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
ZC3H4	23211	hgsc.bcm.edu	37	19	47575929	47575931	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	65.0	13.0	70.0	0.0	0.2	0	.	.	none	.	ZC3H4	96	.	NM_015168	exon12	c.1481_1483del	p.494_495del	.	.	PASS	Atlas-Indel
ALDH5A1	7915	hgsc.bcm.edu	37	6	24522996	24523012	+	Frame_Shift_Del	DEL	CTTGTGTTTGCTCAAAC	CTTGTGTTTGCTCAAAC	-	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	CTTGTGTTTGCTCAAAC	CTTGTGTTTGCTCAAAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	108.0	30.0	179.0	0.0	0.278	.	.	.	none	.	ALDH5A1	42	.	NM_170740	exon8	c.1054_1070del	p.352_357del	.	.	PASS	Pindel,Atlas-Indel
PSMB2	5690	hgsc.bcm.edu	37	1	36101985	36101986	+	Frame_Shift_Del	DEL	AC	AC	-	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	181.0	54.0	247.0	0.0	0.298	.	.	.	none	.	PSMB2	9	.	NM_002794	exon2	c.140_141del	p.47_47del	.	.	PASS	Pindel,Atlas-Indel
C7orf55-LUC7L2	100996928	hgsc.bcm.edu	37	7	139102385	139102385	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	59.0	32.0	81.0	0.0	0.542	.	.	.	none	.	.	.	.	NM_001244584	exon10	c.1108delA	p.R370fs	.	.	PASS	Pindel,Atlas-Indel
TENC1	23371	hgsc.bcm.edu	37	12	53454755	53454756	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	76.0	18.0	53.0	0.0	0.237	.	.	.	none	.	TENC1	148	.	NM_015319	exon20	c.3095_3096insC	p.G1032fs	.	.	PASS	Pindel,Atlas-Indel
CCDC108	255101	hgsc.bcm.edu	37	2	219883882	219883883	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	94.0	30.0	91.0	0.0	0.319	.	.	.	none	.	CCDC108	208	.	NM_194302	exon21	c.3493_3494insC	p.V1165fs	.	.	PASS	Pindel,Atlas-Indel
EZR	7430	hgsc.bcm.edu	37	6	159188112	159188113	+	Splice_Site	DEL	TG	TG	-	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	111.0	52.0	191.0	0.0	0.468	.	.	.	none	.	EZR	44	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
MBD3L1	85509	hgsc.bcm.edu	37	19	8953842	8953845	+	Frame_Shift_Del	DEL	CAGT	CAGT	-	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	CAGT	CAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	70.0	16.0	58.0	0.0	0.229	.	.	.	none	.	MBD3L1	24	.	NM_145208	exon1	c.487_490del	p.163_164del	.	.	PASS	Pindel,Atlas-Indel
HIST1H2BJ	8970	hgsc.bcm.edu	37	6	27100189	27100219	+	Frame_Shift_Del	DEL	TCGGACACGGCGTGCTTGGCCAACTCCCCAG	TCGGACACGGCGTGCTTGGCCAACTCCCCAG	-	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	TCGGACACGGCGTGCTTGGCCAACTCCCCAG	TCGGACACGGCGTGCTTGGCCAACTCCCCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	72.0	13.0	99.0	0.0	0.181	.	.	.	none	HIST1H2BJ,NS,malignant_melanoma,-2,3	HIST1H2BJ	21	3	NM_021058	exon1	c.312_342del	p.104_114del	.	.	PASS	Pindel
XRCC5	7520	hgsc.bcm.edu	37	2	216983663	216983769	+	In_Frame_Del	DEL	AGATCCATTTCTAAGCTTCTCTCCTCAGTGACCAAGTGTATTTGAATTTGTAGAAAAATAATTCAGGAGAATGATTTCTTAATATGATAACTCTCTCTTTTAGAGGA	AGATCCATTTCTAAGCTTCTCTCCTCAGTGACCAAGTGTATTTGAATTTGTAGAAAAATAATTCAGGAGAATGATTTCTTAATATGATAACTCTCTCTTTTAGAGGA	-	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	AGATCCATTTCTAAGCTTCTCTCCTCAGTGACCAAGTGTATTTGAATTTGTAGAAAAATAATTCAGGAGAATGATTTCTTAATATGATAACTCTCTCTTTTAGAGGA	AGATCCATTTCTAAGCTTCTCTCCTCAGTGACCAAGTGTATTTGAATTTGTAGAAAAATAATTCAGGAGAATGATTTCTTAATATGATAACTCTCTCTTTTAGAGGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	136.0	37.0	178.0	0.0	0.272	.	.	.	none	.	XRCC5	64	.	NM_021141	exon5	c.369_371del	p.123_124del	.	.	PASS	Pindel
TFDP3	51270	hgsc.bcm.edu	37	X	132351082	132351082	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	52.0	41.0	115.0	0.0	0.788462	0	.	.	none	.	TFDP3	92	.	NM_016521	exon1	c.C1206T	p.D402D	ATCCTCGTCATTC	.	PASS	Atlas-SNP
SCNN1G	6340	hgsc.bcm.edu	37	16	23200702	23200702	+	Missense_Mutation	SNP	G	G	A	rs147276737	bycluster	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	25.0	13.0	27.0	0.0	0.52	0	G|1.000;A|0.000	0.000	weak	.	SCNN1G	82	.	NM_001039	exon3	c.G328A	p.V110I	AGCACCGTTCGCC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195518119	195518119	+	Missense_Mutation	SNP	A	A	T	rs201789760	bycluster	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	1321.0	97.0	166.0	0.0	0.0734292	0	.	.	weak	.	MUC4	1505	.	NM_018406	exon2	c.T332A	p.M111K	GTCTCCATCACAT	.	PASS	Atlas-SNP
SEMA6D	80031	hgsc.bcm.edu	37	15	48062799	48062799	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	173.0	141.0	258.0	1.0	0.815029	0.00387597	.	.	none	SEMA6D_ENST00000558014,NS,adenocarcinoma,0,2	SEMA6D	322	2	NM_153618	exon19	c.G2039C	p.G680A	TTGCAGGTGTGGC	.	PASS	Atlas-SNP
C6orf211	79624	hgsc.bcm.edu	37	6	151789707	151789707	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	194.0	154.0	353.0	0.0	0.793814	0	.	.	none	.	C6orf211	30	.	NM_024573	exon5	c.T788A	p.L263X	CAGATTTAATATT	.	PASS	Atlas-SNP
