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
ZNF343	79175	hgsc.bcm.edu	37	20	2473385	2473385	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	116.0	15.0	88.0	0.0	0.12931	0	.	.	none	ZNF343,NS,carcinoma,0,1	ZNF343	47	1	NM_024325	exon5	c.265delG	p.E89fs	.	.	PASS	Atlas-Indel
ZNF223	7766	hgsc.bcm.edu	37	19	44570830	44570831	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	226.0	39.0	91.0	0.0	0.173	.	.	.	none	.	ZNF223	61	.	NM_013361	exon5	c.848_849del	p.283_283del	.	.	PASS	Pindel,Atlas-Indel
GAST	2520	hgsc.bcm.edu	37	17	39872062	39872064	+	In_Frame_Del	DEL	GAA	GAA	-	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	GAA	GAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	113.0	15.0	94.0	0.0	0.132743	0	.	.	none	.	GAST	13	.	NM_000805	exon3	c.243_245del	p.81_82del	.	.	PASS	Atlas-Indel
ATAD5	79915	hgsc.bcm.edu	37	17	29221631	29221635	+	Frame_Shift_Del	DEL	TCTCT	TCTCT	-	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	TCTCT	TCTCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	55.0	14.0	65.0	0.0	0.255	.	.	.	none	.	ATAD5	150	.	NM_024857	exon22	c.5346_5350del	p.1782_1784del	.	.	PASS	Pindel,Atlas-Indel
P2RY10	27334	hgsc.bcm.edu	37	X	78216808	78216808	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	36.0	20.0	25.0	0.0	0.556	.	.	.	none	.	P2RY10	99	.	NM_198333	exon2	c.790delA	p.I264fs	.	.	PASS	Pindel,Atlas-Indel
NFKBIE	4794	hgsc.bcm.edu	37	6	44229563	44229564	+	In_Frame_Ins	INS	-	-	GTACAGCCAGATGGA	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	36.0	10.0	35.0	0.0	0.278	.	.	.	none	.	NFKBIE	31	.	NM_004556	exon3	c.908_909insTCCATCTGGCTGTAC	p.H303delinsLHLAVH	.	.	PASS	Pindel
GP2	2813	hgsc.bcm.edu	37	16	20329589	20329589	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	184.0	37.0	199.0	0.0	0.201087	0	.	.	none	.	GP2	122	.	NM_001007240	exon8	c.T1180G	p.F394V	GGTTAAACCGGGA	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26422889	26422889	+	Missense_Mutation	SNP	G	G	A	rs187337528	by1000genomes	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	38.0	13.0	31.0	0.0	0.342105	0	G|1.000;A|0.000	0.000	strong	MYO18B,NS,haematopoietic_neoplasm,0,2	MYO18B	322	2	NM_032608	exon43	c.G6949A	p.A2317T	GGGGCCGCTGGTG	.	PASS	Atlas-SNP
NBEA	26960	hgsc.bcm.edu	37	13	35782857	35782857	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	68.0	26.0	89.0	0.0	0.382353	0	.	.	none	.	NBEA	340	.	NM_015678	exon32	c.A5387G	p.K1796R	CTGTAAAGAAACC	.	PASS	Atlas-SNP
CACNA1C	775	hgsc.bcm.edu	37	12	2676736	2676736	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	38.0	16.0	41.0	0.0	0.421053	0	.	.	none	.	CACNA1C	1023	.	NM_001129831	exon13	c.C1671T	p.D557D	GCCAGACACGGCA	.	PASS	Atlas-SNP
STAT3	6774	hgsc.bcm.edu	37	17	40474470	40474470	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	283.0	137.0	237.0	0.0	0.484099	0	.	.	none	.	STAT3	268	.	NM_003150	exon21	c.A1931G	p.Q644R	TTCAGCTGCTGCT	.	PASS	Atlas-SNP
