S74G	ACCACAAGTTGTG	.	PASS	Atlas-SNP
DNPH1	10591	hgsc.bcm.edu	37	6	43193877	43193877	+	Silent	SNP	G	G	A	rs7832	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	31.0	16.0	34.0	0.0	0.516129	0	G|0.942;A|0.058	0.058	strong	C6orf108_ENST00000393987,NS,carcinoma,0,2	.	.	2	NM_006443	exon3	c.C270T	p.V90V	TGCCACGACCACT	.	PASS	Atlas-SNP
MTUS1	57509	hgsc.bcm.edu	37	8	17513484	17513484	+	Missense_Mutation	SNP	T	T	C	rs61733708	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	209.0	110.0	245.0	0.0	0.526316	0	T|0.992;C|0.008	0.008	strong	.	MTUS1	144	.	NM_001001924	exon9	c.A2996G	p.E999G	GTTTTTTCAGCCT	.	PASS	Atlas-SNP
LOXHD1	125336	hgsc.bcm.edu	37	18	44157746	44157746	+	Missense_Mutation	SNP	C	C	A	rs35088381	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	88.0	45.0	85.0	0.0	0.511364	0	C|0.984;A|0.016	0.016	strong	.	LOXHD1	367	.	NM_144612	exon14	c.G1894T	p.G632C	ACCAGCCGCTGCC	.	PASS	Atlas-SNP
RECK	8434	hgsc.bcm.edu	37	9	36107981	36107981	+	Missense_Mutation	SNP	C	C	G	rs148296262	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	92.0	45.0	97.0	0.0	0.48913	0	C|0.997;G|0.003	0.003	strong	.	RECK	73	.	NM_021111	exon14	c.C1585G	p.L529V	TGCAAACTGGGAG	.	PASS	Atlas-SNP
SLC22A20	440044	hgsc.bcm.edu	37	11	64981818	64981818	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	72.0	45.0	62.0	0.0	0.625	0	.	.	none	.	SLC22A20	36	.	NM_001004326	exon2	c.C403T	p.R135C	GAGGCCCGCACTC	.	PASS	Atlas-SNP
KCNH4	23415	hgsc.bcm.edu	37	17	40312349	40312349	+	Silent	SNP	G	G	A	rs138917401	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	110.0	50.0	122.0	0.0	0.454545	0	G|0.996;A|0.004	0.004	strong	.	KCNH4	105	.	NM_012285	exon16	c.C2763T	p.S921S	CCAAGCGGAGCCT	.	PASS	Atlas-SNP
MYO1E	4643	hgsc.bcm.edu	37	15	59500970	59500970	+	Silent	SNP	C	C	T	rs117265950	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	158.0	63.0	152.0	0.0	0.398734	0	C|0.991;T|0.009	0.009	strong	.	MYO1E	99	.	NM_004998	exon14	c.G1440A	p.T480T	GAGCAGCGTCTGA	.	PASS	Atlas-SNP
EPB41L2	2037	hgsc.bcm.edu	37	6	131186718	131186718	+	Silent	SNP	T	T	A	rs149001048	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	154.0	19.0	247.0	0.0	0.123377	0	T|1.000;A|0.000	0.000	strong	.	EPB41L2	96	.	NM_001431	exon17	c.A2787T	p.T929T	CTCAGATGTGATG	.	PASS	Atlas-SNP
HEG1	57493	hgsc.bcm.edu	37	3	124746237	124746237	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	213.0	106.0	199.0	0.0	0.497653	0	.	.	none	.	HEG1	109	.	NM_020733	exon3	c.T725A	p.L242Q	TCTGACAGCCCCA	.	PASS	Atlas-SNP
MRPL40	64976	hgsc.bcm.edu	37	22	19423257	19423257	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	120.0	5.0	118.0	0.0	0.0416667	0	.	.	none	.	MRPL40	13	.	NM_003776	exon4	c.G393A	p.M131I	TAAGATGGAGAGG	.	PASS	Atlas-SNP
OTOP3	347741	hgsc.bcm.edu	37	17	72943184	72943184	+	Missense_Mutation	SNP	C	C	T	rs142183564	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	83.0	42.0	66.0	0.0	0.506024	0	C|0.999;T|0.001	0.001	strong	.	OTOP3	64	.	NM_178233	exon6	c.C1234T	p.R412C	CCTACCCGCAGCC	.	PASS	Atlas-SNP
ABLIM3	22885	hgsc.bcm.edu	37	5	148596547	148596547	+	Missense_Mutation	SNP	C	C	T	rs116226381	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	79.0	39.0	106.0	0.0	0.493671	0	C|0.997;T|0.003	0.003	strong	.	ABLIM3	91	.	NM_014945	exon8	c.C695T	p.T232I	ACCCAACCTGTGC	.	PASS	Atlas-SNP
USP6	9098	hgsc.bcm.edu	37	17	5039138	5039138	+	Silent	SNP	C	C	T	rs3213878	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	14.0	7.0	12.0	0.0	0.5	0	C|0.883;T|0.117	0.117	strong	.	USP6	213	.	NM_004505	exon9	c.C579T	p.T193T	CATCACCGCCTTG	.	PASS	Atlas-SNP
ART3	419	hgsc.bcm.edu	37	4	77003484	77003484	+	Missense_Mutation	SNP	G	G	A	rs142545952	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	96.0	40.0	77.0	0.0	0.416667	0	G|1.000;A|0.000	0.000	strong	ART3,NS,carcinoma,0,1	ART3	34	1	NM_001130017	exon3	c.G577A	p.A193T	CCTCAGGCTGCTA	.	PASS	Atlas-SNP
SLC12A9	56996	hgsc.bcm.edu	37	7	100464053	100464053	+	Silent	SNP	G	G	A	rs199582669	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	18.0	8.0	16.0	0.0	0.444444	0	G|0.995;A|0.005	0.005	strong	.	SLC12A9	81	.	NM_020246	exon14	c.G2571A	p.E857E	GCCGGAGGGTGGG	.	PASS	Atlas-SNP
ND6	0	hgsc.bcm.edu	37	MT	14311	14311	+	Silent	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	8.0	8.0	7.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361681	exon1	c.A363G	p.V121V	GCTTCCTACACTA	.	PASS	Atlas-SNP
PRDM16	63976	hgsc.bcm.edu	37	1	3329037	3329037	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	85.0	77.0	70.0	0.0	0.905882	0	.	.	none	PRDM16,NS,lymphoid_neoplasm,+1,1	PRDM16	147	1	NM_022114	exon9	c.G2276A	p.R759Q	CACCCCGGGACGC	.	PASS	Atlas-SNP
IKBIP	121457	hgsc.bcm.edu	37	12	99007411	99007411	+	Silent	SNP	C	C	T	rs201283576	bycluster;by1000genomes;alternate_allele	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	47.0	15.0	45.0	0.0	0.319149	0	C|0.999;A|0.001	.	alt	.	IKBIP	46	.	NM_201612	exon3	c.G1005A	p.E335E	CTTAATCTCAGCT	.	PASS	Atlas-SNP
BRCA2	675	hgsc.bcm.edu	37	13	32914126	32914126	+	Missense_Mutation	SNP	C	C	G	rs80358784	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	61.0	27.0	81.0	0.0	0.442623	0	C|0.999;T|0.001	.	weak	.	BRCA2	812	.	NM_000059	exon11	c.C5634G	p.N1878K	AAACAACGAGAAT	.	PASS	Atlas-SNP
SMYD3	64754	hgsc.bcm.edu	37	1	246078851	246078851	+	Missense_Mutation	SNP	C	C	T	rs61762672	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	103.0	43.0	83.0	0.0	0.417476	0	C|0.999;T|0.001	0.001	strong	.	SMYD3	77	.	NM_001167740	exon8	c.G794A	p.R265H	TGGCAACGGAAAC	.	PASS	Atlas-SNP
ZNF407	55628	hgsc.bcm.edu	37	18	72346701	72346701	+	Silent	SNP	T	T	C	rs146635665	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	58.0	27.0	72.0	0.0	0.465517	0	T|0.997;C|0.003	0.003	strong	.	ZNF407	231	.	NM_001146190	exon1	c.T3726C	p.G1242G	TGGAGGTGTTGTC	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134680921	134680921	+	Silent	SNP	A	A	G	rs141926275	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	152.0	71.0	143.0	0.0	0.467105	0	A|0.985;G|0.015	0.015	strong	.	TTC40	100	.	NM_001200049	exon34	c.T4701C	p.P1567P	CTGGACAGGAAGT	.	PASS	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	37	2	196825256	196825256	+	Silent	SNP	G	G	C	rs115124743	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	163.0	74.0	161.0	0.0	0.453988	0	G|0.969;C|0.031	0.031	strong	.	DNAH7	512	.	NM_018897	exon18	c.C2619G	p.V873V	AGAGGAGACTGTG	.	PASS	Atlas-SNP
ERC2	26059	hgsc.bcm.edu	37	3	55922561	55922561	+	Missense_Mutation	SNP	T	T	G	rs61745935	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	226.0	117.0	213.0	0.0	0.517699	0	T|0.999;G|0.001	0.001	strong	ERC2_ENST00000288221,NS,carcinoma,+1,2	ERC2	221	2	NM_015576	exon13	c.A2414C	p.N805T	AGTGCATTCATCA	.	PASS	Atlas-SNP
IL31RA	133396	hgsc.bcm.edu	37	5	55147405	55147405	+	Missense_Mutation	SNP	A	A	C	rs75528518	bycluster;alternate_allele	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	160.0	69.0	133.0	0.0	0.43125	0	.	.	alt	.	IL31RA	84	.	NM_001242637	exon1	c.A7C	p.I3L	ATGTGCATCAGGC	.	PASS	Atlas-SNP
RDH8	50700	hgsc.bcm.edu	37	19	10124257	10124257	+	Silent	SNP	C	C	T	rs150712129	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	37.0	16.0	28.0	0.0	0.432432	0	C|1.000;T|0.000	0.000	strong	.	RDH8	51	.	NM_015725	exon1	c.C144T	p.D48D	CCATGACCCCAAG	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134671154	134671154	+	Silent	SNP	G	G	A	rs189775198	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	132.0	60.0	131.0	0.0	0.454545	0	G|0.991;A|0.009	0.009	strong	.	TTC40	100	.	NM_001200049	exon39	c.C5514T	p.G1838G	CATGGCGCCCTGG	.	PASS	Atlas-SNP
XIRP2	129446	hgsc.bcm.edu	37	2	168104679	168104679	+	Silent	SNP	T	T	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	176.0	60.0	196.0	0.0	0.340909	0	.	.	none	.	XIRP2	914	.	NM_152381	exon9	c.T6777G	p.T2259T	AAATACTTCCACA	.	PASS	Atlas-SNP
RECQL4	9401	hgsc.bcm.edu	37	8	145737123	145737123	+	Missense_Mutation	SNP	G	G	A	rs35346077	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	79.0	50.0	57.0	0.0	0.632911	0	G|0.995;A|0.005	0.005	weak	.	RECQL4	75	.	NM_004260	exon21	c.C3443T	p.S1148F	CTCAGGGACAGGA	.	PASS	Atlas-SNP
AQP11	282679	hgsc.bcm.edu	37	11	77301385	77301385	+	Silent	SNP	G	G	A	rs145642525	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	113.0	51.0	85.0	0.0	0.451327	0	G|0.998;A|0.002	0.002	strong	.	AQP11	14	.	NM_173039	exon1	c.G348A	p.T116T	CGAGACGGGTGCG	.	PASS	Atlas-SNP
ADAMTS9	56999	hgsc.bcm.edu	37	3	64606840	64606840	+	Silent	SNP	C	C	A	rs149253049	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	208.0	98.0	170.0	0.0	0.471154	0	A|0.001;C|0.999;G|0.000	0.001	strong	.	ADAMTS9	206	.	NM_182920	exon19	c.G2763T	p.L921L	CTGGGGCAGCCGA	.	PASS	Atlas-SNP
PPFIA4	8497	hgsc.bcm.edu	37	1	203044777	203044777	+	Missense_Mutation	SNP	G	G	A	rs12130501	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	11.0	6.0	14.0	0.0	0.545455	0	G|0.992;A|0.008	0.008	strong	PPFIA4_ENST00000272198,colon,carcinoma,-1,2	PPFIA4	139	2	NM_015053	exon16	c.G1948A	p.G650S	GGTCGCGGCGGCA	.	PASS	Atlas-SNP
MYO16	23026	hgsc.bcm.edu	37	13	109613929	109613929	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	99.0	4.0	137.0	0.0	0.040404	0	.	.	none	.	MYO16	285	.	NM_001198950	exon18	c.C2080T	p.L694F	TTGCACCTTGGAG	.	PASS	Atlas-SNP
GNB2	2783	hgsc.bcm.edu	37	7	100276355	100276355	+	Silent	SNP	C	C	T	rs17850902	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	147.0	83.0	145.0	0.0	0.564626	0	C|0.995;T|0.005	0.005	strong	.	GNB2	29	.	NM_005273	exon10	c.C954T	p.L318L	CTGCCTCGGGGTC	.	PASS	Atlas-SNP
POU2F2	5452	hgsc.bcm.edu	37	19	42600030	42600030	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	79.0	31.0	30.0	0.0	0.392405	0	.	.	none	POU2F2_ENST00000292077,NS,lymphoid_neoplasm,0,8	POU2F2	106	8	NM_001207025	exon9	c.A715G	p.T239A	TGGTCGTCTGGCT	.	PASS	Atlas-SNP
ACADL	33	hgsc.bcm.edu	37	2	211085491	211085491	+	Missense_Mutation	SNP	G	G	A	rs61731470	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	39.0	25.0	44.0	0.0	0.641026	0	G|0.976;A|0.024	0.024	strong	.	ACADL	38	.	NM_001608	exon2	c.C113T	p.T38I	GAAGGAGTTTCTA	.	PASS	Atlas-SNP
PTPRN2	5799	hgsc.bcm.edu	37	7	157369324	157369324	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	57.0	20.0	45.0	0.0	0.350877	0	.	.	none	.	PTPRN2	243	.	NM_002847	exon19	c.T2764C	p.S922P	GGAGGGACCTTGA	.	PASS	Atlas-SNP
ATP8B4	79895	hgsc.bcm.edu	37	15	50212572	50212572	+	Silent	SNP	G	G	T	rs72733094	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	174.0	92.0	199.0	1.0	0.528736	0.00502513	G|0.994;T|0.006	0.006	strong	.	ATP8B4	173	.	NM_024837	exon18	c.C1794A	p.I598I	GTATGCGATGGCC	.	PASS	Atlas-SNP
RIN3	79890	hgsc.bcm.edu	37	14	93118790	93118790	+	Missense_Mutation	SNP	A	A	C	rs139248637	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	83.0	34.0	85.0	0.0	0.409639	0	A|0.998;C|0.002	0.002	strong	.	RIN3	81	.	NM_024832	exon6	c.A1396C	p.I466L	AAACGGATCTCTC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239622	31239622	+	Missense_Mutation	SNP	C	C	G	rs9264668	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	58.0	11.0	25.0	0.0	0.189655	0	A|0.575;C|0.423;G|0.002	0.002	strong	HLA-C_ENST00000383329,NS,neuroblastoma,0,2	HLA-C	92	2	NM_002117	exon2	c.G97C	p.D33H	CGGTGTCGAAATA	.	scavenged	Atlas-SNP
AP5Z1	9907	hgsc.bcm.edu	37	7	4830971	4830971	+	Silent	SNP	G	G	T	rs77393809	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	137.0	73.0	109.0	0.0	0.532847	0	G|0.985;T|0.015	0.015	strong	.	.	.	.	NM_014855	exon17	c.G2379T	p.T793T	GCGCACGGTCAGC	.	PASS	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	37	3	129303236	129303236	+	Missense_Mutation	SNP	G	G	C	rs201334507	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	70.0	40.0	93.0	0.0	0.571429	0	.	.	weak	.	PLXND1	149	.	NM_015103	exon6	c.C2021G	p.P674R	TGGTTGGGGGGGA	.	PASS	Atlas-SNP
UNC5C	8633	hgsc.bcm.edu	37	4	96127798	96127798	+	Missense_Mutation	SNP	G	G	T	rs141976218	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	117.0	50.0	119.0	0.0	0.42735	0	G|0.998;T|0.002	0.002	strong	.	UNC5C	141	.	NM_003728	exon11	c.C1883A	p.A628E	TGTGCTGCCTGGT	.	PASS	Atlas-SNP
NACAD	23148	hgsc.bcm.edu	37	7	45123859	45123859	+	Silent	SNP	G	G	A	rs72497819	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	19.0	6.0	19.0	0.0	0.315789	0	G|0.792;A|0.208	0.208	strong	.	NACAD	44	.	NM_001146334	exon2	c.C1920T	p.S640S	CATAACGGAGTCC	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26423477	26423477	+	Missense_Mutation	SNP	G	G	A	rs7284177	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	49.0	19.0	60.0	0.0	0.387755	0	G|0.931;A|0.069	0.069	strong	.	MYO18B	322	.	NM_032608	exon43	c.G7537A	p.G2513S	TCCTCCGGCTCCA	.	PASS	Atlas-SNP
COL8A2	1296	hgsc.bcm.edu	37	1	36563509	36563509	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	69.0	67.0	46.0	0.0	0.971014	0	.	.	none	.	COL8A2	41	.	NM_005202	exon2	c.C1773T	p.P591P	TTTCACGGGCATG	.	PASS	Atlas-SNP
AGRP	181	hgsc.bcm.edu	37	16	67516605	67516605	+	Silent	SNP	G	G	C	rs34730014	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	147.0	63.0	138.0	0.0	0.428571	0	G|0.997;C|0.003	0.003	strong	.	AGRP	8	.	NM_001138	exon4	c.C333G	p.R111R	GAAGAAGCGGCAG	.	PASS	Atlas-SNP
TAF7L	54457	hgsc.bcm.edu	37	X	100547804	100547804	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	47.0	45.0	52.0	0.0	0.957447	0	.	.	none	.	TAF7L	64	.	NM_024885	exon1	c.C230G	p.A77G	TCTGGGGCCTGGG	.	PASS	Atlas-SNP
SPATC1L	84221	hgsc.bcm.edu	37	21	47588427	47588427	+	Silent	SNP	G	G	A	rs74486947	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	90.0	42.0	52.0	0.0	0.466667	0	G|0.966;A|0.034	0.034	strong	.	.	.	.	NM_001142854	exon3	c.C339T	p.P113P	CTTGAAGGGTGCC	.	PASS	Atlas-SNP
TSPAN16	26526	hgsc.bcm.edu	37	19	11407019	11407019	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	121.0	57.0	126.0	0.0	0.471074	0	.	.	none	.	TSPAN16	22	.	NM_012466	exon1	c.T46C	p.S16P	CTGTTATCTTTAC	.	PASS	Atlas-SNP
LSS	4047	hgsc.bcm.edu	37	21	47635686	47635686	+	Missense_Mutation	SNP	C	C	T	rs143692945	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	118.0	64.0	87.0	0.0	0.542373	0	C|0.997;T|0.003	0.003	strong	.	LSS	50	.	NM_001001438	exon8	c.G805A	p.A269T	TGCTGGCGAAGTC	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1258184	1258184	+	Silent	SNP	C	C	T	rs55703838	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	44.0	21.0	48.0	0.0	0.477273	0	C|0.993;T|0.007	0.007	strong	.	MUC5B	473	.	NM_002458	exon25	c.C3087T	p.F1029F	GAACTTCGACGAC	.	PASS	Atlas-SNP
PSMC4	5704	hgsc.bcm.edu	37	19	40478362	40478362	+	Silent	SNP	T	T	C	rs35555615	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	45.0	15.0	43.0	0.0	0.333333	0	T|0.976;C|0.024	0.024	strong	.	PSMC4	48	.	NM_006503	exon3	c.T222C	p.H74H	TCTCCATGCCCAG	.	PASS	Atlas-SNP
DYDC1	143241	hgsc.bcm.edu	37	10	82098881	82098881	+	Missense_Mutation	SNP	A	A	T	rs35605779	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	112.0	51.0	111.0	0.0	0.455357	0	A|0.994;T|0.006	0.006	strong	.	DYDC1	15	.	NM_001269053	exon5	c.T371A	p.V124D	TTCCTAACTAGAT	.	PASS	Atlas-SNP
GIPR	2696	hgsc.bcm.edu	37	19	46177997	46177997	+	Silent	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	96.0	48.0	89.0	0.0	0.5	0	.	.	none	.	GIPR	36	.	NM_000164	exon7	c.G546T	p.L182L	CATGCTGCGAGCT	.	PASS	Atlas-SNP
HNF4A	3172	hgsc.bcm.edu	37	20	43048368	43048368	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	54.0	24.0	58.0	0.0	0.444444	0	.	.	none	.	HNF4A	150	.	NM_178849	exon7	c.C744T	p.D248D	CAATGACTACATT	.	PASS	Atlas-SNP
BNC2	54796	hgsc.bcm.edu	37	9	16419519	16419519	+	Missense_Mutation	SNP	G	G	A	rs117452684	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	89.0	46.0	116.0	0.0	0.516854	0	G|0.979;A|0.021	0.021	strong	.	BNC2	166	.	NM_017637	exon7	c.C2768T	p.A923V	TGCTGGGCACCAT	.	PASS	Atlas-SNP
ARHGEF18	23370	hgsc.bcm.edu	37	19	7505147	7505147	+	Missense_Mutation	SNP	G	G	T	rs201598844		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	116.0	52.0	74.0	0.0	0.448276	0	G|0.999;T|0.001	0.001	weak	.	ARHGEF18	129	.	NM_001130955	exon1	c.G321T	p.Q107H	GCCGCAGTCGGAG	.	PASS	Atlas-SNP
PKN1	5585	hgsc.bcm.edu	37	19	14580197	14580197	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	142.0	82.0	150.0	0.0	0.577465	0	.	.	none	.	PKN1	99	.	NM_213560	exon16	c.G2039T	p.G680V	GTGCGGGACACCC	.	PASS	Atlas-SNP
MCM3AP	8888	hgsc.bcm.edu	37	21	47695220	47695220	+	Silent	SNP	A	A	G	rs2839190	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	88.0	42.0	65.0	0.0	0.477273	0	A|0.864;G|0.136	0.136	strong	.	MCM3AP	146	.	NM_003906	exon6	c.T1878C	p.D626D	GTCCAGATCGGTT	.	PASS	Atlas-SNP