EXOC7	23265	hgsc.bcm.edu	37	17	74093984	74093984	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	120.0	45.0	77.0	0.0	0.375	0	.	.	none	.	EXOC7	47	.	NM_001145298	exon5	c.A533T	p.D178V	AGATCATCGTCAC	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	37	17	41234477	41234477	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	113.0	67.0	135.0	0.0	0.59292	0	.	.	none	BRCA1,colon,carcinoma,+1,1	BRCA1	304	1	NM_007300	exon12	c.G4301A	p.S1434N	GAGTCACTTATGA	.	PASS	Atlas-SNP
COL21A1	81578	hgsc.bcm.edu	37	6	55939040	55939040	+	Missense_Mutation	SNP	G	G	T	rs368711091	alternate_allele	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	204.0	69.0	123.0	0.0	0.338235	0	.	.	alt	.	COL21A1	201	.	NM_030820	exon20	c.C1955A	p.P652Q	GATCCCGGTGTTC	.	PASS	Atlas-SNP
SPATA17	128153	hgsc.bcm.edu	37	1	217915347	217915347	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	37.0	34.0	44.0	0.0	0.918919	0	.	.	none	.	SPATA17	59	.	NM_138796	exon6	c.A426T	p.K142N	AATGAAAGAAAGA	.	PASS	Atlas-SNP
SMCR8	140775	hgsc.bcm.edu	37	17	18220580	18220580	+	Missense_Mutation	SNP	C	C	T	rs113043428		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	29.0	24.0	53.0	0.0	0.827586	0	C|0.500;T|0.500	0.500	weak	.	SMCR8	62	.	NM_144775	exon1	c.C1477T	p.L493F	GCAAGCCTCACAG	.	PASS	Atlas-SNP
CXorf22	170063	hgsc.bcm.edu	37	X	35970007	35970007	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	782.0	311.0	876.0	0.0	0.397698	0	.	.	none	.	CXorf22	272	.	NM_152632	exon6	c.A973T	p.I325F	ATCATTATCTCCT	.	PASS	Atlas-SNP
GAL3ST3	89792	hgsc.bcm.edu	37	11	65810612	65810612	+	Missense_Mutation	SNP	G	G	T	rs35285455	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	67.0	19.0	87.0	0.0	0.283582	0	G|0.983;T|0.017	0.017	strong	GAL3ST3,rectum,carcinoma,0,3	GAL3ST3	40	3	NM_033036	exon3	c.C662A	p.A221D	TAGGCGGCGTCGT	.	PASS	Atlas-SNP
CARD11	84433	hgsc.bcm.edu	37	7	2983971	2983971	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	260.0	106.0	190.0	1.0	0.407692	0.00526316	.	.	none	CARD11,NS,carcinoma,0,1	CARD11	339	1	NM_032415	exon5	c.C559T	p.R187W	TGTCCCGCTCTTC	.	scavenged	Atlas-SNP
QARS	5859	hgsc.bcm.edu	37	3	49136098	49136098	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	58.0	14.0	53.0	0.0	0.241379	0	.	.	none	.	QARS	55	.	NM_005051	exon20	c.G1891T	p.A631S	CCCAAGCCAGGCG	.	PASS	Atlas-SNP
OR10A4	283297	hgsc.bcm.edu	37	11	6898788	6898788	+	Missense_Mutation	SNP	C	C	T	rs146085036	bycluster;by1000genomes	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	44.0	26.0	75.0	0.0	0.590909	0	C|1.000;T|0.000	0.000	strong	.	OR10A4	65	.	NM_207186	exon1	c.C910T	p.R304W	CTGAAGCGGCTTA	.	PASS	Atlas-SNP
CHD3	1107	hgsc.bcm.edu	37	17	7798425	7798425	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	51.0	37.0	80.0	0.0	0.72549	0	.	.	none	.	CHD3	169	.	NM_001005271	exon9	c.T1637C	p.L546P	CTCCCCTGCCTGA	.	PASS	Atlas-SNP
NUMBL	9253	hgsc.bcm.edu	37	19	41173904	41173904	+	Silent	SNP	T	T	C	rs79658769		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	23.0	8.0	28.0	1.0	0.347826	0.0357143	C|1.000;|0.000	1.000	weak	NUMBL,colon,carcinoma,0,2	NUMBL	49	2	NM_004756	exon10	c.A1299G	p.Q433Q	TTGCTGTTGCTGC	.	scavenged	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49427324	49427324	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	38.0	25.0	42.0	0.0	0.657895	0	.	.	none	.	MLL2	1173	.	NM_003482	exon39	c.C11164T	p.Q3722X	GCAGCTGCAGCTG	.	PASS	Atlas-SNP
CD8B	926	hgsc.bcm.edu	37	2	87085358	87085358	+	Silent	SNP	G	G	A	rs139740563		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	331.0	69.0	248.0	0.0	0.208459	0	G|0.999;A|0.001	0.001	weak	.	CD8B	37	.	NM_004931	exon2	c.C225T	p.S75S	TTTTGCGGAATCC	.	PASS	Atlas-SNP
HARBI1	283254	hgsc.bcm.edu	37	11	46637180	46637180	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	125.0	75.0	142.0	0.0	0.6	0	.	.	none	.	HARBI1	19	.	NM_173811	exon2	c.T608C	p.L203P	TGCTGCAGCACAG	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29884844	29884844	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	57.0	22.0	75.0	0.0	0.385965	0	.	.	none	.	NEFH	178	.	NM_021076	exon4	c.C1215T	p.L405L	AAAACTCCTGGAA	.	PASS	Atlas-SNP
OR14I1	401994	hgsc.bcm.edu	37	1	248845140	248845140	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	138.0	27.0	107.0	0.0	0.195652	0	.	.	none	.	OR14I1	64	.	NM_001004734	exon1	c.G466A	p.V156I	TGTGGACGGCTGC	.	PASS	Atlas-SNP
UBALD2	283991	hgsc.bcm.edu	37	17	74262008	74262008	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	57.0	10.0	62.0	0.0	0.175439	0	.	.	none	.	.	.	.	NM_182565	exon2	c.C141T	p.F47F	GTTCTTCCAAGAA	.	PASS	Atlas-SNP