C5	727	hgsc.bcm.edu	37	9	123719614	123719614	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	83.0	5.0	92.0	0.0	0.060241	0	.	.	none	.	C5	124	.	NM_001735	exon39	c.G4711A	p.E1571K	CATTTTCTACAGT	.	PASS	Atlas-SNP
TCL1A	8115	hgsc.bcm.edu	37	14	96180291	96180291	+	Missense_Mutation	SNP	G	G	A	rs201228671	by1000genomes;alternate_allele	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	61.0	32.0	59.0	0.0	0.52459	0	G|0.999;C|0.001	.	alt	.	TCL1A	26	.	NM_001098725	exon1	c.C113T	p.T38I	TCGATGGTTAAGG	.	PASS	Atlas-SNP
ARMCX5	64860	hgsc.bcm.edu	37	X	101858323	101858323	+	Silent	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	92.0	11.0	97.0	0.0	0.119565	0	.	.	none	.	ARMCX5	55	.	NM_022838	exon3	c.G1254A	p.G418G	ACTAGGGCACTTG	.	PASS	Atlas-SNP
FNIP2	57600	hgsc.bcm.edu	37	4	159789387	159789387	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	78.0	4.0	80.0	0.0	0.0512821	0	.	.	none	.	FNIP2	90	.	NM_020840	exon13	c.C1599T	p.N533N	AGAGAACCAGCTG	.	PASS	Atlas-SNP
FN1	2335	hgsc.bcm.edu	37	2	216289966	216289966	+	Missense_Mutation	SNP	G	G	A	rs145123731	bycluster;byfrequency	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	96.0	33.0	117.0	0.0	0.34375	0	G|1.000;A|0.000	0.000	strong	FN1_ENST00000354785,colon,carcinoma,+1,2	FN1	521	2	NM_212476	exon7	c.C887T	p.P296L	GGCTGCGGTTGGT	.	PASS	Atlas-SNP
PLXNA2	5362	hgsc.bcm.edu	37	1	208216497	208216497	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	117.0	38.0	110.0	0.0	0.324786	0	.	.	none	PLXNA2,NS,carcinoma,0,1	PLXNA2	178	1	NM_025179	exon21	c.G3926A	p.R1309H	CCTGAGCGGTCCA	.	PASS	Atlas-SNP
COL16A1	1307	hgsc.bcm.edu	37	1	32149326	32149326	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	73.0	31.0	64.0	0.0	0.424658	0	.	.	none	.	COL16A1	137	.	NM_001856	exon34	c.G2361A	p.R787R	GACTCCCCTTCCT	.	PASS	Atlas-SNP
TTK	7272	hgsc.bcm.edu	37	6	80744802	80744802	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	127.0	49.0	190.0	0.0	0.385827	0	.	.	none	.	TTK	199	.	NM_003318	exon15	c.T1715A	p.I572K	ACGAAATAGCTTA	.	PASS	Atlas-SNP
LYN	4067	hgsc.bcm.edu	37	8	56910951	56910951	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	187.0	65.0	194.0	0.0	0.347594	0	.	.	none	.	LYN	54	.	NM_002350	exon11	c.G1097A	p.R366Q	TTCACCGGGACCT	.	PASS	Atlas-SNP
ADO	84890	hgsc.bcm.edu	37	10	64565347	64565347	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	22.0	4.0	26.0	0.0	0.181818	0	.	.	none	.	ADO	10	.	NM_032804	exon1	c.C528G	p.Y176X	CGAGTACACCGAG	.	PASS	Atlas-SNP
LLGL2	3993	hgsc.bcm.edu	37	17	73552167	73552167	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	50.0	24.0	28.0	0.0	0.48	0	.	.	none	.	LLGL2	155	.	NM_001015002	exon3	c.G116A	p.G39D	CCCTCGGCTACAG	.	PASS	Atlas-SNP
TET2	54790	hgsc.bcm.edu	37	4	106193850	106193850	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	130.0	108.0	106.0	0.0	0.830769	0	.	.	none	.	TET2	1762	.	NM_001127208	exon10	c.A4312T	p.K1438X	GAGGAGAAAAAAC	.	PASS	Atlas-SNP