MCM8	84515	hgsc.bcm.edu	37	20	5935303	5935303	+	Missense_Mutation	SNP	A	A	C	rs6117014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	100.0	36.0	87.0	0.0	0.36	0	A|0.936;C|0.064	0.064	strong	.	MCM8	125	.	NM_032485	exon4	c.A303C	p.K101N	TGAAAAATTTTTC	.	PASS	Atlas-SNP
IL6ST	3572	hgsc.bcm.edu	37	5	55272085	55272085	+	Missense_Mutation	SNP	G	G	C	rs1063560	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	180.0	82.0	163.0	0.0	0.455556	0	G|0.989;C|0.011	0.011	strong	.	IL6ST	75	.	NM_175767	exon3	c.C22G	p.L8V	GCACTAGCCAAGT	.	PASS	Atlas-SNP
BAGE3	85318	hgsc.bcm.edu	37	21	11049616	11049616	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	388.0	27.0	430.0	0.0	0.0695876	0	.	.	none	.	.	.	.	NM_182481	exon4	c.G285A	p.R95R	CATCTTCCTTCGC	.	PASS	Atlas-SNP
SSRP1	6749	hgsc.bcm.edu	37	11	57099661	57099661	+	Silent	SNP	T	T	C	rs2230648	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	48.0	19.0	73.0	0.0	0.395833	0	T|0.967;C|0.033;A|0.000	0.033	strong	.	SSRP1	75	.	NM_003146	exon8	c.A966G	p.V322V	GCGGTTTACCAGT	.	PASS	Atlas-SNP
CENPB	1059	hgsc.bcm.edu	37	20	3766885	3766885	+	Silent	SNP	G	G	A	rs140023764	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	35.0	16.0	29.0	0.0	0.457143	0	G|0.997;A|0.003	0.003	strong	.	CENPB	24	.	NM_001810	exon1	c.C246T	p.I82I	CCAGGCGATGAGC	.	PASS	Atlas-SNP
PARD6B	84612	hgsc.bcm.edu	37	20	49366879	49366879	+	Silent	SNP	C	C	T	rs41283606	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	194.0	98.0	165.0	0.0	0.505155	0	C|0.996;T|0.004	0.004	strong	.	PARD6B	31	.	NM_032521	exon3	c.C973T	p.L325L	ATAGAGCTAAGCT	.	PASS	Atlas-SNP
SGCD	6444	hgsc.bcm.edu	37	5	155935708	155935708	+	Missense_Mutation	SNP	G	G	A	rs45559835	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	61.0	26.0	60.0	0.0	0.42623	0	G|0.972;A|0.028	0.028	strong	SGCD,NS,carcinoma,+1,1	SGCD	52	1	NM_000337	exon4	c.G290A	p.R97Q	AGTCCCGACCAGT	.	PASS	Atlas-SNP
SPICE1	152185	hgsc.bcm.edu	37	3	113175984	113175984	+	Silent	SNP	G	G	A	rs146846950	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	45.0	24.0	46.0	0.0	0.533333	0	G|0.995;A|0.005	0.005	strong	SPICE1_ENST00000295872,NS,carcinoma,0,2	SPICE1	130	2	NM_144718	exon13	c.C1656T	p.D552D	CTTACCGTCCTGA	.	PASS	Atlas-SNP
PTCRA	171558	hgsc.bcm.edu	37	6	42893254	42893254	+	Missense_Mutation	SNP	G	G	A	rs146531157	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	45.0	25.0	52.0	0.0	0.555556	0	G|0.999;A|0.001	0.001	strong	.	PTCRA	24	.	NM_001243168	exon4	c.G725A	p.R242Q	CGGGTCGGAAGCC	.	PASS	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057666	46057666	+	Missense_Mutation	SNP	A	A	T	rs116100696	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	150.0	90.0	140.0	0.0	0.6	0	A|0.982;T|0.018	0.018	strong	.	KRTAP10-10	37	.	NM_181688	exon1	c.A332T	p.K111M	GTAACAAGCCTGT	.	PASS	Atlas-SNP
ACSL3	2181	hgsc.bcm.edu	37	2	223799388	223799388	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	101.0	44.0	113.0	0.0	0.435644	0	.	.	none	.	ACSL3	107	.	NM_203372	exon15	c.C1988T	p.S663F	TGCTTTCCGAAGC	.	PASS	Atlas-SNP
TMEM30A	55754	hgsc.bcm.edu	37	6	75965985	75965985	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	55.0	41.0	83.0	0.0	0.745455	0	.	.	none	TMEM30A,NS,carcinoma,+1,3	TMEM30A	40	3	NM_018247	exon7	c.C919T	p.R307X	GTTTTCGTCCATC	.	PASS	Atlas-SNP
WDR17	116966	hgsc.bcm.edu	37	4	177089839	177089839	+	Missense_Mutation	SNP	C	C	G	rs140459637	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	131.0	51.0	150.0	0.0	0.389313	0	C|0.995;G|0.005	0.005	strong	.	WDR17	198	.	NM_170710	exon25	c.C3124G	p.L1042V	GCTGATCTTCTTC	.	PASS	Atlas-SNP
DUXA	503835	hgsc.bcm.edu	37	19	57669827	57669827	+	Missense_Mutation	SNP	G	G	A	rs140589597	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	80.0	37.0	100.0	0.0	0.4625	0	G|0.999;A|0.001	0.001	strong	DUXA,NS,carcinoma,+1,3	DUXA	46	3	NM_001012729	exon4	c.C307T	p.R103W	GACACCGTCTGGC	.	PASS	Atlas-SNP
SLC22A18	5002	hgsc.bcm.edu	37	11	2929502	2929502	+	Missense_Mutation	SNP	G	G	T	rs143044180	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	81.0	45.0	92.0	0.0	0.555556	0	G|0.998;T|0.002	0.002	strong	SLC22A18,NS,carcinoma,0,1	SLC22A18	20	1	NM_002555	exon3	c.G184T	p.G62C	GCCTTCGGCTACC	.	PASS	Atlas-SNP
MTUS2	23281	hgsc.bcm.edu	37	13	29675049	29675049	+	Silent	SNP	A	A	T	rs140464903	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	87.0	40.0	72.0	0.0	0.45977	0	A|0.965;T|0.035	0.035	strong	MTUS2_ENST00000431530,NS,carcinoma,0,1	MTUS2	279	1	NM_001033602	exon3	c.A2616T	p.S872S	CTCCTCAGTCTCC	.	PASS	Atlas-SNP
GLTSCR1L	23506	hgsc.bcm.edu	37	6	42832683	42832683	+	Silent	SNP	G	G	A	rs10456519	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	59.0	28.0	40.0	0.0	0.474576	0	G|0.989;A|0.011	0.011	strong	.	.	.	.	NM_015349	exon12	c.G2739A	p.Q913Q	AGTGCAGTACCAG	.	PASS	Atlas-SNP
NSD1	64324	hgsc.bcm.edu	37	5	176721879	176721879	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	42.0	17.0	34.0	0.0	0.404762	0	.	.	none	.	NSD1	416	.	NM_022455	exon23	c.G7510A	p.V2504I	AGAGCTGTTGAGA	.	PASS	Atlas-SNP
POLRMT	5442	hgsc.bcm.edu	37	19	621148	621148	+	Silent	SNP	C	C	T	rs143192895	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	86.0	26.0	74.0	0.0	0.302326	0	C|0.997;T|0.003	0.003	strong	.	POLRMT	91	.	NM_005035	exon10	c.G2550A	p.G850G	CTTCAACCCCGTG	.	PASS	Atlas-SNP
ZFYVE9	9372	hgsc.bcm.edu	37	1	52803595	52803595	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	128.0	73.0	145.0	0.0	0.570312	0	.	.	none	.	ZFYVE9	131	.	NM_004799	exon16	c.C3822T	p.N1274N	CAAGAACGTTAGC	.	PASS	Atlas-SNP
AP5Z1	9907	hgsc.bcm.edu	37	7	4821300	4821300	+	Missense_Mutation	SNP	C	C	G	rs11549839	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	126.0	70.0	130.0	0.0	0.555556	0	C|0.987;G|0.013	0.013	strong	.	.	.	.	NM_014855	exon3	c.C281G	p.S94C	AGATGTCCCCCTC	.	PASS	Atlas-SNP
GNRH1	2796	hgsc.bcm.edu	37	8	25279148	25279148	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	150.0	67.0	195.0	0.0	0.446667	0	.	.	none	.	GNRH1	8	.	NM_000825	exon2	c.C190T	p.R64C	CGAAGCGTTGGGT	.	PASS	Atlas-SNP
FAM171B	165215	hgsc.bcm.edu	37	2	187615953	187615953	+	Missense_Mutation	SNP	G	G	A	rs201119796		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	77.0	29.0	83.0	0.0	0.376623	0	G|0.999;A|0.001	0.001	weak	FAM171B,rectum,carcinoma,-1,2	FAM171B	146	2	NM_177454	exon5	c.G817A	p.V273I	ATTCAAGTTTCTC	.	PASS	Atlas-SNP
MYB	4602	hgsc.bcm.edu	37	6	135518402	135518402	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	72.0	70.0	105.0	0.0	0.972222	0	.	.	none	.	MYB	137	.	NM_001130173	exon10	c.G1507A	p.V503I	GCTGACGTCAGCA	.	PASS	Atlas-SNP
ATF4	468	hgsc.bcm.edu	37	22	39917787	39917787	+	Missense_Mutation	SNP	T	T	G	rs141575018	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	61.0	30.0	76.0	0.0	0.491803	0	T|1.000;G|0.000	0.000	weak	.	ATF4	27	.	NM_001675	exon2	c.T236G	p.F79C	ATGCCTTCTCCGG	.	PASS	Atlas-SNP
GYLTL1B	120071	hgsc.bcm.edu	37	11	45948962	45948962	+	Silent	SNP	C	C	T	rs138897549	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	83.0	32.0	84.0	0.0	0.385542	0	C|1.000;T|0.000	0.000	strong	.	GYLTL1B	45	.	NM_152312	exon11	c.C1422T	p.F474F	GCATTTCGTCGAG	.	PASS	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	37	11	57076895	57076895	+	Missense_Mutation	SNP	T	T	C	rs35950335	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	60.0	34.0	75.0	0.0	0.566667	0	T|0.968;C|0.032	0.032	strong	.	TNKS1BP1	148	.	NM_033396	exon6	c.A3290G	p.Q1097R	TCTCGCTGGGGGC	.	PASS	Atlas-SNP
TECTA	7007	hgsc.bcm.edu	37	11	121030874	121030874	+	Missense_Mutation	SNP	A	A	G	rs147354818	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	124.0	65.0	97.0	0.0	0.524194	0	A|0.999;G|0.001	0.001	strong	.	TECTA	329	.	NM_005422	exon14	c.A4720G	p.I1574V	CCATTTATAACTG	.	PASS	Atlas-SNP
APOBEC1	339	hgsc.bcm.edu	37	12	7805154	7805154	+	Missense_Mutation	SNP	G	G	A	rs61753204	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	80.0	44.0	86.0	0.0	0.55	0	G|0.989;A|0.011	0.011	strong	.	APOBEC1	43	.	NM_001644	exon3	c.C322T	p.P108S	CACCAGGGTGCCG	.	PASS	Atlas-SNP
LRRC29	26231	hgsc.bcm.edu	37	16	67241930	67241930	+	Missense_Mutation	SNP	C	C	T	rs34595673	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	111.0	54.0	90.0	0.0	0.486486	0	C|0.909;T|0.091	0.091	strong	.	LRRC29	13	.	NM_001004055	exon5	c.G349A	p.G117S	CCAAGCCGTTGTC	.	PASS	Atlas-SNP
MACF1	23499	hgsc.bcm.edu	37	1	39549942	39549942	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	80.0	74.0	76.0	0.0	0.925	0	.	.	none	MACF1_ENST00000361689,caecum,carcinoma,-1,1	MACF1	909	1	NM_012090	exon3	c.C52T	p.R18W	AGTGAGCGGTCTT	.	PASS	Atlas-SNP
ZNF491	126069	hgsc.bcm.edu	37	19	11916914	11916914	+	Missense_Mutation	SNP	A	A	G	rs141870350	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	76.0	38.0	78.0	0.0	0.5	0	A|0.997;G|0.003	0.003	strong	.	ZNF491	61	.	NM_152356	exon3	c.A146G	p.Y49C	TGGGATATTCATC	.	PASS	Atlas-SNP
KRT9	3857	hgsc.bcm.edu	37	17	39724810	39724810	+	Missense_Mutation	SNP	G	G	A	rs116216460	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	124.0	68.0	114.0	0.0	0.548387	0	G|0.998;A|0.002	0.002	strong	.	KRT9	78	.	NM_000226	exon5	c.C1120T	p.R374W	CGTGCCGGAGCTG	.	PASS	Atlas-SNP
FPGS	2356	hgsc.bcm.edu	37	9	130566678	130566678	+	Missense_Mutation	SNP	C	C	T	rs41306702	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	93.0	54.0	96.0	0.0	0.580645	0	C|0.997;T|0.003	0.003	strong	.	FPGS	30	.	NM_004957	exon2	c.C253T	p.R85W	CTGGCACGGAGTG	.	PASS	Atlas-SNP
ZSWIM8	23053	hgsc.bcm.edu	37	10	75552298	75552298	+	Silent	SNP	T	T	C	rs200674189	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	141.0	63.0	144.0	0.0	0.446809	0	T|0.997;C|0.003	0.003	strong	.	.	.	.	NM_001242488	exon10	c.T2001C	p.Y667Y	TACTTATGAAGAA	.	PASS	Atlas-SNP
DNAJC9	23234	hgsc.bcm.edu	37	10	75006932	75006932	+	Missense_Mutation	SNP	G	G	T	rs201308148	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	61.0	27.0	42.0	0.0	0.442623	0	.	.	weak	.	DNAJC9	19	.	NM_015190	exon1	c.C16A	p.L6I	CGCAAAGGTCCAG	.	PASS	Atlas-SNP
LRPAP1	4043	hgsc.bcm.edu	37	4	3520701	3520701	+	Silent	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	84.0	43.0	97.0	0.0	0.511905	0	.	.	none	.	LRPAP1	29	.	NM_002337	exon4	c.A489G	p.K163K	GGAGAATTTCCCA	.	PASS	Atlas-SNP
NID2	22795	hgsc.bcm.edu	37	14	52508842	52508842	+	Missense_Mutation	SNP	C	C	A	rs61747585	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	77.0	35.0	85.0	1.0	0.454545	0.0117647	C|0.953;A|0.047	0.047	strong	NID2,NS,carcinoma,-2,1	NID2	201	1	NM_007361	exon7	c.G1806T	p.E602D	GCCGTTCTCAGAG	.	scavenged	Atlas-SNP
NEK11	79858	hgsc.bcm.edu	37	3	130947466	130947466	+	Silent	SNP	G	G	A	rs138864243	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	42.0	21.0	51.0	0.0	0.5	0	G|0.998;A|0.002	0.002	strong	.	NEK11	76	.	NM_024800	exon15	c.G1494A	p.A498A	AATAGCGTTAGAA	.	PASS	Atlas-SNP
LAMB2	3913	hgsc.bcm.edu	37	3	49166460	49166460	+	Missense_Mutation	SNP	C	C	T	rs61729152	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	34.0	14.0	33.0	1.0	0.411765	0.030303	C|0.991;T|0.009	0.009	strong	LAMB2,NS,carcinoma,-1,1	LAMB2	156	1	NM_002292	exon13	c.G1724A	p.R575Q	TGCCCTCGGGTGT	.	scavenged	Atlas-SNP
WFIKKN2	124857	hgsc.bcm.edu	37	17	48918275	48918275	+	Silent	SNP	C	C	T	rs139049586	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	116.0	56.0	139.0	1.0	0.482759	0.00719424	C|0.997;T|0.003	0.003	strong	WFIKKN2,colon,carcinoma,0,1	WFIKKN2	69	1	NM_175575	exon2	c.C1626T	p.P542P	GCGCCCCGATAGC	.	scavenged	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4874729	4874729	+	Missense_Mutation	SNP	C	C	G	rs144507770	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	41.0	21.0	27.0	0.0	0.512195	0	C|0.987;G|0.013	0.013	strong	.	RADIL	110	.	NM_018059	exon4	c.G925C	p.G309R	CCTGGCCGCTGTC	.	PASS	Atlas-SNP
ZDHHC1	29800	hgsc.bcm.edu	37	16	67434917	67434917	+	Missense_Mutation	SNP	C	C	T	rs34229857	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	164.0	89.0	120.0	0.0	0.542683	0	C|0.983;T|0.017	0.017	strong	.	ZDHHC1	28	.	NM_013304	exon4	c.G371A	p.R124Q	TGGCTTCGGTTGA	.	PASS	Atlas-SNP
LETM2	137994	hgsc.bcm.edu	37	8	38250202	38250202	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	71.0	37.0	79.0	0.0	0.521127	0	.	.	none	.	LETM2	57	.	NM_001199659	exon3	c.A49G	p.N17D	CCAGGCAATACAG	.	PASS	Atlas-SNP
LGALS14	56891	hgsc.bcm.edu	37	19	40195183	40195183	+	Silent	SNP	C	C	T	rs117106744	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	214.0	103.0	199.0	0.0	0.481308	0	C|0.996;T|0.004	0.004	strong	.	LGALS14	38	.	NM_020129	exon1	c.C15T	p.P5P	ACTACCCGTGAGT	.	PASS	Atlas-SNP
RTBDN	83546	hgsc.bcm.edu	37	19	12936693	12936693	+	Missense_Mutation	SNP	C	C	T	rs148952767	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	127.0	59.0	84.0	0.0	0.464567	0	C|0.993;T|0.007	0.007	strong	.	RTBDN	26	.	NM_031429	exon7	c.G613A	p.V205M	CAGCCACCGGTAG	.	PASS	Atlas-SNP
MORC4	79710	hgsc.bcm.edu	37	X	106221323	106221323	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	71.0	61.0	67.0	0.0	0.859155	0	.	.	none	.	MORC4	155	.	NM_001085354	exon8	c.G1043T	p.G348V	TGGCACCCCACCT	.	PASS	Atlas-SNP
KCNQ1	3784	hgsc.bcm.edu	37	11	2869086	2869086	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	66.0	36.0	31.0	0.0	0.545455	0	.	.	none	.	KCNQ1	60	.	NM_000218	exon16	c.C1884T	p.G628G	CAGCGGCGGCCCC	.	PASS	Atlas-SNP
IL17RC	84818	hgsc.bcm.edu	37	3	9965582	9965582	+	Missense_Mutation	SNP	G	G	A	rs75692599	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	125.0	54.0	117.0	0.0	0.432	0	G|0.988;A|0.012	0.012	strong	.	IL17RC	55	.	NM_153461	exon8	c.G853A	p.V285M	CTCAACGTGTCAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506752	195506752	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	70.0	23.0	25.0	0.0	0.328571	0	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.G11699A	p.R3900H	GCGTGACGTGTGG	.	PASS	Atlas-SNP
FSD1L	83856	hgsc.bcm.edu	37	9	108230553	108230553	+	Missense_Mutation	SNP	G	G	T	rs41316532	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	156.0	77.0	109.0	0.0	0.49359	0	G|0.992;T|0.008	0.008	strong	.	FSD1L	31	.	NM_001145313	exon4	c.G287T	p.S96I	AAGAAAGTATGAT	.	PASS	Atlas-SNP
HLA-F	3134	hgsc.bcm.edu	37	6	29693019	29693019	+	Silent	SNP	G	G	A	rs201844059	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	156.0	60.0	191.0	0.0	0.384615	0	G|0.999;A|0.001	0.001	weak	.	HLA-F	41	.	NM_001098479	exon4	c.G822A	p.E274E	TGGAGAGGAACAG	.	PASS	Atlas-SNP
CEBPZ	10153	hgsc.bcm.edu	37	2	37441091	37441091	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	76.0	32.0	121.0	0.0	0.421053	0	.	.	none	.	CEBPZ	68	.	NM_005760	exon10	c.G2461T	p.V821F	CAGCAACTTTTTT	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139399213	139399213	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	20.0	10.0	25.0	0.0	0.5	0	.	.	none	NOTCH1,NS,lymphoid_neoplasm,+2,1	NOTCH1	1980	1	NM_017617	exon26	c.C4930T	p.L1644L	CCAGCAGGGCGTC	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	6978233	6978233	+	Missense_Mutation	SNP	C	C	T	rs145781920	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	174.0	85.0	179.0	0.0	0.488506	0	C|0.999;T|0.001	0.001	strong	.	LAMA1	458	.	NM_005559	exon43	c.G6152A	p.R2051Q	GTCTCTCGTAATG	.	PASS	Atlas-SNP
CCT8L2	150160	hgsc.bcm.edu	37	22	17072411	17072411	+	Missense_Mutation	SNP	G	G	T	rs41277596	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	95.0	52.0	95.0	0.0	0.547368	0	G|0.994;T|0.006	0.006	strong	.	CCT8L2	150	.	NM_014406	exon1	c.C1030A	p.P344T	TGCCTGGCCTCTG	.	PASS	Atlas-SNP
DCK	1633	hgsc.bcm.edu	37	4	71888240	71888240	+	Missense_Mutation	SNP	C	C	T	rs67437265	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	29.0	14.0	44.0	0.0	0.482759	0	C|0.975;T|0.025	0.025	strong	.	DCK	23	.	NM_000788	exon3	c.C364T	p.P122S	GAGAAACCTGTAT	.	PASS	Atlas-SNP
ZNF33A	7581	hgsc.bcm.edu	37	10	38345455	38345455	+	Silent	SNP	A	A	G	rs12242343	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	71.0	40.0	84.0	0.0	0.56338	0	A|0.968;G|0.032	0.032	strong	.	ZNF33A	103	.	NM_006954	exon5	c.A2403G	p.G801G	CTGTGGAGAAAGC	.	PASS	Atlas-SNP
CDC37L1	55664	hgsc.bcm.edu	37	9	4679847	4679847	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	105.0	38.0	78.0	0.0	0.361905	0	.	.	none	.	CDC37L1	19	.	NM_017913	exon1	c.A80C	p.D27A	ACTTCGACGTGTT	.	PASS	Atlas-SNP
SORCS3	22986	hgsc.bcm.edu	37	10	106974224	106974224	+	Missense_Mutation	SNP	C	C	A	rs200098588	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	123.0	62.0	112.0	0.0	0.504065	0	C|1.000;A|0.000	0.000	strong	.	SORCS3	282	.	NM_014978	exon18	c.C2400A	p.N800K	CAACAACTGCACA	.	PASS	Atlas-SNP