RAPH1	65059	hgsc.bcm.edu	37	2	204305402	204305402	+	Silent	SNP	C	C	T	rs144494517	bycluster;by1000genomes	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	78.0	15.0	40.0	0.0	0.192308	0	C|0.999;T|0.001	0.001	strong	.	RAPH1	118	.	NM_213589	exon14	c.G2511A	p.P837P	TGTTGGCGGGGGT	.	PASS	Atlas-SNP
ZNF536	9745	hgsc.bcm.edu	37	19	30934652	30934652	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	45.0	11.0	33.0	0.0	0.244444	0	.	.	none	.	ZNF536	424	.	NM_014717	exon2	c.C183T	p.P61P	GCCCCCCGCATCC	.	PASS	Atlas-SNP
CPS1	1373	hgsc.bcm.edu	37	2	211481148	211481148	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	57.0	21.0	65.0	0.0	0.368421	0	.	.	none	.	CPS1	485	.	NM_001122633	exon22	c.C2588A	p.A863D	GGCAGGCCATTGA	.	PASS	Atlas-SNP
FST	10468	hgsc.bcm.edu	37	5	52778714	52778714	+	Silent	SNP	G	G	C	rs201482393	bycluster;by1000genomes;alternate_allele	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	127.0	34.0	150.0	0.0	0.267717	0	G|1.000;T|0.000	.	alt	.	FST	42	.	NM_013409	exon2	c.G90C	p.G30G	AGCTGGGAACTGC	.	PASS	Atlas-SNP
DACH2	117154	hgsc.bcm.edu	37	X	85950135	85950135	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	678.0	152.0	332.0	0.0	0.224189	0	.	.	none	.	DACH2	263	.	NM_053281	exon5	c.G884T	p.G295V	TTGGGGGTGCTCC	.	PASS	Atlas-SNP
TRIM77	390231	hgsc.bcm.edu	37	11	89444662	89444662	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	353.0	104.0	353.0	1.0	0.294618	0.00283286	.	.	none	.	.	.	.	NM_001146162	exon2	c.G496A	p.G166R	ATAATCGGAACAT	.	PASS	Atlas-SNP
SLC16A10	117247	hgsc.bcm.edu	37	6	111543327	111543327	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	152.0	118.0	196.0	1.0	0.776316	0.00510204	.	.	none	SLC16A10,NS,carcinoma,+2,1	SLC16A10	33	1	NM_018593	exon6	c.G1437A	p.E479E	AAGAGAGATCAGT	.	PASS	Atlas-SNP
RIPK4	54101	hgsc.bcm.edu	37	21	43161043	43161043	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	105.0	57.0	48.0	0.0	0.542857	0	.	.	none	.	RIPK4	151	.	NM_020639	exon8	c.C2310T	p.G770G	ATGGCCGCCCTGG	.	PASS	Atlas-SNP
FLRT1	23769	hgsc.bcm.edu	37	11	63884662	63884662	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	65.0	34.0	85.0	0.0	0.523077	0	.	.	none	.	FLRT1	46	.	NM_013280	exon2	c.C923T	p.T308M	TGACCACGCTGCC	.	PASS	Atlas-SNP
ZNF440	126070	hgsc.bcm.edu	37	19	11941439	11941439	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	452.0	207.0	434.0	1.0	0.457965	0.00230415	.	.	none	.	ZNF440	56	.	NM_152357	exon3	c.G138T	p.R46S	AAAAAGGTGGAAA	.	PASS	Atlas-SNP
NHS	4810	hgsc.bcm.edu	37	X	17750129	17750129	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	127.0	35.0	134.0	0.0	0.275591	0	.	.	none	.	NHS	302	.	NM_198270	exon8	c.G4438A	p.G1480S	TCTCCTGGTCTCA	.	PASS	Atlas-SNP
BCL11B	64919	hgsc.bcm.edu	37	14	99641823	99641823	+	Silent	SNP	C	C	T	rs375880436		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	58.0	38.0	91.0	0.0	0.655172	0	.	.	weak	.	BCL11B	108	.	NM_138576	exon4	c.G1350A	p.T450T	CTCGCCCGTGTGA	.	PASS	Atlas-SNP
DIS3L2	129563	hgsc.bcm.edu	37	2	233001289	233001289	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	160.0	61.0	139.0	0.0	0.38125	0	.	.	none	.	DIS3L2	77	.	NM_152383	exon8	c.C810T	p.P270P	TTCTCCCTCAGAC	.	PASS	Atlas-SNP
CD320	51293	hgsc.bcm.edu	37	19	8369939	8369939	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	26.0	9.0	15.0	0.0	0.346154	0	.	.	none	.	CD320	20	.	NM_016579	exon2	c.G244C	p.D82H	TGCCATCGCTGCA	.	PASS	Atlas-SNP
PARP12	64761	hgsc.bcm.edu	37	7	139734083	139734083	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	100.0	36.0	116.0	0.0	0.36	0	.	.	none	.	PARP12	59	.	NM_022750	exon8	c.G1373A	p.R458H	GGTCTGCGGCAAA	.	PASS	Atlas-SNP
IL6	3569	hgsc.bcm.edu	37	7	22767218	22767218	+	Missense_Mutation	SNP	T	T	C	rs201822486		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	132.0	80.0	53.0	0.0	0.606061	0	.	.	weak	.	IL6	30	.	NM_000600	exon2	c.T175C	p.Y59H	ATTCGGTACATCC	.	PASS	Atlas-SNP
MAGT1	84061	hgsc.bcm.edu	37	X	77112935	77112935	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	146.0	16.0	182.0	0.0	0.109589	0	.	.	none	.	MAGT1	51	.	NM_032121	exon4	c.G546A	p.R182R	ATCACCCCGTTTG	.	PASS	Atlas-SNP
MAP1B	4131	hgsc.bcm.edu	37	5	71495764	71495764	+	Silent	SNP	G	G	A	rs368060624		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	56.0	23.0	53.0	0.0	0.410714	0	.	.	weak	.	MAP1B	243	.	NM_005909	exon5	c.G6582A	p.T2194T	TGTCACGTACAAA	.	PASS	Atlas-SNP
SMG5	23381	hgsc.bcm.edu	37	1	156221239	156221239	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	128.0	24.0	118.0	0.0	0.1875	0	.	.	none	.	SMG5	98	.	NM_015327	exon20	c.A2783G	p.K928R	AAGCTCTTTCCCA	.	PASS	Atlas-SNP
KCNJ8	3764	hgsc.bcm.edu	37	12	21918851	21918851	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	164.0	9.0	275.0	0.0	0.054878	0	.	.	none	.	KCNJ8	59	.	NM_004982	exon3	c.A1081C	p.K361Q	AAGGTTTCTCATC	.	PASS	Atlas-SNP
RGS14	10636	hgsc.bcm.edu	37	5	176795190	176795190	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	65.0	10.0	33.0	0.0	0.153846	0	.	.	none	.	RGS14	34	.	NM_006480	exon8	c.C772T	p.R258X	TTGCGCCGAGAGT	.	PASS	Atlas-SNP
ADAMTS20	80070	hgsc.bcm.edu	37	12	43846488	43846488	+	Missense_Mutation	SNP	C	C	T	rs375621283		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	86.0	41.0	76.0	0.0	0.476744	0	.	.	weak	ADAMTS20_ENST00000389420,NS,malignant_melanoma,0,4	ADAMTS20	635	4	NM_025003	exon13	c.G1771A	p.G591R	TTCCTCCGTTTCT	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141805676	141805676	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	122.0	44.0	161.0	0.0	0.360656	0	.	.	none	.	MGAM	767	.	NM_004668	exon48	c.G5559T	p.W1853C	GACGTGGATAAGC	.	PASS	Atlas-SNP
PIK3CG	5294	hgsc.bcm.edu	37	7	106523531	106523531	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	70.0	30.0	80.0	0.0	0.428571	0	.	.	none	.	PIK3CG	279	.	NM_002649	exon8	c.A2683G	p.T895A	CAAAGCACAGTGG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9033694	9033694	+	Silent	SNP	G	G	A	rs200620444	byfrequency	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	99.0	43.0	103.0	0.0	0.434343	0	G|0.757;A|0.243	0.243	strong	.	MUC16	4315	.	NM_024690	exon9	c.C36243T	p.T12081T	GGTGATGGTGAAG	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	37	1	19403339	19403339	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	97.0	22.0	132.0	0.0	0.226804	0	.	.	none	.	UBR4	415	.	NM_020765	exon105	c.C15382T	p.R5128C	TGTGGCGGATGTA	.	PASS	Atlas-SNP
MARCO	8685	hgsc.bcm.edu	37	2	119739789	119739789	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	71.0	17.0	86.0	0.0	0.239437	0	.	.	none	MARCO,pharynx,carcinoma,-1,1	MARCO	120	1	NM_006770	exon11	c.C959A	p.A320D	CAGGTGCCAAGGG	.	PASS	Atlas-SNP
XRCC5	7520	hgsc.bcm.edu	37	2	216983862	216983862	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	222.0	99.0	243.0	1.0	0.445946	0.00411523	.	.	none	.	XRCC5	64	.	NM_021141	exon5	c.G465C	p.K155N	CTTGAAGAAATGT	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37139092	37139092	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	129.0	27.0	93.0	0.0	0.209302	0	.	.	none	.	PIM1	71	.	NM_001243186	exon4	c.C705T	p.A235A	GCTGGCCCGCAGC	.	PASS	Atlas-SNP
SEMA3C	10512	hgsc.bcm.edu	37	7	80374533	80374533	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	140.0	60.0	145.0	0.0	0.428571	0	.	.	none	.	SEMA3C	106	.	NM_006379	exon18	c.G1933T	p.A645S	CTGTAGCAATGCA	.	PASS	Atlas-SNP
MED22	6837	hgsc.bcm.edu	37	9	136213400	136213400	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	155.0	92.0	93.0	0.0	0.593548	0	.	.	none	.	MED22	13	.	NM_181491	exon2	c.G118A	p.A40T	CCTTGGCGGTCTT	.	PASS	Atlas-SNP
C6orf211	79624	hgsc.bcm.edu	37	6	151789728	151789728	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	179.0	136.0	335.0	0.0	0.759777	0	.	.	none	.	C6orf211	30	.	NM_024573	exon5	c.T809A	p.L270X	TCTTGTTGTCCTC	.	PASS	Atlas-SNP
TRIM23	373	hgsc.bcm.edu	37	5	64905170	64905170	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	265.0	82.0	291.0	0.0	0.309434	0	.	.	none	.	TRIM23	73	.	NM_033228	exon6	c.G944A	p.R315H	TTTTCACGAACAT	.	PASS	Atlas-SNP
SKIV2L2	23517	hgsc.bcm.edu	37	5	54635973	54635973	+	Silent	SNP	T	T	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	202.0	99.0	209.0	1.0	0.490099	0.00478469	.	.	none	.	SKIV2L2	104	.	NM_015360	exon6	c.T651G	p.T217T	TGTTACTATTAAT	.	PASS	Atlas-SNP
TENM4	26011	hgsc.bcm.edu	37	11	78369308	78369308	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	71.0	28.0	61.0	0.0	0.394366	0	.	.	none	ODZ4_ENST00000278550,colon,carcinoma,+1,2	.	.	2	NM_001098816	exon34	c.C8105T	p.A2702V	GCCCACGCTTGGC	.	PASS	Atlas-SNP
IFT140	9742	hgsc.bcm.edu	37	16	1652418	1652418	+	Missense_Mutation	SNP	C	C	T	rs146128830	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	94.0	38.0	120.0	0.0	0.404255	0	C|0.993;T|0.007	0.007	strong	IFT140,NS,carcinoma,0,1	IFT140	128	1	NM_014714	exon4	c.G322A	p.V108M	GGAGCACGGTGAT	.	PASS	Atlas-SNP
CCDC40	55036	hgsc.bcm.edu	37	17	78032381	78032381	+	Silent	SNP	C	C	T	rs375199947		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	84.0	48.0	74.0	0.0	0.571429	0	.	.	weak	.	CCDC40	198	.	NM_017950	exon8	c.C1248T	p.R416R	CATCCGCGTGATG	.	PASS	Atlas-SNP
DIDO1	11083	hgsc.bcm.edu	37	20	61526223	61526223	+	Missense_Mutation	SNP	G	G	T	rs139525718	bycluster;byfrequency;alternate_allele	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	83.0	47.0	105.0	0.0	0.566265	0	G|0.999;A|0.001	.	alt	.	DIDO1	321	.	NM_080797	exon10	c.C2375A	p.T792K	GGGGCCGTCTTCT	.	PASS	Atlas-SNP