CUL5	8065	hgsc.bcm.edu	37	11	107965639	107965639	+	Silent	SNP	G	G	A	rs146843253	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	92.0	53.0	72.0	0.0	0.576087	0	G|1.000;A|0.000	0.000	strong	.	CUL5	71	.	NM_003478	exon15	c.G1668A	p.P556P	GATACCGGAAGTA	.	PASS	Atlas-SNP
C5orf48	389320	hgsc.bcm.edu	37	5	125968301	125968301	+	Silent	SNP	C	C	T	rs6887295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	78.0	43.0	89.0	0.0	0.551282	0	C|0.870;T|0.130	0.130	strong	.	C5orf48	21	.	NM_207408	exon2	c.C150T	p.V50V	TTATGTCATGCCT	.	PASS	Atlas-SNP
C1QTNF8	390664	hgsc.bcm.edu	37	16	1143605	1143605	+	Missense_Mutation	SNP	C	C	A	rs116934818	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	36.0	15.0	13.0	0.0	0.416667	0	C|0.987;A|0.013	0.013	strong	.	C1QTNF8	15	.	NM_207419	exon4	c.G655T	p.V219L	TGCGCACCCAGAC	.	PASS	Atlas-SNP
UBXN2B	137886	hgsc.bcm.edu	37	8	59358556	59358556	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	62.0	30.0	78.0	0.0	0.483871	0	.	.	none	.	UBXN2B	36	.	NM_001077619	exon7	c.G762A	p.V254V	TTCAGTGCCAACA	.	PASS	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76567708	76567708	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	143.0	73.0	111.0	0.0	0.51049	0	.	.	none	.	DNAH17	347	.	NM_173628	exon4	c.C696T	p.D232D	CCGAGTGTCCCAG	.	PASS	Atlas-SNP
KIAA1671	85379	hgsc.bcm.edu	37	22	25577667	25577667	+	Silent	SNP	G	G	A	rs199924926		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	93.0	49.0	98.0	0.0	0.526882	0	.	.	weak	.	KIAA1671	28	.	NM_001145206	exon8	c.G5076A	p.E1692E	AACAGAGGAGAAA	.	PASS	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	37	20	36842086	36842086	+	Silent	SNP	G	G	A	rs112401596	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	82.0	39.0	73.0	0.0	0.47561	0	G|0.986;A|0.014	0.014	strong	.	KIAA1755	145	.	NM_001029864	exon14	c.C2961T	p.T987T	CCTTGAGGTCTTG	.	PASS	Atlas-SNP
GPR156	165829	hgsc.bcm.edu	37	3	119886101	119886101	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	95.0	46.0	81.0	0.0	0.484211	0	.	.	none	.	GPR156	85	.	NM_153002	exon9	c.C2223T	p.H741H	ATAGCTGTGTTGA	.	PASS	Atlas-SNP
RRBP1	6238	hgsc.bcm.edu	37	20	17602571	17602571	+	Missense_Mutation	SNP	A	A	G	rs2229886	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	63.0	36.0	44.0	0.0	0.571429	0	A|0.964;G|0.036	0.036	strong	.	RRBP1	157	.	NM_004587	exon14	c.T1870C	p.C624R	TCAGACAGAGCTG	.	PASS	Atlas-SNP
AMBRA1	55626	hgsc.bcm.edu	37	11	46431914	46431914	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	87.0	34.0	56.0	0.0	0.390805	0	.	.	none	.	AMBRA1	201	.	NM_001267782	exon18	c.T3130G	p.L1044V	AGTTTAAGGCCCT	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46895427	46895427	+	Missense_Mutation	SNP	G	G	T	rs62000965	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	148.0	65.0	141.0	0.0	0.439189	0	G|0.976;T|0.024	0.024	strong	.	COL18A1	129	.	NM_030582	exon4	c.G1316T	p.R439L	ACGCCCGGGAGCT	.	PASS	Atlas-SNP
TTC8	123016	hgsc.bcm.edu	37	14	89319359	89319359	+	Silent	SNP	G	G	A	rs141304350	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	151.0	73.0	139.0	0.0	0.483444	0	G|1.000;A|0.000	0.000	strong	.	TTC8	42	.	NM_144596	exon8	c.G669A	p.K223K	GTACAAGGACTGG	.	PASS	Atlas-SNP
CXXC1	30827	hgsc.bcm.edu	37	18	47813157	47813157	+	Silent	SNP	C	C	A	rs375253589		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	138.0	62.0	114.0	0.0	0.449275	0	.	.	weak	.	CXXC1	50	.	NM_001101654	exon2	c.G75T	p.A25A	GATGGGCGCATTC	.	PASS	Atlas-SNP
MLC1	23209	hgsc.bcm.edu	37	22	50512732	50512732	+	Silent	SNP	G	G	A	rs138153307	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	66.0	32.0	82.0	0.0	0.484848	0	G|0.999;A|0.001	0.001	strong	.	MLC1	48	.	NM_015166	exon8	c.C627T	p.A209A	GAGGACGGCAGAG	.	PASS	Atlas-SNP
CLTCL1	8218	hgsc.bcm.edu	37	22	19263266	19263266	+	Missense_Mutation	SNP	C	C	A	rs34869740	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	128.0	58.0	124.0	0.0	0.453125	0	C|0.994;A|0.006	0.006	strong	.	CLTCL1	115	.	NM_001835	exon2	c.G130T	p.V44F	CACCAACTTTCTC	.	PASS	Atlas-SNP
SCN9A	6335	hgsc.bcm.edu	37	2	167128972	167128972	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	150.0	78.0	180.0	0.0	0.52	0	.	.	none	SCN9A,colon,carcinoma,0,1	SCN9A	296	1	NM_002977	exon17	c.C3255T	p.S1085S	CAAATCGGATTCC	.	PASS	Atlas-SNP
KRT33B	3884	hgsc.bcm.edu	37	17	39521058	39521058	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	115.0	57.0	118.0	0.0	0.495652	0	.	.	none	KRT33B,NS,carcinoma,-1,1	KRT33B	46	1	NM_002279	exon6	c.G1070C	p.R357P	AGGCTCCGGTATG	.	PASS	Atlas-SNP
PLEKHF1	79156	hgsc.bcm.edu	37	19	30165157	30165157	+	Silent	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	15.0	7.0	10.0	0.0	0.466667	0	.	.	none	.	PLEKHF1	16	.	NM_024310	exon2	c.G411T	p.T137T	GGCCACGGGCCGC	.	PASS	Atlas-SNP
PRMT10	90826	hgsc.bcm.edu	37	4	148560193	148560193	+	Missense_Mutation	SNP	C	C	T	rs11557361	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	103.0	47.0	104.0	0.0	0.456311	0	C|0.981;T|0.019	0.019	strong	.	PRMT10	68	.	NM_138364	exon11	c.G2240A	p.C747Y	GGTATACAGGGCA	.	PASS	Atlas-SNP
ETFDH	2110	hgsc.bcm.edu	37	4	159627845	159627845	+	Silent	SNP	T	T	C	rs77484245	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	91.0	38.0	91.0	0.0	0.417582	0	T|0.996;C|0.004	0.004	strong	.	ETFDH	57	.	NM_004453	exon12	c.T1533C	p.D511D	ACCCGATGGACAG	.	PASS	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17062905	17062905	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	57.0	31.0	63.0	0.0	0.54386	0	.	.	none	.	CPAMD8	192	.	NM_015692	exon20	c.C2523T	p.A841A	GGGCTCGGCGATG	.	PASS	Atlas-SNP
BANP	54971	hgsc.bcm.edu	37	16	88071611	88071611	+	Silent	SNP	C	C	T	rs149196674	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	130.0	69.0	151.0	0.0	0.530769	0	C|0.999;T|0.001	0.001	strong	.	BANP	67	.	NM_001173542	exon11	c.C1305T	p.D435D	GCAGGACGGTCAG	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	29416615	29416615	+	Silent	SNP	G	G	A	rs56132472	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	86.0	40.0	133.0	0.0	0.465116	0	G|0.903;A|0.097	0.097	strong	.	ALK	533	.	NM_004304	exon29	c.C4338T	p.T1446T	GGAGGTGGTAGGC	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124366300	124366300	+	Silent	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	92.0	43.0	101.0	0.0	0.467391	0	.	.	none	.	DNAH10	888	.	NM_207437	exon50	c.G8409T	p.G2803G	GGTCGGGGTAGGG	.	PASS	Atlas-SNP
INO80C	125476	hgsc.bcm.edu	37	18	33048617	33048617	+	Silent	SNP	G	G	A	rs34130630	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	65.0	38.0	80.0	0.0	0.584615	0	G|0.986;A|0.014	0.014	strong	.	INO80C	18	.	NM_001098817	exon7	c.C645T	p.T215T	GTAGCCGGTGACG	.	PASS	Atlas-SNP
CLCNKA	1187	hgsc.bcm.edu	37	1	16349137	16349137	+	Missense_Mutation	SNP	G	G	A	rs9442189	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	128.0	7.0	95.0	0.0	0.0546875	0	G|0.989;A|0.011	0.011	strong	.	CLCNKA	56	.	NM_004070	exon2	c.G23A	p.R8H	GGCTGCGTGAGGG	.	PASS	Atlas-SNP
AGRN	375790	hgsc.bcm.edu	37	1	978800	978800	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	80.0	4.0	43.0	0.0	0.05	0	.	.	none	.	AGRN	110	.	NM_198576	exon8	c.C1566T	p.L522L	TACCCTCGGGCGG	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1264941	1264941	+	Silent	SNP	G	G	A	rs200834421	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	607.0	179.0	537.0	0.0	0.294893	0	G|0.988;A|0.012	0.012	strong	MUC5B,NS,carcinoma,+1,2	MUC5B	473	2	NM_002458	exon31	c.G6831A	p.T2277T	CACCACGGCCACC	.	PASS	Atlas-SNP
CD2AP	23607	hgsc.bcm.edu	37	6	47563608	47563608	+	Missense_Mutation	SNP	A	A	G	rs138727736	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	29.0	16.0	24.0	0.0	0.551724	0	A|0.995;G|0.005	0.005	strong	.	CD2AP	43	.	NM_012120	exon12	c.A1120G	p.T374A	AAATCAACACTGG	.	PASS	Atlas-SNP
ACADL	33	hgsc.bcm.edu	37	2	211068100	211068100	+	Silent	SNP	A	A	G	rs148069105	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	80.0	30.0	64.0	0.0	0.375	0	A|0.999;G|0.001	0.001	strong	.	ACADL	38	.	NM_001608	exon8	c.T939C	p.Y313Y	TTTAACATAGTTC	.	PASS	Atlas-SNP
GTDC2	84892	hgsc.bcm.edu	37	3	43121743	43121743	+	Missense_Mutation	SNP	C	C	T	rs199612856	by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	185.0	92.0	184.0	0.0	0.497297	0	C|1.000;T|0.000	0.000	strong	.	.	.	.	NM_032806	exon2	c.G1181A	p.R394Q	ATGTTCCGCCAGG	.	PASS	Atlas-SNP
ESPN	83715	hgsc.bcm.edu	37	1	6500762	6500762	+	Missense_Mutation	SNP	G	G	A	rs200602012	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	16.0	11.0	7.0	0.0	0.6875	0	G|0.991;A|0.010	0.010	weak	.	ESPN	32	.	NM_031475	exon4	c.G752A	p.G251D	GCCGCGGCCACAC	.	PASS	Atlas-SNP
LGALS3BP	3959	hgsc.bcm.edu	37	17	76970803	76970803	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	117.0	46.0	126.0	0.0	0.393162	0	.	.	none	.	LGALS3BP	47	.	NM_005567	exon4	c.C343T	p.H115Y	TCTCGTGCCTGCA	.	PASS	Atlas-SNP
AMY2A	279	hgsc.bcm.edu	37	1	104166590	104166590	+	Missense_Mutation	SNP	C	C	G	rs1832269	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	492.0	93.0	468.0	0.0	0.189024	0	.	.	weak	AMY2A,colon,carcinoma,0,1	AMY2A	36	1	NM_000699	exon8	c.C1204G	p.R402G	GAACATCGATGGC	.	scavenged	Atlas-SNP
GAS2L3	283431	hgsc.bcm.edu	37	12	101017839	101017839	+	Missense_Mutation	SNP	C	C	T	rs148236676	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	102.0	44.0	102.0	0.0	0.431373	0	C|0.995;T|0.005	0.005	strong	.	GAS2L3	76	.	NM_174942	exon10	c.C1256T	p.P419L	CTTCACCAGCTTT	.	PASS	Atlas-SNP
ADAMTS18	170692	hgsc.bcm.edu	37	16	77327042	77327042	+	Silent	SNP	C	C	T	rs61754842	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	61.0	39.0	59.0	0.0	0.639344	0	C|0.995;T|0.005	0.005	strong	ADAMTS18,breast,lymphoid_neoplasm,-2,1	ADAMTS18	270	1	NM_199355	exon20	c.G3120A	p.Q1040Q	GCCCTCCTGCAGC	.	PASS	Atlas-SNP
KCTD19	146212	hgsc.bcm.edu	37	16	67327642	67327642	+	Missense_Mutation	SNP	C	C	T	rs145649592	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	70.0	30.0	96.0	0.0	0.428571	0	C|0.997;T|0.003	0.003	strong	.	KCTD19	82	.	NM_001100915	exon12	c.G2023A	p.E675K	CAGCCTCGCTTCC	.	PASS	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	37	11	57076080	57076080	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	64.0	26.0	45.0	0.0	0.40625	0	.	.	none	.	TNKS1BP1	148	.	NM_033396	exon6	c.G4105A	p.G1369R	TCACCCCGCCCAC	.	PASS	Atlas-SNP
DOC2A	8448	hgsc.bcm.edu	37	16	30017536	30017536	+	Missense_Mutation	SNP	G	G	C	rs202062683	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	90.0	50.0	72.0	0.0	0.555556	0	.	.	weak	.	DOC2A	40	.	NM_003586	exon11	c.C1174G	p.P392A	CCGCAGGGGGCAG	.	PASS	Atlas-SNP
KCNQ3	3786	hgsc.bcm.edu	37	8	133153451	133153451	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	124.0	41.0	97.0	0.0	0.330645	0	.	.	none	.	KCNQ3	164	.	NM_004519	exon10	c.G1390A	p.V464I	AGCCAACAGGCTT	.	PASS	Atlas-SNP
SEMA6D	80031	hgsc.bcm.edu	37	15	48056050	48056050	+	Missense_Mutation	SNP	G	G	A	rs151039709	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	131.0	62.0	133.0	0.0	0.473282	0	G|1.000;A|0.000	0.000	strong	.	SEMA6D	322	.	NM_153617	exon10	c.G751A	p.V251M	CAGGCTGTGTATT	.	PASS	Atlas-SNP
HEATR5B	54497	hgsc.bcm.edu	37	2	37289177	37289177	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	40.0	11.0	52.0	0.0	0.275	0	.	.	none	.	HEATR5B	185	.	NM_019024	exon11	c.C1601A	p.A534D	TCTTCAGCAATAC	.	PASS	Atlas-SNP
SLC17A1	6568	hgsc.bcm.edu	37	6	25820126	25820126	+	Missense_Mutation	SNP	C	C	A	rs149708935	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	68.0	27.0	53.0	0.0	0.397059	0	C|1.000;A|0.000	0.000	weak	.	SLC17A1	71	.	NM_005074	exon4	c.G225T	p.W75C	TGGGCTCCAATTA	.	PASS	Atlas-SNP
KIFC3	3801	hgsc.bcm.edu	37	16	57794643	57794643	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	87.0	4.0	87.0	0.0	0.045977	0	.	.	none	.	KIFC3	55	.	NM_001130100	exon16	c.G2227A	p.V743I	CCTGTACCACCAT	.	PASS	Atlas-SNP
HOXC6	3223	hgsc.bcm.edu	37	12	54422479	54422479	+	Silent	SNP	G	G	A	rs145731630	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	112.0	58.0	97.0	0.0	0.517857	0	G|0.997;A|0.003	0.003	strong	.	HOXC6	30	.	NM_004503	exon1	c.G174A	p.Q58Q	GCCACAGGAGAAT	.	PASS	Atlas-SNP
BCKDHA	593	hgsc.bcm.edu	37	19	41920030	41920030	+	Missense_Mutation	SNP	C	C	T	rs34442879	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	107.0	60.0	86.0	0.0	0.560748	0	C|0.993;T|0.007	0.007	strong	.	BCKDHA	36	.	NM_000709	exon4	c.C452T	p.T151M	ACAACACGGACCT	.	PASS	Atlas-SNP
SWSAP1	126074	hgsc.bcm.edu	37	19	11486514	11486514	+	Missense_Mutation	SNP	A	A	G	rs317926	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	60.0	26.0	49.0	0.0	0.433333	0	A|0.984;G|0.016	0.016	strong	C19orf39,NS,carcinoma,0,1	.	.	1	NM_175871	exon2	c.A512G	p.D171G	AGCCAGATGCACC	.	PASS	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	37	11	57070170	57070170	+	Silent	SNP	C	C	T	rs34905018	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	52.0	29.0	39.0	0.0	0.557692	0	C|0.987;T|0.013	0.013	strong	.	TNKS1BP1	148	.	NM_033396	exon7	c.G4446A	p.L1482L	CTCCTCCAACAGG	.	PASS	Atlas-SNP
MAGEA6	4105	hgsc.bcm.edu	37	X	151870117	151870117	+	Silent	SNP	T	T	C	rs369345489		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	92.0	91.0	119.0	0.0	0.98913	0	.	.	weak	.	MAGEA6	53	.	NM_005363	exon3	c.T807C	p.Y269Y	ATGCTATGAGTTC	.	PASS	Atlas-SNP
DUSP4	1846	hgsc.bcm.edu	37	8	29197685	29197685	+	Missense_Mutation	SNP	G	G	A	rs371579846		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	52.0	20.0	47.0	0.0	0.384615	0	.	.	weak	.	DUSP4	58	.	NM_001394	exon2	c.C509T	p.P170L	GGAACCGGGGGTG	.	PASS	Atlas-SNP
CHD3	1107	hgsc.bcm.edu	37	17	7807904	7807904	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	102.0	55.0	95.0	0.0	0.539216	0	.	.	none	.	CHD3	169	.	NM_001005271	exon25	c.G4216A	p.V1406I	AAGCAAGTTAACT	.	PASS	Atlas-SNP
POFUT2	23275	hgsc.bcm.edu	37	21	46707778	46707778	+	Silent	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	20.0	12.0	11.0	0.0	0.6	0	.	.	none	.	POFUT2	77	.	NM_015227	exon1	c.A9G	p.T3T	GCTGAGTGTCGCC	.	PASS	Atlas-SNP
NUMA1	4926	hgsc.bcm.edu	37	11	71725281	71725281	+	Silent	SNP	G	G	A	rs200298289	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	209.0	104.0	167.0	0.0	0.497608	0	A|0.001;G|0.999	0.001	weak	.	NUMA1	142	.	NM_006185	exon15	c.C3268T	p.L1090L	CCTTCAGTTGCTT	.	PASS	Atlas-SNP
P2RX3	5024	hgsc.bcm.edu	37	11	57114109	57114109	+	Missense_Mutation	SNP	G	G	A	rs34572680	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	83.0	39.0	92.0	0.0	0.46988	0	G|0.971;A|0.029	0.029	strong	.	P2RX3	55	.	NM_002559	exon2	c.G211A	p.A71T	CTCTACGCCAACA	.	PASS	Atlas-SNP
ELF3	1999	hgsc.bcm.edu	37	1	201981774	201981774	+	Missense_Mutation	SNP	G	G	A	rs55729978	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	96.0	40.0	71.0	0.0	0.416667	0	G|0.938;A|0.062	0.062	strong	ELF3_ENST00000359651,NS,carcinoma,0,2	ELF3	92	2	NM_001114309	exon5	c.G485A	p.G162D	ACCAGGGCAGCCC	.	PASS	Atlas-SNP
EVC	2121	hgsc.bcm.edu	37	4	5733236	5733236	+	Missense_Mutation	SNP	C	C	G	rs146729456	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	166.0	76.0	181.0	0.0	0.457831	0	C|0.995;G|0.005	0.005	strong	.	EVC	90	.	NM_153717	exon4	c.C469G	p.P157A	GCCTCTCCTTCCA	.	PASS	Atlas-SNP
ZNF700	90592	hgsc.bcm.edu	37	19	12060627	12060627	+	Silent	SNP	A	A	G	rs78201704	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	39.0	21.0	34.0	0.0	0.538462	0	A|0.979;G|0.021	0.021	strong	ZNF700,NS,carcinoma,0,1	ZNF700	81	1	NM_001271848	exon4	c.A1797G	p.Q599Q	TAAGCAATGTGGG	.	PASS	Atlas-SNP
SEC16A	9919	hgsc.bcm.edu	37	9	139371700	139371700	+	Missense_Mutation	SNP	G	G	A	rs371074782		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	118.0	10.0	140.0	0.0	0.0847458	0	.	.	weak	.	SEC16A	249	.	NM_014866	exon3	c.C368T	p.P123L	GAAAACGGACTGG	.	PASS	Atlas-SNP
TUBA8	51807	hgsc.bcm.edu	37	22	18613739	18613739	+	Missense_Mutation	SNP	G	G	T	rs146821364		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	143.0	61.0	130.0	0.0	0.426573	0	G|1.000;T|0.000	0.000	weak	TUBA8,NS,carcinoma,0,1	TUBA8	36	1	NM_018943	exon5	c.G1186T	p.D396Y	AAGTTCGACCTCA	.	PASS	Atlas-SNP
LEPRE1	64175	hgsc.bcm.edu	37	1	43228049	43228049	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	117.0	51.0	102.0	0.0	0.435897	0	.	.	none	.	LEPRE1	130	.	NM_001146289	exon2	c.C563T	p.T188I	GACATGGTTTGGT	.	PASS	Atlas-SNP
PLD2	5338	hgsc.bcm.edu	37	17	4720522	4720522	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	187.0	79.0	129.0	0.0	0.42246	0	.	.	none	.	PLD2	138	.	NM_001243108	exon17	c.A1783T	p.T595S	CCCTTCACACTTC	.	PASS	Atlas-SNP
MNX1	3110	hgsc.bcm.edu	37	7	156802363	156802363	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	43.0	22.0	15.0	0.0	0.511628	0	.	.	none	.	MNX1	17	.	NM_005515	exon1	c.G682A	p.D228N	TGAAGTCGGGCAT	.	PASS	Atlas-SNP
COL14A1	7373	hgsc.bcm.edu	37	8	121222046	121222046	+	Missense_Mutation	SNP	G	G	A	rs61753752	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	114.0	56.0	93.0	0.0	0.491228	0	G|0.998;A|0.002	0.002	strong	COL14A1,NS,carcinoma,-1,1	COL14A1	292	1	NM_021110	exon12	c.G1373A	p.S458N	AGAACAGCATGCG	.	PASS	Atlas-SNP
SLCO1C1	53919	hgsc.bcm.edu	37	12	20854303	20854303	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	179.0	74.0	179.0	0.0	0.413408	0	.	.	none	.	SLCO1C1	216	.	NM_017435	exon3	c.G181T	p.G61C	GCAGAAGGCTATC	.	PASS	Atlas-SNP
FIP1L1	81608	hgsc.bcm.edu	37	4	54324914	54324914	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	213.0	92.0	194.0	0.0	0.431925	0	.	.	none	.	FIP1L1	60	.	NM_030917	exon17	c.C1594T	p.R532X	GAAAGACGACACA	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134671150	134671150	+	Missense_Mutation	SNP	T	T	C	rs148181302	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	125.0	55.0	131.0	0.0	0.44	0	T|0.991;C|0.009	0.009	strong	.	TTC40	100	.	NM_001200049	exon39	c.A5518G	p.M1840V	CAGCCATGGCGCC	.	PASS	Atlas-SNP
HIST4H4	121504	hgsc.bcm.edu	37	12	14923988	14923988	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	75.0	38.0	69.0	0.0	0.506667	0	.	.	none	.	HIST4H4	13	.	NM_175054	exon1	c.C31A	p.L11M	TACCCAGCCCCTT	.	PASS	Atlas-SNP
C21orf58	54058	hgsc.bcm.edu	37	21	47734777	47734777	+	Silent	SNP	G	G	A	rs56036022	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	91.0	40.0	74.0	0.0	0.43956	0	G|0.975;A|0.025	0.025	strong	.	C21orf58	25	.	NM_058180	exon5	c.C462T	p.D154D	GAGCTCGTCCAGG	.	PASS	Atlas-SNP
GRID1	2894	hgsc.bcm.edu	37	10	88126071	88126071	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	20.0	13.0	3.0	0.0	0.65	0	.	.	none	.	GRID1	204	.	NM_017551	exon1	c.G79A	p.G27S	GCTTACCGATGTG	.	PASS	Atlas-SNP
ELMO2	63916	hgsc.bcm.edu	37	20	45003211	45003211	+	Silent	SNP	C	C	T	rs8124302	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	120.0	60.0	106.0	0.0	0.5	0	C|0.997;T|0.003	0.003	strong	.	ELMO2	51	.	NM_182764	exon13	c.G1134A	p.L378L	CAAGTACAGCATG	.	PASS	Atlas-SNP
VKORC1	79001	hgsc.bcm.edu	37	16	31106015	31106015	+	Silent	SNP	C	C	T	rs55894764	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	47.0	27.0	18.0	0.0	0.574468	0	C|0.990;T|0.010	0.010	strong	.	VKORC1	9	.	NM_024006	exon1	c.G36A	p.R12R	AGCGAGCCGCACC	.	PASS	Atlas-SNP
ZNF713	349075	hgsc.bcm.edu	37	7	56007498	56007498	+	Silent	SNP	A	A	G	rs112798657	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	72.0	41.0	63.0	0.0	0.569444	0	A|0.998;G|0.002	0.002	strong	.	ZNF713	47	.	NM_182633	exon4	c.A1092G	p.K364K	TGGCAAAGCCTTC	.	PASS	Atlas-SNP
CCDC85C	317762	hgsc.bcm.edu	37	14	99988570	99988570	+	Missense_Mutation	SNP	C	C	G	rs75827961	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	27.0	14.0	22.0	0.0	0.518519	0	C|0.930;G|0.070	0.070	strong	.	CCDC85C	3	.	NM_001144995	exon3	c.G875C	p.G292A	CCGGAGCCTGCCT	.	PASS	Atlas-SNP
ADAMTS5	11096	hgsc.bcm.edu	37	21	28315841	28315841	+	Silent	SNP	G	G	A	rs61088614	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	114.0	55.0	100.0	0.0	0.482456	0	G|0.957;A|0.043	0.043	strong	.	ADAMTS5	184	.	NM_007038	exon3	c.C1263T	p.D421D	GGAATCGTCATGG	.	PASS	Atlas-SNP
IL17RC	84818	hgsc.bcm.edu	37	3	9962634	9962634	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	332.0	176.0	317.0	0.0	0.53012	0	.	.	none	.	IL17RC	55	.	NM_153461	exon7	c.C816T	p.N272N	CTGGAACAGCATC	.	PASS	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	37	11	57070089	57070089	+	Silent	SNP	C	C	T	rs34498883	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	59.0	24.0	57.0	0.0	0.40678	0	C|0.969;T|0.031	0.031	strong	.	TNKS1BP1	148	.	NM_033396	exon7	c.G4527A	p.P1509P	AGGCTGCGGCCTC	.	PASS	Atlas-SNP
GAREML	150946	hgsc.bcm.edu	37	2	26407120	26407120	+	Missense_Mutation	SNP	A	A	T	rs116239749	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	142.0	77.0	135.0	0.0	0.542253	0	A|0.997;T|0.003	0.003	strong	.	.	.	.	NM_001168241	exon4	c.A403T	p.S135C	GAGTTCAGCGAGG	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144922252	144922252	+	Missense_Mutation	SNP	C	C	G	rs147451175	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	144.0	26.0	132.0	0.0	0.180556	0	C|0.996;G|0.004	0.004	strong	.	PDE4DIP	817	.	NM_001002811	exon4	c.G1405C	p.G469R	TTTGACCTTCAAT	.	PASS	Atlas-SNP
FAM208B	54906	hgsc.bcm.edu	37	10	5790738	5790738	+	Missense_Mutation	SNP	G	G	A	rs183849963	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	106.0	41.0	91.0	0.0	0.386792	0	G|0.999;A|0.001	0.001	strong	.	.	.	.	NM_017782	exon15	c.G5354A	p.C1785Y	CTGTTTGTGGAAT	.	PASS	Atlas-SNP
DENND6B	414918	hgsc.bcm.edu	37	22	50755782	50755782	+	Silent	SNP	G	G	A	rs145811594	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	82.0	41.0	87.0	1.0	0.5	0.0114943	G|0.992;A|0.008	0.008	strong	FAM116B,colon,carcinoma,0,1	.	.	1	NM_001001794	exon5	c.C393T	p.F131F	GTAGCCGAAGTAG	.	scavenged	Atlas-SNP
CCDC28B	79140	hgsc.bcm.edu	37	1	32669645	32669645	+	Silent	SNP	C	C	T	rs41263993	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	49.0	5.0	56.0	0.0	0.102041	0	C|0.987;T|0.013	0.013	strong	.	CCDC28B	21	.	NM_024296	exon3	c.C330T	p.F110F	GGCCTTCGGTGAG	.	PASS	Atlas-SNP
COL4A4	1286	hgsc.bcm.edu	37	2	227920747	227920747	+	Missense_Mutation	SNP	C	C	T	rs150979437	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	108.0	57.0	95.0	0.0	0.527778	0	C|0.930;T|0.070	0.070	strong	.	COL4A4	215	.	NM_000092	exon30	c.G2630A	p.R877Q	CCAGGCCGTCCTG	.	PASS	Atlas-SNP
ANKHD1	54882	hgsc.bcm.edu	37	5	139838786	139838786	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	150.0	70.0	188.0	0.0	0.466667	0	.	.	none	ANKHD1-EIF4EBP3,rectum,carcinoma,+2,2	ANKHD1	233	2	NM_024668	exon9	c.A1518C	p.E506D	TCAAGAAACTGCT	.	PASS	Atlas-SNP
BPIFB6	128859	hgsc.bcm.edu	37	20	31619515	31619515	+	Missense_Mutation	SNP	G	G	A	rs41293138	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	165.0	50.0	138.0	0.0	0.30303	0	G|0.995;A|0.005	0.005	strong	.	.	.	.	NM_174897	exon1	c.G62A	p.G21E	ACCCTGGGGCACT	.	PASS	Atlas-SNP
GBGT1	26301	hgsc.bcm.edu	37	9	136029138	136029138	+	Silent	SNP	G	G	A	rs35902535	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	100.0	52.0	102.0	0.0	0.52	0	G|0.944;A|0.056	0.056	strong	.	GBGT1	25	.	NM_021996	exon7	c.C870T	p.G290G	CATGATGCCATTG	.	PASS	Atlas-SNP
ZNF232	7775	hgsc.bcm.edu	37	17	5012935	5012935	+	Missense_Mutation	SNP	A	A	C	rs200108859	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	184.0	86.0	186.0	0.0	0.467391	0	.	.	weak	.	ZNF232	42	.	NM_014519	exon3	c.T252G	p.H84Q	GCGGAGATGCCTG	.	PASS	Atlas-SNP
SLIRP	81892	hgsc.bcm.edu	37	14	78182188	78182188	+	Missense_Mutation	SNP	T	T	A	rs199752740	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	222.0	102.0	238.0	0.0	0.459459	0	T|0.999;A|0.001	0.001	weak	.	SLIRP	6	.	NM_001267864	exon3	c.T230A	p.L77Q	ATGCACTACAACA	.	PASS	Atlas-SNP
ZNF25	219749	hgsc.bcm.edu	37	10	38241220	38241220	+	Silent	SNP	T	T	C	rs146555827	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	92.0	51.0	78.0	0.0	0.554348	0	T|0.999;C|0.001	0.001	strong	.	ZNF25	66	.	NM_145011	exon6	c.A1206G	p.E402E	CCCACATTCCTTG	.	PASS	Atlas-SNP
PODXL2	50512	hgsc.bcm.edu	37	3	127379635	127379635	+	Missense_Mutation	SNP	C	C	T	rs34691761	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	123.0	49.0	127.0	0.0	0.398374	0	C|0.995;T|0.005	0.005	strong	.	PODXL2	53	.	NM_015720	exon3	c.C764T	p.P255L	TGACTCCGGGGGA	.	PASS	Atlas-SNP
C2orf71	388939	hgsc.bcm.edu	37	2	29295476	29295476	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	103.0	52.0	115.0	0.0	0.504854	0	.	.	none	.	C2orf71	146	.	NM_001029883	exon1	c.G1652A	p.R551K	TTGATCCTTTCGC	.	PASS	Atlas-SNP
CILP2	148113	hgsc.bcm.edu	37	19	19653231	19653231	+	Missense_Mutation	SNP	T	T	A	rs186322474	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	62.0	33.0	56.0	0.0	0.532258	0	T|0.999;A|0.001	0.001	weak	.	CILP2	84	.	NM_153221	exon5	c.T640A	p.S214T	CTGGGCTCGGTGG	.	PASS	Atlas-SNP
OTOGL	283310	hgsc.bcm.edu	37	12	80764360	80764360	+	Missense_Mutation	SNP	C	C	T	rs146572555	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	47.0	29.0	67.0	0.0	0.617021	0	C|0.997;T|0.003	0.003	strong	.	OTOGL	235	.	NM_173591	exon55	c.C6599T	p.T2200I	GGAGTACCTGGCA	.	PASS	Atlas-SNP
SIGLEC7	27036	hgsc.bcm.edu	37	19	51650520	51650520	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	154.0	79.0	134.0	0.0	0.512987	0	.	.	none	.	SIGLEC7	74	.	NM_014385	exon6	c.C1167T	p.D389D	AGCGGACGTGGGA	.	PASS	Atlas-SNP
TNFRSF14	8764	hgsc.bcm.edu	37	1	2493168	2493168	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	72.0	47.0	67.0	0.0	0.652778	0	.	.	none	.	TNFRSF14	89	.	NM_003820	exon6	c.G608A	p.W203X	GGGTATGGTGGTT	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4841614	4841614	+	Missense_Mutation	SNP	C	C	T	rs117943885	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	78.0	33.0	66.0	0.0	0.423077	0	C|0.984;T|0.016	0.016	strong	.	RADIL	110	.	NM_018059	exon12	c.G2512A	p.V838M	GGACCACGTGGTG	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	37	8	144944225	144944225	+	Missense_Mutation	SNP	C	C	T	rs118079568	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	167.0	90.0	154.0	0.0	0.538922	0	C|0.990;T|0.010	0.010	strong	.	EPPK1	199	.	NM_031308	exon1	c.G3197A	p.R1066H	TAGCCACGCTGAA	.	PASS	Atlas-SNP
MYRIP	25924	hgsc.bcm.edu	37	3	40231810	40231810	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	186.0	86.0	146.0	0.0	0.462366	0	.	.	none	.	MYRIP	98	.	NM_015460	exon10	c.C1521T	p.T507T	GGAGACCTCGGAC	.	PASS	Atlas-SNP
ABCC12	94160	hgsc.bcm.edu	37	16	48139232	48139232	+	Nonsense_Mutation	SNP	G	G	A	rs151150316	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	39.0	25.0	42.0	0.0	0.641026	0	G|0.998;A|0.002	0.002	strong	.	ABCC12	190	.	NM_033226	exon19	c.C2491T	p.Q831X	TGCCCTGGGGCCC	.	PASS	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	37	13	39261784	39261784	+	Silent	SNP	C	C	A	rs8002488	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	66.0	38.0	36.0	0.0	0.575758	0	C|0.944;A|0.056	0.056	strong	.	FREM2	385	.	NM_207361	exon1	c.C303A	p.P101P	GCAGCCCGGGGAC	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139397707	139397707	+	Silent	SNP	G	G	A	rs10521	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	84.0	30.0	73.0	0.0	0.357143	0	G|0.466;A|0.534	0.534	strong	NOTCH1_ENST00000277541,colon,carcinoma,0,19	NOTCH1	1980	19	NM_017617	exon27	c.C5094T	p.D1698D	GGCCACGTCGGTG	.	PASS	Atlas-SNP
CPB1	1360	hgsc.bcm.edu	37	3	148575250	148575250	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	126.0	56.0	130.0	0.0	0.444444	0	.	.	none	.	CPB1	74	.	NM_001871	exon10	c.C988T	p.L330L	AATGCCCTGGCTA	.	PASS	Atlas-SNP
PLA2G5	5322	hgsc.bcm.edu	37	1	20417066	20417066	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	174.0	65.0	134.0	0.0	0.373563	0	.	.	none	.	PLA2G5	21	.	NM_000929	exon5	c.G298A	p.G100R	GAGCCCGGGCCCT	.	PASS	Atlas-SNP
NAT6	24142	hgsc.bcm.edu	37	3	50334568	50334568	+	Silent	SNP	G	G	A	rs199554290	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	113.0	66.0	91.0	0.0	0.584071	0	G|0.997;A|0.003	0.003	weak	.	NAT6	14	.	NM_012191	exon2	c.C393T	p.S131S	GTGGGGGCTTAGC	.	PASS	Atlas-SNP
TFAP2D	83741	hgsc.bcm.edu	37	6	50682935	50682935	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	206.0	10.0	196.0	0.0	0.0485437	0	.	.	none	.	TFAP2D	144	.	NM_172238	exon2	c.C146G	p.S49C	CTTACTCCACCAC	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228437757	228437757	+	Silent	SNP	C	C	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	258.0	95.0	290.0	1.0	0.368217	0.00344828	.	.	none	.	OBSCN	2142	.	NM_001271223	exon15	c.C4401A	p.A1467A	GGTGGCCCAGGCC	.	PASS	Atlas-SNP
KCNJ16	3773	hgsc.bcm.edu	37	17	68128417	68128417	+	Silent	SNP	C	C	T	rs34408089	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	137.0	69.0	149.0	0.0	0.50365	0	C|0.976;T|0.024	0.024	strong	.	KCNJ16	72	.	NM_001270422	exon6	c.C189T	p.T63T	CTTCACCACTCTT	.	PASS	Atlas-SNP
MYO7A	4647	hgsc.bcm.edu	37	11	76924066	76924066	+	Missense_Mutation	SNP	G	G	A	rs1132036	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	67.0	23.0	86.0	1.0	0.343284	0.0116279	G|0.966;A|0.034	0.034	strong	MYO7A,rectum,carcinoma,0,1	MYO7A	164	1	NM_000260	exon47	c.G6424A	p.D2142N	CTCATCGATCCCA	.	scavenged	Atlas-SNP
F11	2160	hgsc.bcm.edu	37	4	187195373	187195373	+	Silent	SNP	C	C	T	rs5973	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	198.0	94.0	169.0	0.0	0.474747	0	C|0.938;T|0.062	0.062	strong	.	F11	65	.	NM_000128	exon5	c.C429T	p.D143D	GGATGACGTCCAC	.	PASS	Atlas-SNP
MICAL2	9645	hgsc.bcm.edu	37	11	12248590	12248590	+	Missense_Mutation	SNP	A	A	G	rs35228638	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	124.0	51.0	130.0	0.0	0.41129	0	A|0.992;G|0.008	0.008	strong	.	MICAL2	114	.	NM_014632	exon15	c.A1907G	p.Y636C	AAAACTATGGAGA	.	PASS	Atlas-SNP
ACOX2	8309	hgsc.bcm.edu	37	3	58517520	58517520	+	Silent	SNP	A	A	G	rs57216393	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	53.0	28.0	57.0	0.0	0.528302	0	A|0.923;G|0.077	0.077	strong	.	ACOX2	53	.	NM_003500	exon6	c.T603C	p.H201H	CAGGGCATGGGTG	.	PASS	Atlas-SNP
OR5AK2	390181	hgsc.bcm.edu	37	11	56757056	56757056	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	313.0	118.0	290.0	0.0	0.376997	0	.	.	none	.	OR5AK2	45	.	NM_001005323	exon1	c.C668T	p.A223V	TCATGGCCACCAT	.	PASS	Atlas-SNP
BAG4	9530	hgsc.bcm.edu	37	8	38034402	38034402	+	Silent	SNP	G	G	A	rs61731143	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	72.0	36.0	39.0	0.0	0.5	0	G|0.995;A|0.005	0.005	strong	.	BAG4	32	.	NM_001204878	exon1	c.G15A	p.R5R	CCTGAGGCGCTCG	.	PASS	Atlas-SNP
FAM53B	9679	hgsc.bcm.edu	37	10	126370638	126370638	+	Silent	SNP	G	G	A	rs148943049	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	61.0	29.0	90.0	0.0	0.47541	0	G|0.999;A|0.001	0.001	strong	.	FAM53B	22	.	NM_014661	exon4	c.C444T	p.S148S	GCCCCCGCTGTAG	.	PASS	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	37	11	57069568	57069568	+	Missense_Mutation	SNP	T	T	C	rs35272228	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	58.0	23.0	55.0	0.0	0.396552	0	T|0.969;C|0.031	0.031	strong	.	TNKS1BP1	148	.	NM_033396	exon8	c.A4814G	p.H1605R	AACAGGTGTGCAT	.	PASS	Atlas-SNP
ZNF326	284695	hgsc.bcm.edu	37	1	90484253	90484253	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	148.0	66.0	131.0	0.0	0.445946	0	.	.	none	.	ZNF326	60	.	NM_182976	exon9	c.G1084A	p.V362M	TGTATGGTGAATA	.	PASS	Atlas-SNP
AGPAT3	56894	hgsc.bcm.edu	37	21	45389034	45389034	+	Silent	SNP	C	C	T	rs61737069	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	167.0	93.0	145.0	0.0	0.556886	0	C|0.986;T|0.014	0.014	strong	.	AGPAT3	37	.	NM_001037553	exon4	c.C384T	p.Y128Y	GCTCTACGTGCCC	.	PASS	Atlas-SNP
XYLT1	64131	hgsc.bcm.edu	37	16	17353090	17353090	+	Missense_Mutation	SNP	G	G	C	rs113276942	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	144.0	78.0	169.0	0.0	0.541667	0	G|0.950;C|0.050	0.050	strong	XYLT1,NS,carcinoma,+1,1	XYLT1	147	1	NM_022166	exon3	c.C668G	p.A223G	GCTGCGGCTCTGT	.	PASS	Atlas-SNP
TNFRSF10C	8794	hgsc.bcm.edu	37	8	22974405	22974405	+	Missense_Mutation	SNP	C	C	T	rs61736406	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	152.0	35.0	126.0	0.0	0.230263	0	A|0.000;C|0.990;T|0.009	0.009	strong	TNFRSF10C,NS,carcinoma,0,5	TNFRSF10C	30	5	NM_003841	exon5	c.C641T	p.T214I	CAATGACCACCAG	.	PASS	Atlas-SNP
PDLIM2	64236	hgsc.bcm.edu	37	8	22442908	22442908	+	Missense_Mutation	SNP	G	G	A	rs11989168	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	98.0	46.0	77.0	0.0	0.469388	0	G|0.993;A|0.007	0.007	strong	PDLIM2_ENST00000308354,colon,carcinoma,+1,2	PDLIM2	42	2	NM_021630	exon6	c.G1286A	p.R429Q	GAAGCCGACAGGT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9070873	9070873	+	Missense_Mutation	SNP	A	A	G	rs79202331	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	248.0	115.0	236.0	1.0	0.46371	0.00423729	A|0.993;G|0.007	0.007	strong	.	MUC16	4315	.	NM_024690	exon3	c.T16573C	p.S5525P	TAGAGGAGATTTC	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6592951	6592951	+	Missense_Mutation	SNP	T	T	C	rs11604362	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	127.0	75.0	94.0	0.0	0.590551	0	T|0.994;C|0.006	0.006	strong	.	DNHD1	198	.	NM_144666	exon43	c.T13997C	p.I4666T	ACCCAATAGCTGG	.	PASS	Atlas-SNP