TMEM74	157753	hgsc.bcm.edu	37	8	109796609	109796609	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	58.0	17.0	108.0	0.0	0.293103	0	.	.	none	TMEM74,NS,carcinoma,0,6	TMEM74	70	6	NM_153015	exon2	c.C719T	p.T240M	CCCAGCGTGAGGA	.	PASS	Atlas-SNP
IDH3A	3419	hgsc.bcm.edu	37	15	78453926	78453926	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	45.0	15.0	63.0	0.0	0.333333	0	.	.	none	.	IDH3A	24	.	NM_005530	exon5	c.C293T	p.P98L	CAGGCCCTTTGAA	.	PASS	Atlas-SNP
CDH26	60437	hgsc.bcm.edu	37	20	58558068	58558068	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	104.0	23.0	114.0	0.0	0.221154	0	.	.	none	.	CDH26	229	.	NM_177980	exon5	c.G484T	p.A162S	GATCATGCACCCC	.	PASS	Atlas-SNP
DGAT2L6	347516	hgsc.bcm.edu	37	X	69424307	69424307	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	208.0	45.0	163.0	0.0	0.216346	0	.	.	none	.	DGAT2L6	40	.	NM_198512	exon6	c.G800A	p.R267Q	ATGGCCGGGGCTT	.	PASS	Atlas-SNP
MAGEC2	51438	hgsc.bcm.edu	37	X	141291747	141291747	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	54.0	43.0	102.0	0.0	0.796296	0	.	.	none	.	MAGEC2	102	.	NM_016249	exon3	c.C27T	p.F9F	GTTGCGGAATGGA	.	PASS	Atlas-SNP
PBRM1	55193	hgsc.bcm.edu	37	3	52712591	52712591	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	91.0	54.0	91.0	0.0	0.593407	0	.	.	none	.	PBRM1	1252	.	NM_018313	exon3	c.A161G	p.Y54C	GTATTATAGAGTT	.	PASS	Atlas-SNP
SLC41A1	254428	hgsc.bcm.edu	37	1	205768918	205768918	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	167.0	38.0	122.0	0.0	0.227545	0	.	.	none	.	SLC41A1	46	.	NM_173854	exon4	c.G521A	p.R174Q	ATCATCCGCCAGA	.	PASS	Atlas-SNP
LAIR2	3904	hgsc.bcm.edu	37	19	55014155	55014155	+	Silent	SNP	T	T	C	rs143266047		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	108.0	8.0	101.0	2.0	0.0740741	0.019802	T|1.000;C|0.000	0.000	weak	LAIR2,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,1	LAIR2	30	1	NM_002288	exon1	c.T21C	p.A7A	CACTGCTCTCCTG	.	scavenged	Atlas-SNP
OR2L5	81466	hgsc.bcm.edu	37	1	248185497	248185497	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	243.0	42.0	246.0	0.0	0.17284	0	.	.	none	.	.	.	.	NM_001258284	exon1	c.A248G	p.D83G	CTTCTGATTTTCT	.	PASS	Atlas-SNP
CWC25	54883	hgsc.bcm.edu	37	17	36971290	36971290	+	Silent	SNP	G	G	A	rs202146970		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	112.0	93.0	72.0	0.0	0.830357	0	G|0.998;A|0.002	0.002	weak	.	CWC25	24	.	NM_017748	exon3	c.C252T	p.D84D	GTACTCGTCACGG	.	PASS	Atlas-SNP
PHOX2B	8929	hgsc.bcm.edu	37	4	41748171	41748171	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	46.0	25.0	47.0	0.0	0.543478	0	.	.	none	.	PHOX2B	53	.	NM_003924	exon3	c.C598T	p.P200S	GATTGGGACCTGG	.	PASS	Atlas-SNP
ABCB5	340273	hgsc.bcm.edu	37	7	20768004	20768004	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	181.0	67.0	175.0	0.0	0.370166	0	.	.	none	.	ABCB5	357	.	NM_001163941	exon23	c.T2793A	p.F931L	ATATTTTGCCTAT	.	PASS	Atlas-SNP
SPIN3	169981	hgsc.bcm.edu	37	X	57021350	57021350	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	127.0	27.0	91.0	0.0	0.212598	0	.	.	none	.	SPIN3	33	.	NM_001010862	exon2	c.G31T	p.G11W	GCTGCCCTGCAGC	.	PASS	Atlas-SNP
IRF8	3394	hgsc.bcm.edu	37	16	85942659	85942659	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	101.0	64.0	88.0	1.0	0.633663	0.0113636	.	.	none	IRF8,NS,neuroblastoma,-1,1	IRF8	65	1	NM_002163	exon3	c.A238G	p.T80A	TGGAAGACGAGGT	.	scavenged	Atlas-SNP
SMYD1	150572	hgsc.bcm.edu	37	2	88402591	88402591	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	91.0	16.0	70.0	0.0	0.175824	0	.	.	none	.	SMYD1	95	.	NM_198274	exon7	c.G903T	p.V301V	GGAAGTGGTGAAG	.	PASS	Atlas-SNP
CHD5	26038	hgsc.bcm.edu	37	1	6208973	6208973	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	95.0	58.0	99.0	0.0	0.610526	0	.	.	none	.	CHD5	267	.	NM_015557	exon9	c.T1324G	p.C442G	TGAGGCAATGCAG	.	PASS	Atlas-SNP
LRRC38	126755	hgsc.bcm.edu	37	1	13802549	13802549	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	58.0	11.0	70.0	0.0	0.189655	0	.	.	none	.	LRRC38	12	.	NM_001010847	exon2	c.G650A	p.C217Y	AGGGAGCACTGGA	.	PASS	Atlas-SNP
ANO5	203859	hgsc.bcm.edu	37	11	22249091	22249091	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	86.0	50.0	119.0	0.0	0.581395	0	.	.	none	.	ANO5	162	.	NM_213599	exon7	c.G607T	p.D203Y	ATCGAAGATCAGG	.	PASS	Atlas-SNP
GLUD2	2747	hgsc.bcm.edu	37	X	120182459	120182459	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	409.0	235.0	472.0	0.0	0.574572	0	.	.	none	.	GLUD2	89	.	NM_012084	exon1	c.G921A	p.Q307Q	TGTTCAGGGATTT	.	PASS	Atlas-SNP
PCDH17	27253	hgsc.bcm.edu	37	13	58208450	58208450	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	25.0	10.0	42.0	0.0	0.4	0	.	.	none	.	PCDH17	304	.	NM_001040429	exon1	c.C1770T	p.N590N	GCAGAACGACACC	.	PASS	Atlas-SNP