MYO1D	4642	hgsc.bcm.edu	37	17	30980871	30980871	+	Missense_Mutation	SNP	T	T	A	rs138039699	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	45.0	22.0	58.0	0.0	0.488889	0	T|0.998;A|0.002	0.002	strong	.	MYO1D	93	.	NM_015194	exon19	c.A2585T	p.H862L	CGGACGTGACAGG	.	PASS	Atlas-SNP
PLAC8L1	153770	hgsc.bcm.edu	37	5	145464130	145464130	+	Silent	SNP	T	T	C	rs1859897	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	70.0	42.0	64.0	0.0	0.6	0	T|0.967;C|0.033	0.033	strong	.	PLAC8L1	17	.	NM_001029869	exon4	c.A399G	p.T133T	ACACAGTGTGCCC	.	PASS	Atlas-SNP
UTP20	27340	hgsc.bcm.edu	37	12	101761753	101761753	+	Missense_Mutation	SNP	A	A	G	rs117476305	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	125.0	58.0	136.0	0.0	0.464	0	A|0.991;G|0.009	0.009	strong	.	UTP20	222	.	NM_014503	exon48	c.A6383G	p.K2128R	ATGTGAAGGTAAG	.	PASS	Atlas-SNP
TTI1	9675	hgsc.bcm.edu	37	20	36642101	36642101	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	102.0	47.0	106.0	0.0	0.460784	0	.	.	none	.	TTI1	104	.	NM_014657	exon3	c.G118A	p.V40M	CACTCACAGCTTG	.	PASS	Atlas-SNP
ALAS2	212	hgsc.bcm.edu	37	X	55039959	55039959	+	Silent	SNP	G	G	T	rs150055592	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	66.0	64.0	65.0	0.0	0.969697	0	G|0.997;T|0.003	0.003	strong	.	ALAS2	163	.	NM_000032	exon10	c.C1560A	p.P520P	GGGGGAGGGTGCC	.	PASS	Atlas-SNP
SUCNR1	56670	hgsc.bcm.edu	37	3	151599267	151599267	+	Silent	SNP	C	C	T	rs139804843		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	103.0	49.0	101.0	0.0	0.475728	0	C|1.000;T|0.000	0.000	weak	.	SUCNR1	31	.	NM_033050	exon3	c.C936T	p.H312H	GAGACACAACTTC	.	PASS	Atlas-SNP
DNAJB8	165721	hgsc.bcm.edu	37	3	128181964	128181964	+	Missense_Mutation	SNP	G	G	A	rs142768827		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	203.0	75.0	185.0	0.0	0.369458	0	G|1.000;A|0.000	0.000	weak	.	DNAJB8	34	.	NM_153330	exon3	c.C125T	p.A42V	TTCTCCGCCTCCT	.	PASS	Atlas-SNP
TYK2	7297	hgsc.bcm.edu	37	19	10472452	10472452	+	Silent	SNP	G	G	A	rs12720355	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	68.0	34.0	69.0	0.0	0.5	0	G|0.992;A|0.008	0.008	strong	.	TYK2	126	.	NM_003331	exon13	c.C1953T	p.I651I	CAGGGCGATGTCA	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26423124	26423124	+	Missense_Mutation	SNP	G	G	C	rs6004901	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	87.0	37.0	76.0	0.0	0.425287	0	G|0.912;C|0.088	0.088	strong	.	MYO18B	322	.	NM_032608	exon43	c.G7184C	p.G2395A	ATGCGGGCTGTCC	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149479935	149479935	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	108.0	38.0	118.0	0.0	0.351852	0	.	.	none	.	.	.	.	NM_198455	exon15	c.G1901A	p.G634E	TTCCAGGAGCTGT	.	PASS	Atlas-SNP
SYP	6855	hgsc.bcm.edu	37	X	49047924	49047924	+	Silent	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	31.0	30.0	28.0	0.0	0.967742	0	.	.	none	.	SYP	71	.	NM_003179	exon6	c.T912C	p.G304G	GGGTGCACCCTGC	.	PASS	Atlas-SNP
PRMT7	54496	hgsc.bcm.edu	37	16	68390697	68390697	+	Silent	SNP	C	C	T	rs61733486	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	128.0	52.0	116.0	0.0	0.40625	0	C|0.941;T|0.059	0.059	strong	.	PRMT7	51	.	NM_019023	exon18	c.C1905T	p.P635P	AGACCCCGAGGTA	.	PASS	Atlas-SNP
ACSS3	79611	hgsc.bcm.edu	37	12	81627215	81627215	+	Missense_Mutation	SNP	G	G	T	rs145641313	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	154.0	63.0	144.0	0.0	0.409091	0	G|0.999;T|0.001	0.001	strong	.	ACSS3	118	.	NM_024560	exon13	c.G1684T	p.A562S	AATGTTGCAGGTC	.	PASS	Atlas-SNP
LSM6	11157	hgsc.bcm.edu	37	4	147110790	147110790	+	Silent	SNP	A	A	T	rs41280529	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	119.0	49.0	118.0	0.0	0.411765	0	A|0.991;T|0.009	0.009	strong	.	LSM6	5	.	NM_007080	exon4	c.A225T	p.T75T	CAGTACACAGAAG	.	PASS	Atlas-SNP
BYSL	705	hgsc.bcm.edu	37	6	41895153	41895153	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	135.0	52.0	144.0	0.0	0.385185	0	.	.	none	.	BYSL	17	.	NM_004053	exon2	c.G310A	p.E104K	GACGAGGAGTGGC	.	PASS	Atlas-SNP
ALDH1A3	220	hgsc.bcm.edu	37	15	101432798	101432798	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	127.0	70.0	136.0	0.0	0.551181	0	.	.	none	.	ALDH1A3	61	.	NM_000693	exon4	c.C429G	p.Y143X	CAGATACTTTGCA	.	PASS	Atlas-SNP
ADAM2	2515	hgsc.bcm.edu	37	8	39695677	39695677	+	Missense_Mutation	SNP	C	C	A	rs34800519	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	124.0	49.0	113.0	0.0	0.395161	0	C|0.977;A|0.023	0.023	strong	ADAM2,NS,carcinoma,+1,1	ADAM2	124	1	NM_001464	exon1	c.G28T	p.G10W	CGAGCCCGCTGAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515100	195515100	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	98.0	5.0	137.0	0.0	0.0510204	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-2,1	MUC4	1505	1	NM_018406	exon2	c.C3351T	p.H1117H	GGTGGTGTGACCT	.	scavenged	Atlas-SNP
KIF11	3832	hgsc.bcm.edu	37	10	94369247	94369247	+	Silent	SNP	C	C	T	rs145656661		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	54.0	20.0	49.0	0.0	0.37037	0	C|1.000;T|0.000	0.000	weak	.	KIF11	58	.	NM_004523	exon6	c.C679T	p.L227L	GCTACTCTGATGA	.	PASS	Atlas-SNP
GPATCH8	23131	hgsc.bcm.edu	37	17	42475670	42475670	+	Missense_Mutation	SNP	T	T	C	rs760339	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	47.0	24.0	49.0	0.0	0.510638	0	T|0.997;C|0.003	0.003	strong	.	GPATCH8	114	.	NM_001002909	exon8	c.A3775G	p.S1259G	GACTGCTGCTATC	.	PASS	Atlas-SNP
TGM6	343641	hgsc.bcm.edu	37	20	2377204	2377204	+	Silent	SNP	C	C	T	rs16984872	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	250.0	115.0	217.0	0.0	0.46	0	C|0.960;T|0.040	0.040	strong	TGM6,NS,carcinoma,0,1	TGM6	126	1	NM_198994	exon4	c.C477T	p.S159S	GCTCAGCGACAGC	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4876064	4876064	+	Silent	SNP	G	G	A	rs150209652	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	55.0	34.0	34.0	0.0	0.618182	0	G|0.987;A|0.013	0.013	strong	.	RADIL	110	.	NM_018059	exon3	c.C708T	p.P236P	GGGGCCGGGCTCC	.	PASS	Atlas-SNP
GOLGA4	2803	hgsc.bcm.edu	37	3	37368600	37368600	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	126.0	50.0	146.0	0.0	0.396825	0	.	.	none	.	GOLGA4	173	.	NM_001172713	exon15	c.A5289T	p.L1763F	TGTTTTACAAAGA	.	PASS	Atlas-SNP
PTPRJ	5795	hgsc.bcm.edu	37	11	48157625	48157625	+	Silent	SNP	C	C	T	rs148782546	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	246.0	127.0	212.0	0.0	0.51626	0	C|0.998;T|0.002	0.002	strong	PTPRJ_ENST00000418331,caecum,carcinoma,0,2	PTPRJ	225	2	NM_002843	exon9	c.C1650T	p.Y550Y	GGTCTACGTCACC	.	PASS	Atlas-SNP
KIR3DL2	3812	hgsc.bcm.edu	37	19	55367311	55367311	+	Missense_Mutation	SNP	G	G	A	rs201726108	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	69.0	31.0	78.0	0.0	0.449275	0	G|0.910;A|0.091	0.091	strong	KIR3DL2,NS,carcinoma,0,1	KIR3DL2	55	1	NM_001242867	exon5	c.G893A	p.R298H	CTTTCCGTGCCCT	.	scavenged	Atlas-SNP
MUC1	4582	hgsc.bcm.edu	37	1	155161833	155161833	+	Silent	SNP	C	C	G	rs147687610	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	41.0	19.0	38.0	0.0	0.463415	0	C|0.995;G|0.005	0.005	strong	.	MUC1	94	.	NM_001204286	exon2	c.G327C	p.S109S	TGGGACCGAGGTG	.	PASS	Atlas-SNP
PPA2	27068	hgsc.bcm.edu	37	4	106345379	106345379	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	75.0	31.0	43.0	0.0	0.413333	0	.	.	none	.	PPA2	23	.	NM_176869	exon7	c.A629G	p.N210S	GGATCATTCGCAT	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151962289	151962289	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	172.0	11.0	177.0	0.0	0.0639535	0	.	.	none	MLL3_ENST00000355193,NS,carcinoma,+2,2	MLL3	1564	2	NM_170606	exon8	c.G1018A	p.E340K	CATCTTCCTTCGC	.	scavenged	Atlas-SNP
ABCG4	64137	hgsc.bcm.edu	37	11	119025270	119025270	+	Silent	SNP	G	G	A	rs200058802	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	52.0	20.0	66.0	0.0	0.384615	0	G|0.999;A|0.001	0.001	weak	.	ABCG4	77	.	NM_022169	exon5	c.G525A	p.E175E	GCAGGAGGTGAAG	.	PASS	Atlas-SNP
DNAJC13	23317	hgsc.bcm.edu	37	3	132166302	132166302	+	Silent	SNP	T	T	G	rs116489157	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	137.0	76.0	130.0	0.0	0.554745	0	T|0.990;G|0.010	0.010	strong	.	DNAJC13	253	.	NM_015268	exon4	c.T282G	p.L94L	ACTTCTTACAGAA	.	PASS	Atlas-SNP
CDH8	1006	hgsc.bcm.edu	37	16	61935330	61935330	+	Silent	SNP	T	T	C	rs368241476		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	109.0	44.0	117.0	0.0	0.40367	0	.	.	weak	.	CDH8	273	.	NM_001796	exon3	c.A300G	p.L100L	ACCTGATAGGATA	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134691424	134691424	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	301.0	16.0	315.0	0.0	0.0531561	0	.	.	none	.	TTC40	100	.	NM_001200049	exon30	c.G4173T	p.K1391N	CTTCTCCTTGTCC	.	PASS	Atlas-SNP
GLTSCR2	29997	hgsc.bcm.edu	37	19	48248907	48248907	+	Missense_Mutation	SNP	G	G	C	rs78530808	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	147.0	81.0	98.0	0.0	0.55102	0	G|0.987;C|0.013	0.013	strong	.	GLTSCR2	45	.	NM_015710	exon1	c.G91C	p.D31H	TCGGTGGACCCAG	.	PASS	Atlas-SNP
KRT80	144501	hgsc.bcm.edu	37	12	52579315	52579315	+	Silent	SNP	C	C	T	rs151324530	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	33.0	19.0	33.0	0.0	0.575758	0	C|0.999;T|0.001	0.001	strong	.	KRT80	68	.	NM_182507	exon2	c.G357A	p.Q119Q	CTGGCCCTGCAGG	.	PASS	Atlas-SNP
UBXN11	91544	hgsc.bcm.edu	37	1	26608855	26608855	+	Missense_Mutation	SNP	C	C	T	rs201756933		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	40.0	15.0	26.0	0.0	0.375	0	.	.	weak	.	UBXN11	54	.	NM_183008	exon16	c.G1498A	p.G500S	TGGGGCCGGGACC	.	PASS	Atlas-SNP
ODF2	4957	hgsc.bcm.edu	37	9	131262512	131262512	+	Missense_Mutation	SNP	G	G	A	rs142129915	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	111.0	58.0	105.0	0.0	0.522523	0	G|0.996;A|0.004	0.004	strong	ODF2,NS,carcinoma,+1,1	ODF2	227	1	NM_153435	exon21	c.G2660A	p.R887H	CCATCCGCTCCCG	.	PASS	Atlas-SNP
TTLL2	83887	hgsc.bcm.edu	37	6	167754360	167754360	+	Silent	SNP	C	C	T	rs77767783	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	90.0	80.0	174.0	0.0	0.888889	0	C|0.998;T|0.002	0.002	strong	.	TTLL2	82	.	NM_031949	exon3	c.C972T	p.L324L	GACGCTCAGCAGA	.	PASS	Atlas-SNP
OTOGL	283310	hgsc.bcm.edu	37	12	80665473	80665473	+	Missense_Mutation	SNP	C	C	T	rs183159689	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	156.0	74.0	133.0	0.0	0.474359	0	C|0.998;T|0.002	0.002	strong	.	OTOGL	235	.	NM_173591	exon23	c.C2537T	p.P846L	GGTTTCCTGACCC	.	PASS	Atlas-SNP
TOP1MT	116447	hgsc.bcm.edu	37	8	144399993	144399993	+	Silent	SNP	G	G	A	rs146827342	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	98.0	43.0	83.0	0.0	0.438776	0	G|0.997;A|0.003	0.003	strong	.	TOP1MT	63	.	NM_052963	exon10	c.C1230T	p.N410N	GTGCTTGTTCAGG	.	PASS	Atlas-SNP
MRGPRX1	259249	hgsc.bcm.edu	37	11	18956210	18956210	+	Missense_Mutation	SNP	C	C	G	rs139433266	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	127.0	73.0	112.0	0.0	0.574803	0	C|1.000;G|0.000	0.000	weak	MRGPRX1,NS,carcinoma,-1,1	MRGPRX1	84	1	NM_147199	exon1	c.G122C	p.G41A	GTCAGCCCGACAA	.	PASS	Atlas-SNP
PDGFRL	5157	hgsc.bcm.edu	37	8	17447018	17447018	+	Missense_Mutation	SNP	C	C	A	rs374832042		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	31.0	21.0	37.0	0.0	0.677419	0	.	.	weak	.	PDGFRL	27	.	NM_006207	exon3	c.C97A	p.P33T	AAAGAACCAGGAG	.	PASS	Atlas-SNP
MYH10	4628	hgsc.bcm.edu	37	17	8455419	8455419	+	Silent	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	131.0	6.0	107.0	0.0	0.0458015	0	.	.	none	.	MYH10	148	.	NM_001256012	exon9	c.A864G	p.E288E	AGTACGTTCATCT	.	PASS	Atlas-SNP
IFT81	28981	hgsc.bcm.edu	37	12	110600841	110600841	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	74.0	29.0	77.0	0.0	0.391892	0	.	.	none	.	IFT81	86	.	NM_014055	exon11	c.G1159C	p.D387H	GAATTTGATGGTA	.	PASS	Atlas-SNP
TRPM2	7226	hgsc.bcm.edu	37	21	45826486	45826486	+	Missense_Mutation	SNP	G	G	A	rs56379273	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	29.0	14.0	16.0	0.0	0.482759	0	G|0.988;A|0.012	0.012	strong	.	TRPM2	196	.	NM_003307	exon19	c.G2800A	p.V934I	AAGGACGTCTTCT	.	PASS	Atlas-SNP
CCDC108	255101	hgsc.bcm.edu	37	2	219900300	219900300	+	Silent	SNP	A	A	C	rs77746575	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	310.0	150.0	277.0	1.0	0.483871	0.00361011	A|0.999;C|0.001	0.001	strong	CCDC108_ENST00000295729,colon,carcinoma,-2,2	CCDC108	208	2	NM_194302	exon5	c.T444G	p.A148A	CTCCTCAGCCACC	.	PASS	Atlas-SNP
SETD6	79918	hgsc.bcm.edu	37	16	58550386	58550386	+	Missense_Mutation	SNP	G	G	A	rs147467868	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	70.0	30.0	53.0	0.0	0.428571	0	G|0.999;A|0.001	0.001	strong	.	SETD6	27	.	NM_001160305	exon4	c.G481A	p.E161K	AGGCCAGAGGAGG	.	PASS	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	37	11	57069375	57069375	+	Missense_Mutation	SNP	A	A	G	rs34069781	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	60.0	18.0	55.0	0.0	0.3	0	A|0.968;G|0.032;T|0.000	0.032	strong	.	TNKS1BP1	148	.	NM_033396	exon9	c.T4877C	p.V1626A	TCCTCCACTACCT	.	PASS	Atlas-SNP
CLRN3	119467	hgsc.bcm.edu	37	10	129690990	129690990	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	46.0	20.0	63.0	0.0	0.434783	0	.	.	none	.	CLRN3	27	.	NM_152311	exon1	c.C59A	p.S20Y	ATGAAGGACCCAA	.	PASS	Atlas-SNP
LRRC28	123355	hgsc.bcm.edu	37	15	99892589	99892589	+	Missense_Mutation	SNP	G	G	A	rs139516247		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	33.0	16.0	39.0	0.0	0.484848	0	G|1.000;A|0.000	0.000	weak	LRRC28,NS,malignant_melanoma,+1,1	LRRC28	38	1	NM_144598	exon7	c.G608A	p.R203Q	GATCTCGAGAACT	.	PASS	Atlas-SNP
GALNT13	114805	hgsc.bcm.edu	37	2	155102403	155102403	+	Silent	SNP	T	T	C	rs375635744		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	48.0	23.0	77.0	0.0	0.479167	0	.	.	weak	.	GALNT13	170	.	NM_052917	exon7	c.T765C	p.Y255Y	GACTTATGGGGGT	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75980159	75980159	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	184.0	92.0	123.0	0.0	0.5	0	.	.	none	.	CSPG4	175	.	NM_001897	exon3	c.C3247A	p.Q1083K	CCTCCTGGGTGAA	.	PASS	Atlas-SNP
DIRC1	116093	hgsc.bcm.edu	37	2	189599497	189599497	+	Missense_Mutation	SNP	A	A	C	rs72902678	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	166.0	87.0	209.0	0.0	0.524096	0	A|0.985;C|0.015	0.015	strong	.	DIRC1	13	.	NM_052952	exon2	c.T151G	p.S51A	CAGCAGAAGAACA	.	PASS	Atlas-SNP
FAIM	55179	hgsc.bcm.edu	37	3	138347988	138347988	+	Missense_Mutation	SNP	T	T	C	rs13043	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	149.0	77.0	95.0	0.0	0.516779	0	T|0.810;C|0.190	0.190	strong	.	FAIM	27	.	NM_001033030	exon5	c.T482C	p.L161S	AAAAATTGGAGAC	.	PASS	Atlas-SNP
TMEM132D	121256	hgsc.bcm.edu	37	12	130184947	130184947	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	88.0	34.0	82.0	0.0	0.386364	0	.	.	none	.	TMEM132D	299	.	NM_133448	exon2	c.A376T	p.N126Y	TCCAGTTAAGAGA	.	PASS	Atlas-SNP
PPARGC1B	133522	hgsc.bcm.edu	37	5	149216095	149216095	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	63.0	34.0	97.0	0.0	0.539683	0	.	.	none	.	PPARGC1B	74	.	NM_133263	exon8	c.G2077A	p.D693N	GACCATGACTACT	.	PASS	Atlas-SNP
EGFR	1956	hgsc.bcm.edu	37	7	55238874	55238874	+	Silent	SNP	T	T	A	rs2227984	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	54.0	54.0	65.0	0.0	1	0	T|0.645;A|0.355	0.355	strong	.	EGFR	20426	.	NM_005228	exon16	c.T1887A	p.T629T	ATGCACTGGGCCA	.	PASS	Atlas-SNP
ADGB	79747	hgsc.bcm.edu	37	6	147045358	147045358	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	73.0	55.0	133.0	0.0	0.753425	0	.	.	none	.	ADGB	93	.	NM_024694	exon18	c.T2132G	p.L711R	CTGGACTTCTCAC	.	PASS	Atlas-SNP
ARHGEF18	23370	hgsc.bcm.edu	37	19	7505146	7505146	+	Missense_Mutation	SNP	A	A	C	rs200643326		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	118.0	53.0	74.0	0.0	0.449153	0	A|0.999;C|0.001	0.001	weak	.	ARHGEF18	129	.	NM_001130955	exon1	c.A320C	p.Q107P	GGCCGCAGTCGGA	.	PASS	Atlas-SNP
SMPD1	6609	hgsc.bcm.edu	37	11	6413108	6413108	+	Silent	SNP	T	T	C	rs61876771	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	71.0	43.0	68.0	0.0	0.605634	0	A|0.000;C|0.006;T|0.993	0.006	strong	.	SMPD1	108	.	NM_000543	exon2	c.T813C	p.P271P	CGGCCCTTTTGAT	.	PASS	Atlas-SNP
DDR1	780	hgsc.bcm.edu	37	6	30860313	30860313	+	Missense_Mutation	SNP	A	A	T	rs143367160	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	63.0	23.0	42.0	0.0	0.365079	0	A|0.997;T|0.003	0.003	strong	.	DDR1	213	.	NM_001202523	exon8	c.A1147T	p.I383F	TCCTTCATCTCTG	.	PASS	Atlas-SNP
C19orf55	148137	hgsc.bcm.edu	37	19	36259415	36259415	+	Missense_Mutation	SNP	G	G	A	rs35178229	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	4.0	4.0	0.0	0.0	1	.	G|0.872;A|0.128	0.128	strong	.	C19orf55	39	.	NM_001039887	exon12	c.G1411A	p.E471K	AGAAGGGAAGGAG	.	PASS	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	37	13	39263772	39263772	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	99.0	50.0	132.0	0.0	0.50505	0	.	.	none	.	FREM2	385	.	NM_207361	exon1	c.C2291T	p.T764I	TCTTGACTGACAA	.	PASS	Atlas-SNP
RRP12	23223	hgsc.bcm.edu	37	10	99150237	99150237	+	Silent	SNP	G	G	A	rs41300219	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	48.0	19.0	42.0	0.0	0.395833	0	G|0.949;A|0.051	0.051	strong	.	RRP12	97	.	NM_015179	exon6	c.C696T	p.P232P	GGTCACGGGGTAG	.	PASS	Atlas-SNP
C2orf71	388939	hgsc.bcm.edu	37	2	29293837	29293837	+	Silent	SNP	C	C	T	rs183536545	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	114.0	48.0	117.0	0.0	0.421053	0	C|0.990;T|0.010	0.010	strong	.	C2orf71	146	.	NM_001029883	exon1	c.G3291A	p.Q1097Q	GTGCTCCTGAGAA	.	PASS	Atlas-SNP
MAP3K15	389840	hgsc.bcm.edu	37	X	19387318	19387318	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	36.0	36.0	24.0	0.0	1	0	.	.	none	.	MAP3K15	108	.	NM_001001671	exon25	c.G3420T	p.E1140D	GGTAGGCTCAAAG	.	PASS	Atlas-SNP
ZNF844	284391	hgsc.bcm.edu	37	19	12187907	12187907	+	Missense_Mutation	SNP	G	G	A	rs55703333	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	64.0	28.0	43.0	0.0	0.4375	0	G|0.980;A|0.020	0.020	strong	.	ZNF844	69	.	NM_001136501	exon4	c.G1972A	p.V658I	CCTTTCGTAGACA	.	PASS	Atlas-SNP
RALGDS	5900	hgsc.bcm.edu	37	9	135982493	135982493	+	Silent	SNP	C	C	T	rs45487303	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	132.0	132.0	151.0	0.0	1	0	C|0.985;T|0.015	0.015	strong	.	RALGDS	75	.	NM_006266	exon7	c.G1392A	p.E464E	CCAGTGCTCCACC	.	PASS	Atlas-SNP
SEC24C	9632	hgsc.bcm.edu	37	10	75523634	75523634	+	Missense_Mutation	SNP	A	A	G	rs35528438	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	158.0	76.0	143.0	0.0	0.481013	0	A|0.983;G|0.017	0.017	strong	.	SEC24C	86	.	NM_198597	exon8	c.A1120G	p.I374V	CGATACATCCGAT	.	PASS	Atlas-SNP
TRRAP	8295	hgsc.bcm.edu	37	7	98592335	98592335	+	Silent	SNP	G	G	A	rs56282945	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	171.0	76.0	152.0	0.0	0.444444	0	G|1.000;A|0.000	0.000	strong	.	TRRAP	863	.	NM_001244580	exon66	c.G10131A	p.T3377T	GAGCACGTTTGGG	.	PASS	Atlas-SNP
NFATC1	4772	hgsc.bcm.edu	37	18	77170505	77170505	+	Missense_Mutation	SNP	C	C	T	rs143045693	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	81.0	44.0	49.0	0.0	0.54321	0	C|1.000;T|0.000	0.000	strong	.	NFATC1	105	.	NM_172390	exon2	c.C230T	p.P77L	CCACACCGGGCAT	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116397572	116397572	+	Silent	SNP	A	A	G	rs13223756	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	72.0	39.0	74.0	0.0	0.541667	0	A|0.817;G|0.183	0.183	strong	.	MET	412	.	NM_000245	exon7	c.A1944G	p.Q648Q	AACACAATACAGT	.	PASS	Atlas-SNP
ARHGAP22	58504	hgsc.bcm.edu	37	10	49658842	49658842	+	Missense_Mutation	SNP	C	C	G	rs34940331	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	90.0	39.0	84.0	0.0	0.433333	0	C|0.991;G|0.009	0.009	strong	.	ARHGAP22	94	.	NM_001256024	exon9	c.G1378C	p.G460R	CGCCCCCCTTCGG	.	PASS	Atlas-SNP
SALL1	6299	hgsc.bcm.edu	37	16	51172786	51172786	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	114.0	46.0	119.0	0.0	0.403509	0	.	.	none	.	SALL1	301	.	NM_002968	exon2	c.C3347T	p.S1116F	GTGGCAGAGGAAG	.	PASS	Atlas-SNP
EPHB4	2050	hgsc.bcm.edu	37	7	100403131	100403131	+	Missense_Mutation	SNP	C	C	A	rs35638378	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	100.0	46.0	79.0	0.0	0.46	0	C|0.993;A|0.007	0.007	strong	.	EPHB4	106	.	NM_004444	exon15	c.G2670T	p.E890D	GCCATTCTCCCGG	.	PASS	Atlas-SNP
DENND1C	79958	hgsc.bcm.edu	37	19	6468907	6468907	+	Missense_Mutation	SNP	G	G	A	rs35001260	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	60.0	28.0	40.0	0.0	0.466667	0	G|0.983;A|0.017	0.017	strong	.	DENND1C	93	.	NM_024898	exon20	c.C1465T	p.R489C	CTGAGCGGCTGGG	.	PASS	Atlas-SNP
ZEB2	9839	hgsc.bcm.edu	37	2	145157593	145157593	+	Silent	SNP	T	T	C	rs146673563	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	101.0	48.0	105.0	0.0	0.475248	0	T|0.999;C|0.001	0.001	strong	ZEB2,NS,carcinoma,0,1	ZEB2	218	1	NM_014795	exon8	c.A1161G	p.L387L	TTTAAGTAAGCCT	.	PASS	Atlas-SNP
MYH6	4624	hgsc.bcm.edu	37	14	23852443	23852443	+	Silent	SNP	G	G	A	rs200662317	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	97.0	47.0	113.0	0.0	0.484536	0	G|0.997;A|0.003	0.003	strong	.	MYH6	274	.	NM_002471	exon37	c.C5652T	p.A1884A	CTCCTCGGCCTGG	.	PASS	Atlas-SNP
OR7A5	26659	hgsc.bcm.edu	37	19	14938190	14938190	+	Silent	SNP	A	A	G	rs2240561	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	115.0	9.0	69.0	0.0	0.0782609	0	A|0.999;G|0.001	0.001	strong	.	OR7A5	43	.	NM_017506	exon1	c.T864C	p.F288F	ATAGATAAAGGGG	.	PASS	Atlas-SNP
ZFP36L1	677	hgsc.bcm.edu	37	14	69259661	69259661	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	114.0	51.0	79.0	0.0	0.447368	0	.	.	none	.	ZFP36L1	47	.	NM_001244701	exon2	c.C202T	p.H68Y	TCCTGTGCGTTCG	.	PASS	Atlas-SNP
HGS	9146	hgsc.bcm.edu	37	17	79658569	79658569	+	Silent	SNP	C	C	T	rs148002494	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	120.0	58.0	110.0	0.0	0.483333	0	C|0.999;T|0.001	0.001	strong	.	HGS	54	.	NM_004712	exon8	c.C630T	p.R210R	GGTGCGCGTGTGT	.	PASS	Atlas-SNP
KCNB2	9312	hgsc.bcm.edu	37	8	73849768	73849768	+	Silent	SNP	A	A	C	rs142525254	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	56.0	23.0	63.0	0.0	0.410714	0	A|0.989;C|0.011	0.011	strong	.	KCNB2	228	.	NM_004770	exon3	c.A2178C	p.A726A	CAGTGCACCACAG	.	PASS	Atlas-SNP
PNMAL1	55228	hgsc.bcm.edu	37	19	46974077	46974077	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	77.0	31.0	66.0	0.0	0.402597	0	.	.	none	.	PNMAL1	87	.	NM_018215	exon2	c.G216A	p.E72E	ACCAACCTCAATG	.	PASS	Atlas-SNP
NPR1	4881	hgsc.bcm.edu	37	1	153662423	153662423	+	Missense_Mutation	SNP	G	G	A	rs35479618	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	85.0	33.0	79.0	0.0	0.388235	0	G|0.993;A|0.007	0.007	strong	.	NPR1	104	.	NM_000906	exon19	c.G2899A	p.E967K	CCCCAGGAGCAGC	.	PASS	Atlas-SNP
COL6A1	1291	hgsc.bcm.edu	37	21	47422174	47422174	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	40.0	20.0	36.0	0.0	0.5	0	.	.	none	.	COL6A1	101	.	NM_001848	exon32	c.G2109A	p.T703T	CTTCACGGGGGAG	.	PASS	Atlas-SNP
NKTR	4820	hgsc.bcm.edu	37	3	42662976	42662976	+	Silent	SNP	A	A	C	rs35419602	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	79.0	30.0	109.0	0.0	0.379747	0	A|0.988;C|0.012	0.012	strong	.	NKTR	116	.	NM_005385	exon6	c.A342C	p.R114R	AAATCGAGGGAAA	.	PASS	Atlas-SNP
SLC15A1	6564	hgsc.bcm.edu	37	13	99340578	99340578	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	97.0	38.0	107.0	0.0	0.391753	0	.	.	none	.	SLC15A1	92	.	NM_005073	exon20	c.C1607T	p.P536L	TGTGGCGGAATCT	.	PASS	Atlas-SNP
LRRC19	64922	hgsc.bcm.edu	37	9	26998122	26998122	+	Silent	SNP	T	T	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	80.0	38.0	95.0	0.0	0.475	0	.	.	none	.	LRRC19	24	.	NM_022901	exon3	c.A199C	p.R67R	GAACTCTTGTGTC	.	PASS	Atlas-SNP
FAM104B	90736	hgsc.bcm.edu	37	X	55172630	55172630	+	Nonsense_Mutation	SNP	G	G	A	rs113263757	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	46.0	4.0	33.0	0.0	0.0869565	0	.	.	weak	.	FAM104B	28	.	NM_001166699	exon3	c.C238T	p.Q80X	AGAACTGGGGAAA	.	PASS	Atlas-SNP
SAMD4A	23034	hgsc.bcm.edu	37	14	55227152	55227152	+	Missense_Mutation	SNP	G	G	T	rs149416017	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	6.0	4.0	0.0	0.0	0.666667	.	G|0.987;T|0.013	0.013	strong	.	SAMD4A	68	.	NM_015589	exon6	c.G1450T	p.A484S	GAGCTGGCCGTCG	.	PASS	Atlas-SNP
PLG	5340	hgsc.bcm.edu	37	6	161159619	161159619	+	Silent	SNP	T	T	C	rs4252195	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	93.0	81.0	175.0	0.0	0.870968	0	T|0.996;C|0.004	0.004	strong	.	PLG	150	.	NM_000301	exon15	c.T1852C	p.L618L	TGGGTGTTGACTG	.	PASS	Atlas-SNP
LTF	4057	hgsc.bcm.edu	37	3	46490456	46490456	+	Silent	SNP	G	G	A	rs61737000	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	106.0	54.0	136.0	0.0	0.509434	0	G|0.929;A|0.071	0.071	strong	.	LTF	98	.	NM_002343	exon9	c.C1110T	p.G370G	CTGCTCGCCCACC	.	PASS	Atlas-SNP
TPR	7175	hgsc.bcm.edu	37	1	186330768	186330768	+	Missense_Mutation	SNP	T	T	C	rs201760745	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	202.0	97.0	239.0	0.0	0.480198	0	.	.	weak	.	TPR	441	.	NM_003292	exon9	c.A944G	p.K315R	GCTTCTTTCAAAA	.	PASS	Atlas-SNP
PLEKHN1	84069	hgsc.bcm.edu	37	1	906122	906122	+	Silent	SNP	C	C	T	rs41285812	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	106.0	99.0	118.0	1.0	0.933962	0.00847458	C|0.995;T|0.005	0.005	strong	.	PLEKHN1	49	.	NM_001160184	exon5	c.C468T	p.H156H	AGAGCACGCCTTC	.	PASS	Atlas-SNP
KCNJ4	3761	hgsc.bcm.edu	37	22	38823676	38823676	+	Silent	SNP	C	C	G	rs77032485	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	89.0	36.0	54.0	0.0	0.404494	0	C|0.995;G|0.005	0.005	strong	.	KCNJ4	74	.	NM_004981	exon2	c.G462C	p.V154V	CTGGACCACCACA	.	PASS	Atlas-SNP
KRTAP29-1	100533177	hgsc.bcm.edu	37	17	39458772	39458772	+	Missense_Mutation	SNP	G	G	A	rs117847625	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	59.0	23.0	61.0	0.0	0.38983	0	G|0.969;A|0.031	0.031	strong	.	KRTAP29-1	2	.	NM_001257309	exon1	c.C332T	p.S111L	GATTCCGAGCAGG	.	PASS	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	37	17	4451570	4451570	+	Missense_Mutation	SNP	G	G	A	rs142700966	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	65.0	34.0	62.0	0.0	0.523077	0	G|0.998;A|0.002	0.002	strong	.	MYBBP1A	69	.	NM_014520	exon12	c.C1592T	p.A531V	CCCGGTGCCTGCT	.	PASS	Atlas-SNP
RRP12	23223	hgsc.bcm.edu	37	10	99118716	99118716	+	Missense_Mutation	SNP	G	G	T	rs143870774	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	45.0	27.0	44.0	0.0	0.6	0	G|0.998;A|0.002	.	alt	.	RRP12	97	.	NM_015179	exon32	c.C3692A	p.A1231D	TATTCAGCCCCAG	.	PASS	Atlas-SNP
TDP2	51567	hgsc.bcm.edu	37	6	24667074	24667074	+	Missense_Mutation	SNP	C	C	A	rs61760186	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	48.0	29.0	43.0	0.0	0.604167	0	C|0.997;A|0.003	0.003	strong	.	TDP2	29	.	NM_016614	exon1	c.G17T	p.C6F	TCCAGGCAACTCC	.	PASS	Atlas-SNP
CYP2A6	1548	hgsc.bcm.edu	37	19	41351321	41351321	+	Missense_Mutation	SNP	C	C	T	rs78337605	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	306.0	30.0	220.0	0.0	0.0980392	0	C|0.500;T|0.500	0.500	strong	.	CYP2A6	69	.	NM_000762	exon7	c.G1039A	p.A347T	TCTTGGCCCGGTC	.	PASS	Atlas-SNP
PCDHB2	56133	hgsc.bcm.edu	37	5	140475665	140475665	+	Missense_Mutation	SNP	C	C	A	rs116177548	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	239.0	113.0	153.0	0.0	0.472803	0	C|0.996;A|0.004	0.004	strong	PCDHB2,NS,carcinoma,-2,1	PCDHB2	163	1	NM_018936	exon1	c.C1291A	p.P431T	GGGACACCCAGGC	.	PASS	Atlas-SNP
HAPLN3	145864	hgsc.bcm.edu	37	15	89422353	89422353	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	54.0	26.0	23.0	0.0	0.481481	0	.	.	none	.	HAPLN3	43	.	NM_178232	exon4	c.C641T	p.A214V	CAGCCCGCGTTGC	.	PASS	Atlas-SNP
BET1L	51272	hgsc.bcm.edu	37	11	205398	205398	+	Silent	SNP	G	G	A	rs190584141	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	161.0	90.0	118.0	0.0	0.559006	0	G|0.998;A|0.002	0.002	strong	.	BET1L	7	.	NM_001098787	exon4	c.C240T	p.S80S	TTGTCCGGACCTT	.	PASS	Atlas-SNP
EGFR	1956	hgsc.bcm.edu	37	7	55229255	55229255	+	Missense_Mutation	SNP	G	G	A	rs2227983	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	65.0	65.0	69.0	0.0	1	0	A|0.243;C|0.000;G|0.757;T|0.000	0.243	strong	.	EGFR	20426	.	NM_005228	exon13	c.G1562A	p.R521K	AGCCCAGGGACTG	.	PASS	Atlas-SNP
SAPCD1	401251	hgsc.bcm.edu	37	6	31731301	31731301	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	76.0	38.0	54.0	0.0	0.5	0	.	.	none	.	.	.	.	NM_001039651	exon2	c.G224A	p.R75Q	CACAGCGACAGCA	.	PASS	Atlas-SNP
WBP4	11193	hgsc.bcm.edu	37	13	41639377	41639377	+	Silent	SNP	C	C	T	rs61740513	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	71.0	39.0	54.0	0.0	0.549296	0	C|0.967;T|0.033	0.033	strong	.	WBP4	40	.	NM_007187	exon4	c.C216T	p.A72A	AGCTGCCCTGAAA	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228557755	228557755	+	Missense_Mutation	SNP	G	G	A	rs145597580	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	74.0	45.0	80.0	0.0	0.608108	0	G|0.998;A|0.002	0.002	strong	.	OBSCN	2142	.	NM_001271223	exon102	c.G22951A	p.A7651T	GAAGACGCCAAAG	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48312084	48312084	+	Missense_Mutation	SNP	G	G	C	rs78575608	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	200.0	85.0	214.0	0.0	0.425	0	G|0.974;C|0.026	0.026	strong	.	ABCA13	1192	.	NM_152701	exon17	c.G2821C	p.V941L	CAAGAAGTTGATA	.	PASS	Atlas-SNP
HRCT1	646962	hgsc.bcm.edu	37	9	35906583	35906583	+	Missense_Mutation	SNP	T	T	A	rs112821450	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	34.0	3.0	20.0	0.0	0.0882353	0	T|0.500;A|0.500	0.500	weak	HRCT1,NS,malignant_melanoma,0,1	HRCT1	14	1	NM_001039792	exon1	c.T299A	p.L100H	ACCACCTCCACCA	.	scavenged	Atlas-SNP
RNF40	9810	hgsc.bcm.edu	37	16	30780861	30780861	+	Silent	SNP	C	C	T	rs142343572	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	58.0	25.0	71.0	0.0	0.431034	0	C|0.997;T|0.003	0.003	strong	.	RNF40	83	.	NM_014771	exon17	c.C2526T	p.L842L	CAGCCTCGGGGGT	.	PASS	Atlas-SNP
APOBEC3G	60489	hgsc.bcm.edu	37	22	39482557	39482557	+	Missense_Mutation	SNP	A	A	G	rs139265278		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	72.0	37.0	96.0	0.0	0.513889	0	A|1.000;G|0.000	0.000	weak	.	APOBEC3G	69	.	NM_021822	exon6	c.A1009G	p.I337V	ATTTCAATAATGA	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88504204	88504204	+	Missense_Mutation	SNP	G	G	C	rs56236932	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	17.0	9.0	22.0	0.0	0.529412	0	G|0.994;C|0.006	0.006	strong	ZNF469,NS,carcinoma,+1,1	ZNF469	121	1	NM_001127464	exon2	c.G10242C	p.R3414S	CCTCAGGGGGGGG	.	PASS	Atlas-SNP
ITGA3	3675	hgsc.bcm.edu	37	17	48151296	48151296	+	Silent	SNP	T	T	C	rs117783166	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	62.0	20.0	78.0	0.0	0.322581	0	T|0.997;C|0.003	0.003	strong	.	ITGA3	128	.	NM_005501	exon8	c.T1173C	p.A391A	GGGAGCTCCGTTT	.	PASS	Atlas-SNP
ZNF259	8882	hgsc.bcm.edu	37	11	116652892	116652892	+	Missense_Mutation	SNP	A	A	T	rs11550892	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	99.0	47.0	115.0	0.0	0.474747	0	A|0.996;T|0.004	0.004	strong	.	ZNF259	27	.	NM_003904	exon12	c.T1161A	p.F387L	CTGGCTAAACTCC	.	PASS	Atlas-SNP
TPTE	7179	hgsc.bcm.edu	37	21	10920086	10920086	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	127.0	30.0	99.0	0.0	0.23622	0	.	.	none	TPTE_ENST00000361285,NS,carcinoma,0,3	TPTE	513	3	NM_199261	exon19	c.C1168A	p.Q390K	TTACCTGAGAAGG	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141752154	141752154	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	52.0	30.0	52.0	0.0	0.576923	0	.	.	none	.	MGAM	767	.	NM_004668	exon25	c.A2866T	p.I956L	TGGAGCATAAAGA	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1251357	1251357	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	71.0	34.0	66.0	0.0	0.478873	0	.	.	none	.	MUC5B	473	.	NM_002458	exon11	c.G1343C	p.S448T	ACTGCAGCTACGT	.	PASS	Atlas-SNP
PPAN	56342	hgsc.bcm.edu	37	19	10221227	10221227	+	Missense_Mutation	SNP	C	C	T	rs139737427	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	82.0	43.0	89.0	0.0	0.52439	0	C|0.999;T|0.001	0.001	strong	.	PPAN	43	.	NM_020230	exon10	c.C968T	p.A323V	TGAAGGCGCAGAG	.	PASS	Atlas-SNP
HPSE	10855	hgsc.bcm.edu	37	4	84222208	84222208	+	Silent	SNP	A	A	G	rs11031	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	94.0	47.0	143.0	0.0	0.5	0	A|0.911;G|0.089	0.089	strong	.	HPSE	55	.	NM_001098540	exon11	c.T1377C	p.N459N	GGTGACATTATGG	.	PASS	Atlas-SNP
RFT1	91869	hgsc.bcm.edu	37	3	53159970	53159970	+	Missense_Mutation	SNP	A	A	G	rs146354877	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	92.0	35.0	143.0	0.0	0.380435	0	A|0.999;G|0.001	0.001	strong	.	RFT1	34	.	NM_052859	exon2	c.T104C	p.I35T	CGAAGAATAAATG	.	PASS	Atlas-SNP
SMURF2	64750	hgsc.bcm.edu	37	17	62587204	62587204	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	101.0	5.0	120.0	0.0	0.049505	0	.	.	none	.	SMURF2	63	.	NM_022739	exon5	c.T398C	p.V133A	TTACCTACTATCT	.	PASS	Atlas-SNP
ARMC5	79798	hgsc.bcm.edu	37	16	31471283	31471283	+	Silent	SNP	G	G	A	rs201280100	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	21.0	12.0	24.0	0.0	0.571429	0	G|0.993;A|0.007	0.007	strong	.	ARMC5	94	.	NM_024742	exon1	c.G438A	p.R146R	GTGCCGGACCGAA	.	PASS	Atlas-SNP