RAPH1	65059	hgsc.bcm.edu	37	2	204304543	204304543	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	273.0	116.0	220.0	0.0	0.424908	0	.	.	none	.	RAPH1	118	.	NM_213589	exon14	c.C3370T	p.R1124X	TGGGTCGTGTGGG	.	PASS	Atlas-SNP
MGP	4256	hgsc.bcm.edu	37	12	15035143	15035143	+	Missense_Mutation	SNP	C	C	T	rs375828646	alternate_allele	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	137.0	11.0	194.0	0.0	0.080292	0	.	.	alt	MGP,colon,carcinoma,-1,3	MGP	16	3	NM_001190839	exon5	c.G317A	p.R106H	GCGTAGCGTTCGC	.	PASS	Atlas-SNP
PCSK5	5125	hgsc.bcm.edu	37	9	78796464	78796464	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	127.0	34.0	93.0	0.0	0.267717	0	.	.	none	.	PCSK5	329	.	NM_006200	exon16	c.C2154G	p.N718K	AACCAACAGCTGT	.	PASS	Atlas-SNP
PEX19	5824	hgsc.bcm.edu	37	1	160252238	160252238	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	287.0	57.0	255.0	0.0	0.198606	0	.	.	none	.	PEX19	34	.	NM_002857	exon4	c.G401A	p.S134N	AATCCACTTAGTG	.	PASS	Atlas-SNP
FAM208B	54906	hgsc.bcm.edu	37	10	5790878	5790878	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	87.0	73.0	116.0	0.0	0.83908	0	.	.	none	.	.	.	.	NM_017782	exon15	c.C5494G	p.L1832V	TCTGATCTAGACC	.	PASS	Atlas-SNP
ZNF608	57507	hgsc.bcm.edu	37	5	124080282	124080282	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	131.0	112.0	124.0	1.0	0.854962	0.00806452	.	.	none	.	ZNF608	117	.	NM_020747	exon1	c.G401A	p.G134D	CTCTTGCCAGTGC	.	PASS	Atlas-SNP
NGEF	25791	hgsc.bcm.edu	37	2	233759514	233759514	+	Missense_Mutation	SNP	G	G	A	rs183477550	bycluster;by1000genomes	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	115.0	12.0	81.0	0.0	0.104348	0	G|1.000;A|0.000	0.000	strong	.	NGEF	198	.	NM_019850	exon6	c.C941T	p.A314V	ATGTGCGCCTCGG	.	PASS	Atlas-SNP
SMPD2	6610	hgsc.bcm.edu	37	6	109764547	109764547	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	94.0	69.0	154.0	0.0	0.734043	0	.	.	none	.	SMPD2	25	.	NM_003080	exon9	c.C807T	p.L269L	CCCCCTCTCTGAT	.	PASS	Atlas-SNP
MEGF8	1954	hgsc.bcm.edu	37	19	42859915	42859915	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	66.0	53.0	97.0	0.0	0.80303	0	.	.	none	.	MEGF8	358	.	NM_001271938	exon24	c.C4150T	p.L1384F	GGGCTGCTCGTGC	.	PASS	Atlas-SNP
TJP1	7082	hgsc.bcm.edu	37	15	30011279	30011279	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	137.0	111.0	198.0	0.0	0.810219	0	.	.	none	TJP1,NS,NS,+2,1	TJP1	140	1	NM_003257	exon21	c.G3067C	p.A1023P	TAACGGCTGGCTG	.	PASS	Atlas-SNP
SIX4	51804	hgsc.bcm.edu	37	14	61186927	61186927	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	142.0	40.0	154.0	0.0	0.28169	0	.	.	none	.	SIX4	69	.	NM_017420	exon2	c.A1100G	p.N367S	AAAGAATTTCCAT	.	PASS	Atlas-SNP
SLC2A14	144195	hgsc.bcm.edu	37	12	7970447	7970447	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	96.0	80.0	158.0	1.0	0.833333	0.00632911	.	.	none	.	SLC2A14	78	.	NM_153449	exon11	c.T1324G	p.L442V	AGAGCAATCCGAC	.	PASS	Atlas-SNP
CHD5	26038	hgsc.bcm.edu	37	1	6208928	6208928	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	77.0	51.0	100.0	0.0	0.662338	0	.	.	none	.	CHD5	267	.	NM_015557	exon9	c.T1369A	p.C457S	GCGGGCAGAGCCA	.	PASS	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	37	8	77618778	77618778	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	71.0	36.0	92.0	0.0	0.507042	0	.	.	none	.	ZFHX4	878	.	NM_024721	exon2	c.G2455T	p.E819X	GAAGCAGAGCTTT	.	PASS	Atlas-SNP
HS3ST1	9957	hgsc.bcm.edu	37	4	11401388	11401388	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	64.0	28.0	68.0	0.0	0.4375	0	.	.	none	.	HS3ST1	41	.	NM_005114	exon2	c.C242T	p.A81V	GCGGCCGCCACGT	.	PASS	Atlas-SNP
RUNX1T1	862	hgsc.bcm.edu	37	8	93026977	93026977	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	52.0	22.0	79.0	0.0	0.423077	0	.	.	none	.	RUNX1T1	516	.	NM_001198679	exon4	c.G475A	p.G159R	AAGGCCCATTGCT	.	PASS	Atlas-SNP
ANKFY1	51479	hgsc.bcm.edu	37	17	4071128	4071128	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	37.0	27.0	50.0	0.0	0.72973	0	.	.	none	.	ANKFY1	81	.	NM_001257999	exon25	c.C3581T	p.P1194L	CGCACAGGCTTGT	.	PASS	Atlas-SNP
DRG2	1819	hgsc.bcm.edu	37	17	18003008	18003008	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	67.0	52.0	146.0	0.0	0.776119	0	.	.	none	.	DRG2	27	.	NM_001388	exon5	c.G438A	p.M146I	CATGATGCTGGAT	.	PASS	Atlas-SNP
KIF1A	547	hgsc.bcm.edu	37	2	241696843	241696843	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	72.0	11.0	48.0	0.0	0.152778	0	.	.	none	.	KIF1A	152	.	NM_001244008	exon27	c.G2751T	p.E917D	CTCATCCTCCTCC	.	PASS	Atlas-SNP
DDX60	55601	hgsc.bcm.edu	37	4	169212958	169212958	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	91.0	40.0	75.0	0.0	0.43956	0	.	.	none	.	DDX60	304	.	NM_017631	exon8	c.G982C	p.A328P	CACAAGCTCTTTG	.	PASS	Atlas-SNP