ALPK3	57538	hgsc.bcm.edu	37	15	85400564	85400564	+	Silent	SNP	C	C	T	rs114957070	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	65.0	42.0	54.0	0.0	0.646154	0	C|0.996;T|0.004	0.004	strong	.	ALPK3	289	.	NM_020778	exon6	c.C3201T	p.P1067P	GGTACCCACGATG	.	PASS	Atlas-SNP
MESDC1	59274	hgsc.bcm.edu	37	15	81294774	81294774	+	Silent	SNP	G	G	C	rs11541231	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	12.0	10.0	5.0	0.0	0.833333	0	G|0.972;C|0.028	0.028	strong	.	MESDC1	7	.	NM_022566	exon1	c.G162C	p.S54S	GCTGTCGAGCGAG	.	PASS	Atlas-SNP
ZCWPW1	55063	hgsc.bcm.edu	37	7	99998750	99998750	+	Silent	SNP	G	G	A	rs145308367	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	111.0	49.0	82.0	0.0	0.441441	0	G|0.994;A|0.006	0.006	strong	.	ZCWPW1	41	.	NM_017984	exon18	c.C1834T	p.L612L	GGTCCAGGTCACT	.	PASS	Atlas-SNP
SIGLEC10	89790	hgsc.bcm.edu	37	19	51919244	51919244	+	Missense_Mutation	SNP	G	G	C	rs200798488	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	108.0	39.0	176.0	0.0	0.361111	0	G|0.993;C|0.007	0.007	strong	.	SIGLEC10	112	.	NM_001171157	exon5	c.C932G	p.P311R	ACCCCGGGCAGCT	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	37	12	57571249	57571249	+	Silent	SNP	C	C	T	rs2228187	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	175.0	94.0	149.0	0.0	0.537143	0	C|0.994;T|0.006	0.006	strong	.	LRP1	428	.	NM_002332	exon26	c.C4236T	p.R1412R	GCCCCGCATTGAG	.	PASS	Atlas-SNP
PCDHB4	56131	hgsc.bcm.edu	37	5	140502433	140502433	+	Missense_Mutation	SNP	G	G	C	rs149340599	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	115.0	53.0	112.0	0.0	0.46087	0	G|0.996;C|0.004	0.004	strong	.	PCDHB4	177	.	NM_018938	exon1	c.G853C	p.D285H	GCATCAGATGAAA	.	PASS	Atlas-SNP
BCL2	596	hgsc.bcm.edu	37	18	60985833	60985833	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	33.0	17.0	28.0	0.0	0.515152	0	.	.	none	.	BCL2	272	.	NM_000633	exon2	c.C67T	p.L23L	GCGACAGCTTATA	.	PASS	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	37	11	57081048	57081048	+	Missense_Mutation	SNP	G	G	C	rs79638626	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	44.0	23.0	40.0	0.0	0.522727	0	G|0.970;C|0.030	0.030	strong	TNKS1BP1,NS,haematopoietic_neoplasm,0,1	TNKS1BP1	148	1	NM_033396	exon5	c.C1114G	p.P372A	CCTCAGGGGGTGG	.	PASS	Atlas-SNP
ATP2A2	488	hgsc.bcm.edu	37	12	110765378	110765378	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	127.0	45.0	134.0	0.0	0.354331	0	.	.	none	.	ATP2A2	78	.	NM_001681	exon8	c.G651A	p.G217G	TGCTGGGAAAGCT	.	PASS	Atlas-SNP
XXYLT1	152002	hgsc.bcm.edu	37	3	194790782	194790782	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	14.0	2.0	5.0	0.0	0.142857	0	.	.	none	C3orf21,bladder,carcinoma,+2,1	.	.	1	NM_152531	exon4	c.C844T	p.P282S	CCTCGGGGGGCGG	.	scavenged	Atlas-SNP
NCOA3	8202	hgsc.bcm.edu	37	20	46279860	46279860	+	Silent	SNP	G	G	A	rs151060280	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	80.0	4.0	93.0	0.0	0.05	0	G|0.997;A|0.003	0.003	strong	NCOA3,bladder,carcinoma,0,6	NCOA3	156	6	NM_181659	exon20	c.G3786A	p.Q1262Q	GCAGCAGCAGCAA	.	PASS	Atlas-SNP
MEGF10	84466	hgsc.bcm.edu	37	5	126746147	126746147	+	Silent	SNP	C	C	T	rs35550094	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	145.0	68.0	132.0	0.0	0.468966	0	C|0.983;T|0.017	0.017	strong	.	MEGF10	152	.	NM_032446	exon10	c.C984T	p.N328N	TGTCAACGGAGGG	.	PASS	Atlas-SNP
PLEKHA4	57664	hgsc.bcm.edu	37	19	49340661	49340661	+	Missense_Mutation	SNP	C	C	A	rs35965411	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	79.0	39.0	98.0	0.0	0.493671	0	C|0.932;A|0.068	0.068	strong	.	PLEKHA4	70	.	NM_020904	exon20	c.G2225T	p.G742V	CCTCCTCCACGCC	.	PASS	Atlas-SNP
SETBP1	26040	hgsc.bcm.edu	37	18	42530295	42530295	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	60.0	35.0	59.0	0.0	0.583333	0	.	.	none	.	SETBP1	577	.	NM_015559	exon4	c.G990A	p.T330T	ACCTACGGTGGGC	.	PASS	Atlas-SNP
SOS2	6655	hgsc.bcm.edu	37	14	50585109	50585109	+	Missense_Mutation	SNP	G	G	A	rs140995728	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	165.0	73.0	206.0	0.0	0.442424	0	G|0.999;A|0.001	0.001	strong	.	SOS2	195	.	NM_006939	exon23	c.C3952T	p.P1318S	ACAATGGGGGGTG	.	PASS	Atlas-SNP
LMO7	4008	hgsc.bcm.edu	37	13	76370887	76370887	+	Splice_Site	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	100.0	26.0	60.0	0.0	0.26	0	.	.	none	.	LMO7	334	.	NM_005358	exon7	c.618+2T>C	.	CGAAGGTAAGTAA	.	PASS	Atlas-SNP
PLEKHA4	57664	hgsc.bcm.edu	37	19	49340746	49340746	+	Missense_Mutation	SNP	T	T	C	rs34460869	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	143.0	76.0	146.0	0.0	0.531469	0	T|0.929;C|0.071	0.071	strong	.	PLEKHA4	70	.	NM_020904	exon20	c.A2140G	p.T714A	GGCGCGTGGGGTC	.	PASS	Atlas-SNP
JAK2	3717	hgsc.bcm.edu	37	9	5050706	5050706	+	Silent	SNP	C	C	T	rs2230722	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	83.0	82.0	75.0	0.0	0.987952	0	C|0.647;T|0.353	0.353	strong	.	JAK2	35466	.	NM_004972	exon6	c.C489T	p.H163H	TGTGCACGGATGG	.	PASS	Atlas-SNP
DMBT1	1755	hgsc.bcm.edu	37	10	124330421	124330421	+	Missense_Mutation	SNP	C	C	G	rs75209396	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	185.0	81.0	188.0	0.0	0.437838	0	C|0.950;G|0.050	0.050	strong	.	DMBT1	677	.	NM_007329	exon4	c.C155G	p.S52W	TTCCCTCGGAGTC	.	PASS	Atlas-SNP
BTN2A1	11120	hgsc.bcm.edu	37	6	26458871	26458871	+	Missense_Mutation	SNP	T	T	C	rs146399224	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	111.0	6.0	101.0	0.0	0.0540541	0	T|0.999;C|0.001	0.001	weak	.	BTN2A1	118	.	NM_001197234	exon2	c.T7C	p.S3P	ATGGAATCAGCTG	.	PASS	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057634	46057634	+	Silent	SNP	T	T	C	rs61029972		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	145.0	84.0	142.0	0.0	0.57931	0	C|1.000;|0.000	1.000	weak	.	KRTAP10-10	37	.	NM_181688	exon1	c.T300C	p.C100C	CTGCTGTGTGCCC	.	PASS	Atlas-SNP
MLH1	4292	hgsc.bcm.edu	37	3	37053568	37053568	+	Missense_Mutation	SNP	A	A	G	rs1799977	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	101.0	44.0	118.0	0.0	0.435644	0	A|0.799;G|0.201	0.201	strong	MLH1,NS,carcinoma,0,1	MLH1	226	1	NM_000249	exon8	c.A655G	p.I219V	CGCTCCATCTTTG	.	PASS	Atlas-SNP
ADAMTS14	140766	hgsc.bcm.edu	37	10	72520417	72520417	+	Silent	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	75.0	38.0	70.0	0.0	0.506667	0	.	.	none	ADAMTS14,rectum,carcinoma,+2,2	ADAMTS14	148	2	NM_139155	exon22	c.A3489G	p.P1163P	CTCCCCAGGGACC	.	PASS	Atlas-SNP
C11orf24	53838	hgsc.bcm.edu	37	11	68029738	68029738	+	Missense_Mutation	SNP	G	G	A	rs143548724	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	475.0	238.0	452.0	0.0	0.501053	0	G|0.998;A|0.002	0.002	strong	.	C11orf24	35	.	NM_022338	exon4	c.C725T	p.A242V	CTTGCCGCGGTGT	.	PASS	Atlas-SNP
SP100	6672	hgsc.bcm.edu	37	2	231379967	231379967	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	78.0	36.0	81.0	0.0	0.461538	0	.	.	none	.	SP100	167	.	NM_003113	exon25	c.C2252T	p.T751I	TGAAAACCTATAT	.	PASS	Atlas-SNP
RNF31	55072	hgsc.bcm.edu	37	14	24620710	24620710	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	81.0	37.0	88.0	0.0	0.45679	0	.	.	none	RNF31,NS,carcinoma,0,1	RNF31	95	1	NM_017999	exon10	c.C1754G	p.S585C	TCCAGTCTCTAGG	.	PASS	Atlas-SNP
OTUD7B	56957	hgsc.bcm.edu	37	1	149916118	149916118	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	65.0	34.0	38.0	0.0	0.523077	0	.	.	none	.	OTUD7B	76	.	NM_020205	exon12	c.C2170G	p.L724V	GTGGTAGGCCCCC	.	PASS	Atlas-SNP
AKAP11	11215	hgsc.bcm.edu	37	13	42876103	42876103	+	Missense_Mutation	SNP	C	C	T	rs61756566	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	78.0	40.0	86.0	0.0	0.512821	0	C|0.988;T|0.012	0.012	strong	AKAP11,NS,carcinoma,0,1	AKAP11	146	1	NM_016248	exon8	c.C3221T	p.S1074F	TCTCATCTACAGC	.	PASS	Atlas-SNP
MRC1	4360	hgsc.bcm.edu	37	10	17875762	17875762	+	Silent	SNP	G	G	A	rs2985837	bycluster;bysubmitter	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	80.0	4.0	185.0	1.0	0.05	0.00540541	G|0.750;A|0.250	0.250	weak	MRC1L1,rectum,carcinoma,0,2	MRC1	13	2	NM_002438	exon4	c.G726A	p.Q242Q	GCACCAGGCGAGG	.	scavenged	Atlas-SNP
CLUAP1	23059	hgsc.bcm.edu	37	16	3554799	3554799	+	Silent	SNP	T	T	C	rs34672214	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	203.0	91.0	218.0	0.0	0.448276	0	T|0.955;C|0.045	0.045	strong	.	CLUAP1	32	.	NM_015041	exon2	c.T102C	p.L34L	TGGACTTGTATCT	.	PASS	Atlas-SNP
ZFYVE26	23503	hgsc.bcm.edu	37	14	68229051	68229051	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	105.0	45.0	89.0	0.0	0.428571	0	.	.	none	.	ZFYVE26	223	.	NM_015346	exon34	c.A6238G	p.T2080A	CAGCAGTGAGGTT	.	PASS	Atlas-SNP
PIK3AP1	118788	hgsc.bcm.edu	37	10	98369563	98369563	+	Silent	SNP	T	T	C	rs141067860	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	144.0	59.0	119.0	0.0	0.409722	0	T|0.999;C|0.001	0.001	strong	.	PIK3AP1	111	.	NM_152309	exon14	c.A2076G	p.G692G	ATAGACTCCAAAC	.	PASS	Atlas-SNP
S1PR5	53637	hgsc.bcm.edu	37	19	10624863	10624863	+	Silent	SNP	C	C	T	rs75861469	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	56.0	31.0	46.0	0.0	0.553571	0	C|0.981;T|0.019	0.019	strong	.	S1PR5	33	.	NM_030760	exon2	c.G825A	p.V275V	GCACGCCACGTCG	.	PASS	Atlas-SNP
TAF7L	54457	hgsc.bcm.edu	37	X	100547806	100547806	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	46.0	44.0	53.0	0.0	0.956522	0	.	.	none	.	TAF7L	64	.	NM_024885	exon1	c.G228T	p.Q76H	TGGGGCCTGGGCA	.	PASS	Atlas-SNP
HSPB8	26353	hgsc.bcm.edu	37	12	119617350	119617350	+	Missense_Mutation	SNP	G	G	T	rs55826713	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	42.0	22.0	25.0	0.0	0.52381	0	G|0.999;T|0.001	0.001	strong	.	HSPB8	45	.	NM_014365	exon1	c.G233T	p.R78M	CCGCCAGGTTTGG	.	PASS	Atlas-SNP
ABCC6	368	hgsc.bcm.edu	37	16	16263662	16263662	+	Missense_Mutation	SNP	G	G	T	rs61340537	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	100.0	41.0	113.0	0.0	0.41	0	G|0.989;T|0.011	0.011	strong	.	ABCC6	110	.	NM_001171	exon22	c.C2836A	p.L946I	GGCAGAGGGGGGT	.	PASS	Atlas-SNP
UST	10090	hgsc.bcm.edu	37	6	149395197	149395197	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	86.0	14.0	126.0	0.0	0.162791	0	.	.	none	UST,right_upper_lobe,carcinoma,0,2	UST	42	2	NM_005715	exon8	c.T1166A	p.I389N	AGCCAATCGACGA	.	PASS	Atlas-SNP
TMEM86A	144110	hgsc.bcm.edu	37	11	18723210	18723210	+	Missense_Mutation	SNP	C	C	T	rs144559255	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	112.0	52.0	131.0	0.0	0.464286	0	C|0.987;T|0.013	0.013	strong	TMEM86A,caecum,carcinoma,-1,1	TMEM86A	29	1	NM_153347	exon3	c.C377T	p.A126V	TGGCAGCGCTGTC	.	PASS	Atlas-SNP
C10orf10	11067	hgsc.bcm.edu	37	10	45473432	45473432	+	Missense_Mutation	SNP	C	C	T	rs149255069	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	91.0	36.0	101.0	0.0	0.395604	0	C|0.999;T|0.001	0.001	strong	.	C10orf10	6	.	NM_007021	exon2	c.G47A	p.R16Q	GTCTCCCGAATTG	.	PASS	Atlas-SNP
PXDNL	137902	hgsc.bcm.edu	37	8	52321966	52321966	+	Missense_Mutation	SNP	G	G	A	rs201280324	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	34.0	14.0	28.0	0.0	0.411765	0	G|0.998;A|0.002	0.002	strong	PXDNL_ENST00000356297,NS,carcinoma,+2,1	PXDNL	414	1	NM_144651	exon17	c.C2218T	p.P740S	ACGTGGGCTGCTG	.	scavenged	Atlas-SNP
TRIP11	9321	hgsc.bcm.edu	37	14	92460176	92460176	+	Missense_Mutation	SNP	C	C	G	rs137974620	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	158.0	86.0	136.0	0.0	0.544304	0	C|0.998;G|0.002	0.002	strong	.	TRIP11	184	.	NM_004239	exon15	c.G5137C	p.E1713Q	TTCCTTCCAGATT	.	PASS	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	37	13	39452993	39452993	+	Missense_Mutation	SNP	C	C	T	rs7996253	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	155.0	66.0	158.0	0.0	0.425806	0	C|0.978;T|0.022	0.022	strong	.	FREM2	385	.	NM_207361	exon23	c.C8885T	p.A2962V	CACAAGCGACCAG	.	PASS	Atlas-SNP
ULK4	54986	hgsc.bcm.edu	37	3	41877410	41877410	+	Missense_Mutation	SNP	T	T	G	rs192218045	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	255.0	118.0	215.0	0.0	0.462745	0	T|0.997;G|0.003	0.003	strong	.	ULK4	150	.	NM_017886	exon18	c.A1710C	p.L570F	CTGTTTTAATTTG	.	PASS	Atlas-SNP
FBN2	2201	hgsc.bcm.edu	37	5	127595153	127595153	+	Silent	SNP	G	G	C	rs34383505	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	220.0	111.0	197.0	0.0	0.504545	0	G|0.973;C|0.027	0.027	strong	.	FBN2	858	.	NM_001999	exon65	c.C8733G	p.L2911L	TTAATAGAGCTGA	.	PASS	Atlas-SNP
SMG1	23049	hgsc.bcm.edu	37	16	18882775	18882775	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	295.0	118.0	282.0	0.0	0.4	0	.	.	none	.	SMG1	401	.	NM_015092	exon16	c.C2213T	p.A738V	ACAGCTGCTTCCA	.	PASS	Atlas-SNP
TMEM72	643236	hgsc.bcm.edu	37	10	45430153	45430153	+	Silent	SNP	G	G	A	rs17157262	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	80.0	38.0	67.0	0.0	0.475	0	G|0.990;A|0.010	0.010	strong	.	TMEM72	25	.	NM_001123376	exon5	c.G399A	p.R133R	CAAGCGGAAGAAG	.	PASS	Atlas-SNP
MICAL2	9645	hgsc.bcm.edu	37	11	12281414	12281414	+	Missense_Mutation	SNP	G	G	A	rs148517207		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	141.0	53.0	108.0	0.0	0.375887	0	G|1.000;A|0.000	0.000	weak	.	MICAL2	114	.	NM_014632	exon26	c.G3304A	p.A1102T	GTGGCCGCCATTG	.	PASS	Atlas-SNP
TRPC4AP	26133	hgsc.bcm.edu	37	20	33665969	33665969	+	Silent	SNP	C	C	T	rs139800499	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	77.0	32.0	83.0	0.0	0.415584	0	C|0.995;T|0.005	0.005	strong	.	TRPC4AP	64	.	NM_199368	exon2	c.G177A	p.E59E	AAAAGTCTCAGTG	.	PASS	Atlas-SNP
DENND5B	160518	hgsc.bcm.edu	37	12	31600503	31600503	+	Missense_Mutation	SNP	T	T	C	rs34129725	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	152.0	69.0	109.0	0.0	0.453947	0	T|0.995;C|0.005	0.005	strong	.	DENND5B	114	.	NM_144973	exon6	c.A1830G	p.I610M	CTGATATATAGAT	.	PASS	Atlas-SNP
ZNF596	169270	hgsc.bcm.edu	37	8	194695	194695	+	Missense_Mutation	SNP	C	C	A	rs148383942	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	219.0	117.0	212.0	1.0	0.534247	0.00471698	C|0.997;A|0.003	0.003	strong	.	ZNF596	34	.	NM_173539	exon5	c.C300A	p.S100R	CATCAGCACAATG	.	PASS	Atlas-SNP
TMEM230	29058	hgsc.bcm.edu	37	20	5086918	5086918	+	Silent	SNP	G	G	A	rs147693982	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	94.0	53.0	93.0	0.0	0.56383	0	G|0.990;A|0.010	0.010	strong	.	.	.	.	NM_001009923	exon4	c.C327T	p.I109I	AAGTGCGATGGCC	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26422651	26422651	+	Silent	SNP	G	G	A	rs199593757	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	86.0	48.0	66.0	0.0	0.55814	0	G|0.993;A|0.007	0.007	strong	.	MYO18B	322	.	NM_032608	exon43	c.G6711A	p.P2237P	ATCCCCGCTGTCG	.	PASS	Atlas-SNP
ZNF652	22834	hgsc.bcm.edu	37	17	47394516	47394516	+	Missense_Mutation	SNP	C	C	T	rs368716483		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	188.0	93.0	162.0	0.0	0.494681	0	.	.	weak	.	ZNF652	54	.	NM_001145365	exon2	c.G572A	p.R191K	CTGGTTCTCCTTT	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28459095	28459095	+	Silent	SNP	G	G	A	rs191942261	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	191.0	15.0	214.0	0.0	0.078534	0	G|0.993;A|0.007	0.007	strong	.	HERC2	501	.	NM_004667	exon42	c.C6579T	p.P2193P	GGAGTCGGGGAAG	.	PASS	Atlas-SNP
PCDHA8	56140	hgsc.bcm.edu	37	5	140222316	140222316	+	Silent	SNP	G	G	A	rs202126810	alternate_allele	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	304.0	152.0	242.0	0.0	0.5	0	G|0.999;T|0.001	.	alt	PCDHA8_ENST00000531613,rectum,carcinoma,0,2	PCDHA8	366	2	NM_031856	exon1	c.G1410A	p.P470P	CCCGCCGGGCTGC	.	PASS	Atlas-SNP
ITGA11	22801	hgsc.bcm.edu	37	15	68643659	68643659	+	Silent	SNP	G	G	A	rs61729770	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	152.0	72.0	146.0	0.0	0.473684	0	G|0.995;A|0.005	0.005	strong	.	ITGA11	110	.	NM_001004439	exon8	c.C831T	p.S277S	GTCTGGGCTGTCG	.	PASS	Atlas-SNP
DDX41	51428	hgsc.bcm.edu	37	5	176943352	176943352	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	126.0	59.0	131.0	0.0	0.468254	0	.	.	none	.	DDX41	49	.	NM_016222	exon3	c.C235G	p.L79V	GGCCTAGCGGGAT	.	PASS	Atlas-SNP
ARC	23237	hgsc.bcm.edu	37	8	143694520	143694520	+	Silent	SNP	C	C	T	rs371075422		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	53.0	23.0	32.0	0.0	0.433962	0	.	.	weak	ARC,colon,carcinoma,-2,1	ARC	34	1	NM_015193	exon1	c.G1113A	p.P371P	CTCCACCGGGAGG	.	PASS	Atlas-SNP
HRAS	3265	hgsc.bcm.edu	37	11	534242	534242	+	Silent	SNP	A	A	G	rs12628	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	87.0	40.0	69.0	0.0	0.45977	0	A|0.663;G|0.337	0.337	strong	HRAS,arm,benign_melanocytic_nevus,0,26	HRAS	1232	26	NM_001130442	exon2	c.T81C	p.H27H	CACAAAATGGTTC	.	PASS	Atlas-SNP
NLRC4	58484	hgsc.bcm.edu	37	2	32463365	32463365	+	Missense_Mutation	SNP	C	C	A	rs149451729	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	83.0	37.0	102.0	0.0	0.445783	0	C|0.997;A|0.003	0.003	strong	.	NLRC4	165	.	NM_001199138	exon6	c.G2357T	p.G786V	TTCAGGCCTTCAG	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28459325	28459325	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	104.0	5.0	90.0	1.0	0.0480769	0.0111111	.	.	none	HERC2,NS,carcinoma,0,2	HERC2	501	2	NM_004667	exon41	c.G6452A	p.R2151H	AGCGTGCGCAGCA	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506693	195506693	+	Missense_Mutation	SNP	G	G	A	rs146525749	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	130.0	129.0	1.0	0.0	0.992308	0	G|0.995;A|0.005	0.005	strong	MUC4_ENST00000463781,NS,carcinoma,+1,1	MUC4	1505	1	NM_018406	exon2	c.C11758T	p.R3920C	GAAGACGGGTGGT	.	PASS	Atlas-SNP
KRTAP5-4	387267	hgsc.bcm.edu	37	11	1643255	1643255	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	154.0	8.0	89.0	1.0	0.0519481	0.011236	.	.	none	KRTAP5-4,NS,carcinoma,0,1	KRTAP5-4	78	1	NM_001012709	exon1	c.C69T	p.G23G	GCCACAGCCCCCA	.	scavenged	Atlas-SNP
CUL4A	8451	hgsc.bcm.edu	37	13	113882307	113882307	+	Missense_Mutation	SNP	T	T	C	rs113697945	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	50.0	37.0	46.0	0.0	0.74	0	T|0.995;C|0.005	0.005	strong	.	CUL4A	50	.	NM_001008895	exon4	c.T386C	p.V129A	ATAGTGTTTTATT	.	PASS	Atlas-SNP
PLCH2	9651	hgsc.bcm.edu	37	1	2436256	2436256	+	Silent	SNP	G	G	A	rs138038983	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	110.0	6.0	78.0	0.0	0.0545455	0	G|0.983;A|0.017	0.017	strong	.	PLCH2	131	.	NM_014638	exon22	c.G3855A	p.G1285G	GGGAGGGACACGG	.	PASS	Atlas-SNP
RRP12	23223	hgsc.bcm.edu	37	10	99126513	99126513	+	Silent	SNP	C	C	T	rs45527941	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	62.0	36.0	38.0	0.0	0.580645	0	C|0.962;T|0.038	0.038	strong	.	RRP12	97	.	NM_015179	exon27	c.G3201A	p.Q1067Q	TTTGCCCTGGGCG	.	PASS	Atlas-SNP
NOTCH2	4853	hgsc.bcm.edu	37	1	120458161	120458161	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	125.0	51.0	104.0	0.0	0.408	0	.	.	none	.	NOTCH2	348	.	NM_024408	exon34	c.C7184G	p.S2395X	GCATTTGAGGAAG	.	PASS	Atlas-SNP
CIB2	10518	hgsc.bcm.edu	37	15	78398139	78398139	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	63.0	27.0	66.0	0.0	0.428571	0	.	.	none	.	CIB2	24	.	NM_006383	exon5	c.G484A	p.G162S	GCTTGCCGTCACC	.	PASS	Atlas-SNP
TAF3	83860	hgsc.bcm.edu	37	10	8007260	8007260	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	74.0	41.0	84.0	0.0	0.554054	0	.	.	none	.	TAF3	93	.	NM_031923	exon3	c.A1787C	p.E596A	AATTTGAAGATGT	.	PASS	Atlas-SNP
OR5B21	219968	hgsc.bcm.edu	37	11	58275303	58275303	+	Silent	SNP	G	G	A	rs146345059	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	118.0	54.0	134.0	1.0	0.457627	0.00746269	G|0.999;A|0.001	0.001	strong	OR5B21,rectum,NS,0,1	OR5B21	59	1	NM_001005218	exon1	c.C276T	p.Y92Y	TCCATCGTAGGAG	.	scavenged	Atlas-SNP
SERTAD4	56256	hgsc.bcm.edu	37	1	210415626	210415626	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	90.0	34.0	66.0	0.0	0.377778	0	.	.	none	.	SERTAD4	53	.	NM_019605	exon4	c.A1015C	p.K339Q	CGGAAAAAGGAGG	.	PASS	Atlas-SNP
DBC1	1620	hgsc.bcm.edu	37	9	121929932	121929932	+	Silent	SNP	C	C	T	rs147029533	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	86.0	41.0	87.0	0.0	0.476744	0	C|0.994;T|0.006	0.006	strong	DBC1,NS,carcinoma,-2,1	DBC1	194	1	NM_014618	exon8	c.G1716A	p.S572S	GCCCTCCGAATGG	.	PASS	Atlas-SNP
C16orf70	80262	hgsc.bcm.edu	37	16	67166731	67166731	+	Missense_Mutation	SNP	G	G	A	rs34017457	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	134.0	60.0	190.0	0.0	0.447761	0	G|0.994;A|0.006	0.006	strong	.	C16orf70	38	.	NM_025187	exon6	c.G367A	p.A123T	AACTCCGCTGAGC	.	PASS	Atlas-SNP
MRPL4	51073	hgsc.bcm.edu	37	19	10370310	10370310	+	Missense_Mutation	SNP	A	A	G	rs77884668	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	74.0	40.0	71.0	0.0	0.540541	0	A|0.984;G|0.016	0.016	strong	.	MRPL4	22	.	NM_146387	exon10	c.A757G	p.M253V	CACAGCATGCTCA	.	PASS	Atlas-SNP
AGPS	8540	hgsc.bcm.edu	37	2	178364363	178364363	+	Silent	SNP	A	A	C	rs148418568	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	23.0	6.0	32.0	0.0	0.26087	0	A|1.000;C|0.000	0.000	strong	.	AGPS	56	.	NM_003659	exon14	c.A1380C	p.P460P	TGACCCAAATCAG	.	PASS	Atlas-SNP
CAD	790	hgsc.bcm.edu	37	2	27447310	27447310	+	Silent	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	90.0	40.0	88.0	0.0	0.444444	0	.	.	none	CAD,NS,carcinoma,+2,1	CAD	199	1	NM_004341	exon9	c.G1206A	p.G402G	CTCAGGGGGCCTC	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134682833	134682833	+	Missense_Mutation	SNP	C	C	T	rs149742494	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	57.0	34.0	34.0	0.0	0.596491	0	C|0.994;T|0.006	0.006	strong	.	TTC40	100	.	NM_001200049	exon33	c.G4555A	p.A1519T	GGCGCGCGGCTGC	.	PASS	Atlas-SNP
SAMD9	54809	hgsc.bcm.edu	37	7	92730687	92730687	+	Missense_Mutation	SNP	C	C	T	rs148724199	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	64.0	28.0	66.0	0.0	0.4375	0	C|0.999;T|0.001	0.001	strong	.	SAMD9	239	.	NM_001193307	exon2	c.G4724A	p.G1575E	GAAAATCCCAGGT	.	PASS	Atlas-SNP
TRMU	55687	hgsc.bcm.edu	37	22	46733831	46733831	+	Missense_Mutation	SNP	G	G	A	rs55952751	bycluster;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	92.0	32.0	124.0	0.0	0.347826	0	G|0.999;A|0.001	0.001	strong	.	TRMU	23	.	NM_018006	exon2	c.G238A	p.D80N	TGGAATGATGTGT	.	PASS	Atlas-SNP
KCTD2	23510	hgsc.bcm.edu	37	17	73058249	73058249	+	Missense_Mutation	SNP	A	A	G	rs61750318	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	239.0	95.0	195.0	0.0	0.39749	0	A|0.999;G|0.001	0.001	strong	.	KCTD2	15	.	NM_015353	exon5	c.A671G	p.N224S	ACGGCAATGAGGA	.	PASS	Atlas-SNP
SLC12A8	84561	hgsc.bcm.edu	37	3	124829057	124829057	+	Silent	SNP	A	A	G	rs11714448	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	72.0	24.0	67.0	0.0	0.333333	0	A|0.986;G|0.013	0.013	strong	.	SLC12A8	81	.	NM_024628	exon9	c.T1035C	p.P345P	AAGTGCAGGGATC	.	PASS	Atlas-SNP
ANAPC16	119504	hgsc.bcm.edu	37	10	73992862	73992862	+	Silent	SNP	C	C	G	rs9275	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	40.0	24.0	39.0	0.0	0.6	0	G|0.064;C|0.936	0.064	strong	.	ANAPC16	10	.	NM_001242546	exon5	c.C321G	p.P107P	CACCCCCTCTTCA	.	PASS	Atlas-SNP
SCN8A	6334	hgsc.bcm.edu	37	12	52200499	52200499	+	Silent	SNP	C	C	A	rs370268493		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	163.0	96.0	177.0	0.0	0.588957	0	.	.	weak	.	SCN8A	331	.	NM_014191	exon27	c.C5229A	p.I1743I	GGGCATCTTCTTC	.	PASS	Atlas-SNP
GALNT4	8693	hgsc.bcm.edu	37	12	89917349	89917349	+	Silent	SNP	C	C	T	rs200228838	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	290.0	141.0	275.0	0.0	0.486207	0	C|0.996;T|0.004	0.004	strong	.	GALNT4	38	.	NM_003774	exon1	c.G978A	p.T326T	GTCATACGTTCCA	.	PASS	Atlas-SNP
BRAF	673	hgsc.bcm.edu	37	7	140477811	140477811	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	70.0	26.0	54.0	0.0	0.371429	0	.	.	none	.	BRAF	36346	.	NM_004333	exon12	c.A1497T	p.K499N	TTCATTTTTGAAG	.	PASS	Atlas-SNP
FAM126B	285172	hgsc.bcm.edu	37	2	201846180	201846180	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	132.0	63.0	127.0	0.0	0.477273	0	.	.	none	FAM126B,NS,carcinoma,-1,1	FAM126B	34	1	NM_173822	exon12	c.T1406C	p.I469T	ACCCCAATGCTGG	.	PASS	Atlas-SNP
CNTNAP3	79937	hgsc.bcm.edu	37	9	39149904	39149904	+	Silent	SNP	G	G	A	rs200999166	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	1008.0	254.0	816.0	0.0	0.251984	0	G|0.999;A|0.001	0.001	weak	.	CNTNAP3	82	.	NM_033655	exon10	c.C1548T	p.L516L	GGTGATGAGCCTT	.	PASS	Atlas-SNP
TYRO3	7301	hgsc.bcm.edu	37	15	41862356	41862356	+	Splice_Site	SNP	T	T	C	rs149022093		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	119.0	8.0	110.0	0.0	0.0672269	0	.	.	weak	TYRO3_ENST00000263798,NS,carcinoma,0,2	TYRO3	169	2	NM_006293	exon10	c.1382+2T>C	.	TTTGGGTAAGGGG	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134680995	134680995	+	Missense_Mutation	SNP	C	C	T	rs150661681	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	123.0	55.0	128.0	0.0	0.447154	0	C|0.993;T|0.007	0.007	strong	.	TTC40	100	.	NM_001200049	exon34	c.G4627A	p.A1543T	TCAACGCGATCTC	.	PASS	Atlas-SNP
FCHSD1	89848	hgsc.bcm.edu	37	5	141021108	141021108	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	112.0	62.0	90.0	0.0	0.553571	0	.	.	none	.	FCHSD1	51	.	NM_033449	exon20	c.C2030T	p.P677L	TTAGCCGGCGGGG	.	PASS	Atlas-SNP
GALNT3	2591	hgsc.bcm.edu	37	2	166621413	166621413	+	Silent	SNP	C	C	T	rs13423840	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	269.0	117.0	232.0	1.0	0.434944	0.00431034	C|0.987;T|0.013	0.013	strong	.	GALNT3	65	.	NM_004482	exon3	c.G669A	p.V223V	ATCATCCACCAAA	.	PASS	Atlas-SNP
KCNQ4	9132	hgsc.bcm.edu	37	1	41289831	41289831	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	44.0	39.0	45.0	0.0	0.886364	0	.	.	none	.	KCNQ4	58	.	NM_004700	exon9	c.A1193G	p.E398G	CCCTGGAGGTGCG	.	PASS	Atlas-SNP
GBGT1	26301	hgsc.bcm.edu	37	9	136029645	136029645	+	Nonsense_Mutation	SNP	G	G	T	rs35898523	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	28.0	13.0	20.0	0.0	0.464286	0	G|0.941;T|0.059	0.059	strong	GBGT1,NS,carcinoma,-2,1	GBGT1	25	1	NM_021996	exon7	c.C363A	p.Y121X	ATGAGTGTACCTA	.	PASS	Atlas-SNP
ARSE	415	hgsc.bcm.edu	37	X	2852957	2852957	+	Silent	SNP	C	C	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	144.0	143.0	138.0	0.0	0.993056	0	.	.	none	.	ARSE	43	.	NM_000047	exon11	c.G1686C	p.L562L	GTTGCCCAGCCTG	.	PASS	Atlas-SNP
SLC2A6	11182	hgsc.bcm.edu	37	9	136341407	136341407	+	Missense_Mutation	SNP	T	T	C	rs147872568	bycluster;byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	69.0	30.0	50.0	0.0	0.434783	0	T|1.000;C|0.000	0.000	strong	.	SLC2A6	31	.	NM_017585	exon4	c.A514G	p.T172A	GGGGTGTGGCCCC	.	PASS	Atlas-SNP
PGC	5225	hgsc.bcm.edu	37	6	41704716	41704716	+	Silent	SNP	G	G	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	104.0	53.0	118.0	0.0	0.509615	0	.	.	none	.	PGC	56	.	NM_002630	exon9	c.C1041A	p.V347V	GGGCTCGACTCCC	.	PASS	Atlas-SNP
ERCC6	2074	hgsc.bcm.edu	37	10	50678544	50678544	+	Silent	SNP	A	A	C	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	156.0	58.0	142.0	1.0	0.371795	0.00704225	.	.	none	ERCC6,NS,haematopoietic_neoplasm,-1,1	ERCC6	162	1	NM_000124	exon18	c.C3462G	p.A1154A	TTTGTAAGAAAGA	.	scavenged	Atlas-SNP
ADAMTSL3	57188	hgsc.bcm.edu	37	15	84611805	84611805	+	Missense_Mutation	SNP	C	C	T	rs61752778	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	65.0	33.0	91.0	0.0	0.507692	0	C|0.988;T|0.012	0.012	strong	.	ADAMTSL3	290	.	NM_207517	exon19	c.C2461T	p.P821S	TGTCCTCCACATT	.	PASS	Atlas-SNP
ADRA2C	152	hgsc.bcm.edu	37	4	3769573	3769573	+	Missense_Mutation	SNP	G	G	C	rs370580020	alternate_allele	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	77.0	35.0	72.0	0.0	0.454545	0	.	.	alt	.	ADRA2C	24	.	NM_000683	exon1	c.G1240C	p.V414L	TGCCAGGTGCCCG	.	PASS	Atlas-SNP
PRPF18	8559	hgsc.bcm.edu	37	10	13642257	13642257	+	Missense_Mutation	SNP	A	A	G	rs142307573	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	53.0	22.0	65.0	0.0	0.415094	0	A|0.998;G|0.002	0.002	strong	.	PRPF18	32	.	NM_003675	exon3	c.A158G	p.E53G	CAAAAGAGGAGGA	.	PASS	Atlas-SNP
PHC2	1912	hgsc.bcm.edu	37	1	33820515	33820515	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	98.0	93.0	72.0	0.0	0.94898	0	.	.	none	.	PHC2	78	.	NM_198040	exon7	c.G1316C	p.G439A	GGCACGCCCTCGG	.	PASS	Atlas-SNP
NPR2	4882	hgsc.bcm.edu	37	9	35806500	35806500	+	Silent	SNP	C	C	T	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	102.0	54.0	99.0	0.0	0.529412	0	.	.	none	.	NPR2	162	.	NM_003995	exon16	c.C2484T	p.R828R	AAAACGCAAGGCT	.	PASS	Atlas-SNP
ZHX2	22882	hgsc.bcm.edu	37	8	123964819	123964819	+	Missense_Mutation	SNP	G	G	A	rs9649951	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	130.0	56.0	121.0	0.0	0.430769	0	G|0.974;A|0.026	0.026	strong	.	ZHX2	106	.	NM_014943	exon3	c.G1069A	p.V357M	ACAAAGGTGACGC	.	PASS	Atlas-SNP
TRAPPC12	51112	hgsc.bcm.edu	37	2	3392021	3392021	+	Silent	SNP	C	C	T	rs140551015	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	58.0	24.0	11.0	0.0	0.413793	0	C|0.991;T|0.009	0.009	strong	.	.	.	.	NM_016030	exon2	c.C627T	p.F209F	CACGTTCTTCGGA	.	PASS	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1054267	1054267	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	25.0	13.0	26.0	0.0	0.52	0	.	.	none	.	ABCA7	174	.	NM_019112	exon27	c.G3653A	p.R1218H	TGACCCGCCAGCA	.	PASS	Atlas-SNP
LETM1	3954	hgsc.bcm.edu	37	4	1824020	1824020	+	Missense_Mutation	SNP	C	C	T	rs28681468	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	110.0	53.0	129.0	0.0	0.481818	0	C|0.980;T|0.020	0.020	strong	.	LETM1	48	.	NM_012318	exon10	c.G1496A	p.R499H	ACCACACGTTCGG	.	PASS	Atlas-SNP
LOXHD1	125336	hgsc.bcm.edu	37	18	44157764	44157764	+	Missense_Mutation	SNP	C	C	A	rs34589386	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	73.0	39.0	76.0	0.0	0.534247	0	C|0.983;A|0.017	0.017	strong	.	LOXHD1	367	.	NM_144612	exon14	c.G1876T	p.G626C	CTTTGCCATCGTG	.	PASS	Atlas-SNP
HIST1H1B	3009	hgsc.bcm.edu	37	6	27835055	27835055	+	Silent	SNP	G	G	A	rs116008322	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	157.0	82.0	152.0	0.0	0.522293	0	G|0.982;A|0.018	0.018	strong	.	HIST1H1B	54	.	NM_005322	exon1	c.C253T	p.L85L	GGCCCAGCTTAAT	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134671148	134671148	+	Missense_Mutation	SNP	C	C	T	rs144154094	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	123.0	55.0	127.0	0.0	0.447154	0	C|0.988;T|0.012	0.012	strong	.	TTC40	100	.	NM_001200049	exon39	c.G5520A	p.M1840I	CTCAGCCATGGCG	.	PASS	Atlas-SNP
SNX25	83891	hgsc.bcm.edu	37	4	186283092	186283092	+	Missense_Mutation	SNP	C	C	T	rs34120554	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	30.0	13.0	47.0	0.0	0.433333	0	C|0.993;T|0.007	0.007	strong	.	SNX25	100	.	NM_031953	exon17	c.C2174T	p.T725I	GGGACACAGTCAG	.	PASS	Atlas-SNP
ACAD11	84129	hgsc.bcm.edu	37	3	132337477	132337477	+	Splice_Site	SNP	C	C	A	rs41272317	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	153.0	66.0	136.0	2.0	0.431373	0.0147059	A|0.027;C|0.973;T|0.000	0.027	strong	ACAD11,NS,carcinoma,0,1	ACAD11	78	1	NM_032169	exon12	c.1414+1G>T	.	TAGTAACCTGGTG	.	scavenged	Atlas-SNP
WIPI2	26100	hgsc.bcm.edu	37	7	5257639	5257639	+	Silent	SNP	G	G	A	rs147063855	byfrequency	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	171.0	84.0	130.0	0.0	0.491228	0	G|0.999;A|0.001	0.001	strong	WIPI2,NS,carcinoma,+1,1	WIPI2	41	1	NM_015610	exon7	c.G663A	p.S221S	GGCTTCGGAGAAG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179447755	179447755	+	Silent	SNP	G	G	A	rs72646867	bycluster	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	187.0	84.0	159.0	0.0	0.449198	0	G|0.999;A|0.001	0.001	weak	.	TTN	18412	.	NM_001267550	exon313	c.C65775T	p.S21925S	GTTCACGCTGAAT	.	PASS	Atlas-SNP
SPATC1	375686	hgsc.bcm.edu	37	8	145095328	145095328	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	90.0	53.0	69.0	0.0	0.588889	0	.	.	none	.	SPATC1	77	.	NM_001134374	exon2	c.T730A	p.S244T	CCCCAGTCCCCAG	.	PASS	Atlas-SNP
POU4F3	5459	hgsc.bcm.edu	37	5	145719368	145719368	+	Silent	SNP	G	G	A	rs113137300	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	59.0	29.0	44.0	0.0	0.491525	0	G|0.997;A|0.003	0.003	strong	.	POU4F3	47	.	NM_002700	exon2	c.G378A	p.T126T	GCCCACGCTGAGT	.	PASS	Atlas-SNP
CCDC74A	90557	hgsc.bcm.edu	37	2	132290912	132290912	+	Missense_Mutation	SNP	G	G	A	rs140033985	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	255.0	118.0	272.0	1.0	0.462745	0.00367647	G|0.991;A|0.009	0.009	strong	.	CCDC74A	44	.	NM_138770	exon8	c.G1078A	p.E360K	TTTGCCGAGAGGC	.	PASS	Atlas-SNP
CAPS	828	hgsc.bcm.edu	37	19	5914470	5914470	+	Missense_Mutation	SNP	G	G	A	rs143117009	bycluster;byfrequency;by1000genomes	TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	104.0	52.0	112.0	0.0	0.5	0	G|0.988;A|0.012	0.012	strong	.	CAPS	14	.	NM_080590	exon2	c.G53A	p.R18H	TGTCCCGCGGGGC	.	PASS	Atlas-SNP
ZC3HC1	51530	hgsc.bcm.edu	37	7	129663533	129663533	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6906-01A-11D-2210-10	TCGA-G8-6906-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	3d6aae99-3cf5-4e45-b65e-409ed0ddf21b	36d604db-0d58-48bc-af48-e938df529253	74.0	27.0	63.0	0.0	0.364865	0	.	.	none	ZC3HC1,NS,carcinoma,0,1	ZC3HC1	45	1	NM_016478	exon8	c.C1051T	p.R351X	GAGTTCGAGAGAC	.	PASS	Atlas-SNP