KIAA1468	57614	hgsc.bcm.edu	37	18	59936160	59936160	+	Silent	SNP	A	A	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	285.0	216.0	521.0	0.0	0.757895	0	.	.	none	.	KIAA1468	93	.	NM_020854	exon20	c.A2739T	p.G913G	AACAGGAGTCCTT	.	PASS	Atlas-SNP
GLS	2744	hgsc.bcm.edu	37	2	191746033	191746033	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	26.0	15.0	23.0	0.0	0.576923	0	.	.	none	.	GLS	47	.	NM_014905	exon1	c.T223G	p.S75A	TCCAGCTCTCCTT	.	PASS	Atlas-SNP
CCP110	9738	hgsc.bcm.edu	37	16	19554242	19554242	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	183.0	10.0	163.0	0.0	0.0546448	0	.	.	none	.	CCP110	57	.	NM_001199022	exon8	c.G2410C	p.A804P	ATAACTGCAGTGG	.	PASS	Atlas-SNP
CLGN	1047	hgsc.bcm.edu	37	4	141313740	141313740	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	170.0	26.0	202.0	0.0	0.152941	0	.	.	none	.	CLGN	76	.	NM_001130675	exon13	c.G1491A	p.K497K	CTTTACCTTTACT	.	PASS	Atlas-SNP
HOXB5	3215	hgsc.bcm.edu	37	17	46669811	46669811	+	Silent	SNP	G	G	A	rs201570571	by1000genomes;alternate_allele	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	60.0	29.0	81.0	0.0	0.483333	0	G|1.000;C|0.000	.	alt	.	HOXB5	20	.	NM_002147	exon2	c.C570T	p.T190T	CGGCCCGGTCATA	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100695189	100695189	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	84.0	35.0	85.0	0.0	0.416667	0	.	.	none	.	MUC17	804	.	NM_001040105	exon9	c.C13049A	p.S4350Y	GTGTCTCCAAGAA	.	PASS	Atlas-SNP
TRIM55	84675	hgsc.bcm.edu	37	8	67067878	67067878	+	Silent	SNP	G	G	A	rs373183172		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	237.0	44.0	266.0	0.0	0.185654	0	.	.	weak	.	TRIM55	91	.	NM_033058	exon10	c.G1545A	p.A515A	CCTAGCGCTTTTG	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	145075675	145075675	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	270.0	27.0	167.0	0.0	0.1	0	.	.	none	.	PDE4DIP	817	.	NM_022359	exon1	c.C188T	p.A63V	TCGGCCGCTGCTG	.	PASS	Atlas-SNP
COL5A3	50509	hgsc.bcm.edu	37	19	10103700	10103700	+	Missense_Mutation	SNP	G	G	A	rs147814824	bycluster	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	68.0	23.0	78.0	0.0	0.338235	0	G|1.000;A|0.000	0.000	weak	.	COL5A3	243	.	NM_015719	exon20	c.C1793T	p.P598L	CTCACCGGCTCCC	.	PASS	Atlas-SNP
RTN2	6253	hgsc.bcm.edu	37	19	45991939	45991939	+	Missense_Mutation	SNP	G	G	T	rs190900651	bycluster;by1000genomes	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	46.0	7.0	33.0	0.0	0.152174	0	G|1.000;T|0.000	0.000	strong	.	RTN2	45	.	NM_005619	exon8	c.C1406A	p.T469N	ACGAAGGTCAAGA	.	PASS	Atlas-SNP
FRMPD1	22844	hgsc.bcm.edu	37	9	37746410	37746410	+	Missense_Mutation	SNP	C	C	T	rs199593687	by1000genomes	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	22.0	14.0	32.0	0.0	0.636364	0	C|1.000;T|0.000	0.000	strong	.	FRMPD1	237	.	NM_014907	exon16	c.C4381T	p.R1461C	CGGAGCCGCCTCT	.	PASS	Atlas-SNP
B2M	567	hgsc.bcm.edu	37	15	45003745	45003745	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	66.0	55.0	76.0	0.0	0.833333	0	.	.	none	B2M,caecum,carcinoma,-2,17	B2M	99	17	NM_004048	exon1	c.A1T	p.M1L	GCCGAGATGTCTC	.	PASS	Atlas-SNP
SLC27A1	376497	hgsc.bcm.edu	37	19	17615344	17615344	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	67.0	15.0	62.0	0.0	0.223881	0	.	.	none	.	SLC27A1	97	.	NM_198580	exon12	c.G1864A	p.D622N	TTCCTGGACCTGA	.	PASS	Atlas-SNP
VWDE	221806	hgsc.bcm.edu	37	7	12420309	12420309	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	81.0	39.0	66.0	0.0	0.481481	0	.	.	none	.	VWDE	123	.	NM_001135924	exon5	c.C592A	p.L198M	CCACCAGAACCTC	.	PASS	Atlas-SNP
TRNT1	51095	hgsc.bcm.edu	37	3	3182323	3182323	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	149.0	32.0	158.0	0.0	0.214765	0	.	.	none	.	TRNT1	34	.	NM_182916	exon4	c.A472C	p.M158L	AATTCTATGTTTT	.	PASS	Atlas-SNP
CELA1	1990	hgsc.bcm.edu	37	12	51736400	51736400	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	96.0	16.0	93.0	0.0	0.166667	0	.	.	none	CELA1,NS,carcinoma,0,1	CELA1	39	1	NM_001971	exon4	c.C285T	p.I95I	CACCACGATCTTC	.	PASS	Atlas-SNP
ZADH2	284273	hgsc.bcm.edu	37	18	72914061	72914061	+	Silent	SNP	G	G	A	rs370732101		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	50.0	16.0	104.0	0.0	0.32	0	.	.	weak	.	ZADH2	25	.	NM_175907	exon2	c.C444T	p.P148P	ATACTCGGGTTTC	.	PASS	Atlas-SNP
TSNARE1	203062	hgsc.bcm.edu	37	8	143356150	143356150	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	152.0	25.0	223.0	0.0	0.164474	0	.	.	none	.	TSNARE1	59	.	NM_145003	exon12	c.C1438T	p.R480W	GGTGCCGGCTGGC	.	PASS	Atlas-SNP
IL6	3569	hgsc.bcm.edu	37	7	22767230	22767230	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	125.0	35.0	52.0	0.0	0.28	0	.	.	none	IL6,colon,carcinoma,0,1	IL6	30	1	NM_000600	exon2	c.G187A	p.G63S	CTCGACGGCATCT	.	PASS	Atlas-SNP
ARHGEF2	9181	hgsc.bcm.edu	37	1	155928159	155928159	+	Silent	SNP	T	T	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	106.0	25.0	89.0	0.0	0.235849	0	.	.	none	.	ARHGEF2	81	.	NM_001162383	exon12	c.A1497C	p.V499V	CACCAGTACATCT	.	PASS	Atlas-SNP
MYL6B	140465	hgsc.bcm.edu	37	12	56548600	56548600	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	151.0	61.0	114.0	0.0	0.403974	0	.	.	none	.	MYL6B	12	.	NM_001199629	exon3	c.G178A	p.E60K	CAGATCGAGTTTA	.	PASS	Atlas-SNP
KIAA1107	23285	hgsc.bcm.edu	37	1	92647539	92647539	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	174.0	88.0	176.0	0.0	0.505747	0	.	.	none	.	KIAA1107	60	.	NM_015237	exon8	c.G2985T	p.K995N	TAAAAAGTTTAAA	.	PASS	Atlas-SNP
RREB1	6239	hgsc.bcm.edu	37	6	7230225	7230225	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	68.0	41.0	63.0	0.0	0.602941	0	.	.	none	.	RREB1	242	.	NM_001003700	exon10	c.C1893T	p.G631G	GCCCGGCGGCAAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195518110	195518110	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	1197.0	86.0	143.0	0.0	0.0718463	0	.	.	none	MUC4_ENST00000463781,caecum,adenoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C341T	p.A114V	GGAGGAGCTGTCT	.	PASS	Atlas-SNP
AASS	10157	hgsc.bcm.edu	37	7	121738881	121738881	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	137.0	49.0	158.0	0.0	0.357664	0	.	.	none	.	AASS	123	.	NM_005763	exon14	c.G1446C	p.K482N	CAAAACCTTTCTC	.	PASS	Atlas-SNP
TMEM240	339453	hgsc.bcm.edu	37	1	1470884	1470884	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	79.0	52.0	60.0	0.0	0.658228	0	.	.	none	.	TMEM240	8	.	NM_001114748	exon4	c.G377A	p.G126D	CACGAGCCATCTG	.	PASS	Atlas-SNP
RNF217	154214	hgsc.bcm.edu	37	6	125397811	125397811	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	69.0	21.0	136.0	0.0	0.304348	0	.	.	none	.	RNF217	64	.	NM_152553	exon6	c.C414T	p.I138I	CCACATCCAGCGA	.	PASS	Atlas-SNP
MSL2	55167	hgsc.bcm.edu	37	3	135871364	135871364	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	148.0	62.0	209.0	0.0	0.418919	0	.	.	none	.	MSL2	63	.	NM_018133	exon2	c.T359C	p.I120T	GCTTCTATTATAT	.	PASS	Atlas-SNP
AKAP4	8852	hgsc.bcm.edu	37	X	49961619	49961619	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	283.0	108.0	221.0	0.0	0.381625	0	.	.	none	.	AKAP4	131	.	NM_003886	exon4	c.G199A	p.G67S	AGTTGCCTTCTGA	.	PASS	Atlas-SNP
DENND5B	160518	hgsc.bcm.edu	37	12	31555505	31555505	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	265.0	125.0	246.0	0.0	0.471698	0	.	.	none	.	DENND5B	114	.	NM_144973	exon15	c.T2876A	p.I959N	ACACAGATCCAAG	.	PASS	Atlas-SNP
SASH1	23328	hgsc.bcm.edu	37	6	148865065	148865065	+	Missense_Mutation	SNP	G	G	A	rs144633784	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	60.0	43.0	89.0	0.0	0.716667	0	G|0.998;A|0.002	0.002	strong	SASH1,mouth,carcinoma,+1,1	SASH1	123	1	NM_015278	exon18	c.G2459A	p.R820Q	TCTGCCGGAGCTG	.	PASS	Atlas-SNP
TP53	7157	hgsc.bcm.edu	37	17	7577586	7577586	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	40.0	34.0	76.0	0.0	0.85	0	.	.	none	TP53_ENST00000545858,NS,carcinoma,0,67	TP53	33396	67	NM_000546	exon7	c.T695C	p.I232T	TAGTGGATGGTGG	.	PASS	Atlas-SNP
BTG2	7832	hgsc.bcm.edu	37	1	203274870	203274870	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	80.0	50.0	56.0	0.0	0.625	0	.	.	none	.	BTG2	16	.	NM_006763	exon1	c.C136G	p.L46V	GAGGCACTCACAG	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26291160	26291160	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	32.0	11.0	50.0	0.0	0.34375	0	.	.	none	.	MYO18B	322	.	NM_032608	exon28	c.G4581A	p.M1527I	TCAGATGGAGAAC	.	PASS	Atlas-SNP
DST	667	hgsc.bcm.edu	37	6	56505292	56505292	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	527.0	145.0	331.0	1.0	0.275142	0.00302115	.	.	none	DST_ENST00000370769,NS,carcinoma,0,5	DST	1427	5	NM_001723	exon4	c.C528T	p.I176I	TTGAGTGATTCCT	.	scavenged	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138571	37138571	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	75.0	19.0	51.0	0.0	0.253333	0	.	.	none	.	PIM1	71	.	NM_001243186	exon2	c.G378A	p.E126E	CCTGGAGTCGCAG	.	PASS	Atlas-SNP
MAST4	375449	hgsc.bcm.edu	37	5	66350237	66350237	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TY-01A-11D-A38X-10	TCGA-GS-A9TY-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	efd48c02-60c4-4db1-9c40-8ffcac8b4991	9dba8651-a374-4e47-862f-f91f46c7bd4d	140.0	117.0	194.0	1.0	0.835714	0.00515464	.	.	none	MAST4_ENST00000404260,rectum,carcinoma,0,1	MAST4	218	1	NM_001164664	exon5	c.G680A	p.R227Q	GTTGCCGAACAAG	.	PASS	Atlas-SNP