RBM14	10432	hgsc.bcm.edu	37	11	66391989	66391989	+	Silent	SNP	C	C	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	50.0	2.0	42.0	1.0	0.04	0.0238095	.	.	none	RBM14,rectum,carcinoma,+1,1	RBM14	59	1	NM_006328	exon2	c.C642A	p.R214R	CGACCGCAGCCCT	.	scavenged	Atlas-SNP
C3	718	hgsc.bcm.edu	37	19	6714453	6714453	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	61.0	26.0	87.0	0.0	0.42623	0	.	.	none	.	C3	192	.	NM_000064	exon5	c.C509T	p.P170L	CCTTCCGGGTTCT	.	PASS	Atlas-SNP
RFX6	222546	hgsc.bcm.edu	37	6	117248414	117248414	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	114.0	55.0	130.0	0.0	0.482456	0	.	.	none	.	RFX6	141	.	NM_173560	exon17	c.C2110T	p.Q704X	AACTACCAGACTG	.	PASS	Atlas-SNP
PITPNM3	83394	hgsc.bcm.edu	37	17	6358850	6358850	+	Silent	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	42.0	16.0	42.0	0.0	0.380952	0	.	.	none	.	PITPNM3	91	.	NM_031220	exon20	c.C2733T	p.H911H	CTGCGCGTGCAGC	.	PASS	Atlas-SNP
NUP210	23225	hgsc.bcm.edu	37	3	13379381	13379381	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	42.0	18.0	26.0	0.0	0.428571	0	.	.	none	.	NUP210	182	.	NM_024923	exon26	c.G3508A	p.V1170M	TCCTCACGGCCCT	.	PASS	Atlas-SNP
PLXNB3	5365	hgsc.bcm.edu	37	X	153035889	153035889	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	132.0	6.0	118.0	0.0	0.0454545	0	.	.	none	.	PLXNB3	208	.	NM_001163257	exon10	c.A1952G	p.E651G	CCTTGGAGGCGGC	.	PASS	Atlas-SNP
B2M	567	hgsc.bcm.edu	37	15	45003779	45003779	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	99.0	76.0	104.0	0.0	0.767677	0	.	.	none	B2M,colon,carcinoma,0,2	B2M	99	2	NM_004048	exon1	c.T35C	p.L12P	TCGCGCTACTCTC	.	PASS	Atlas-SNP
ZNF337	26152	hgsc.bcm.edu	37	20	25656946	25656946	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	106.0	8.0	95.0	0.0	0.0754717	0	.	.	none	.	ZNF337	65	.	NM_015655	exon5	c.G978A	p.G326G	GCCTCGCCCACAC	.	PASS	Atlas-SNP
ALOX15	246	hgsc.bcm.edu	37	17	4544856	4544856	+	Missense_Mutation	SNP	C	C	T	rs145573801	byfrequency;alternate_allele	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	95.0	5.0	60.0	0.0	0.0526316	0	C|1.000;G|0.000	.	alt	.	ALOX15	70	.	NM_001140	exon1	c.G91A	p.G31R	CCTCCCCGTGCTG	.	PASS	Atlas-SNP
TLCD1	116238	hgsc.bcm.edu	37	17	27052991	27052991	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	63.0	4.0	60.0	0.0	0.0634921	0	.	.	none	.	TLCD1	15	.	NM_138463	exon1	c.C125T	p.T42I	CGCCAGGTGCGCA	.	PASS	Atlas-SNP
COL21A1	81578	hgsc.bcm.edu	37	6	55922465	55922465	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	106.0	15.0	102.0	0.0	0.141509	0	.	.	none	.	COL21A1	201	.	NM_030820	exon30	c.C2864T	p.P955L	TAGTTTGGTCCTT	.	PASS	Atlas-SNP
SLC17A9	63910	hgsc.bcm.edu	37	20	61594979	61594979	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	131.0	63.0	110.0	0.0	0.480916	0	.	.	none	.	SLC17A9	54	.	NM_022082	exon7	c.A769G	p.I257V	TTCTTCATCCTCC	.	PASS	Atlas-SNP
RPGRIP1L	23322	hgsc.bcm.edu	37	16	53730084	53730084	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	80.0	37.0	86.0	0.0	0.4625	0	.	.	none	.	RPGRIP1L	118	.	NM_001127897	exon3	c.A209C	p.K70T	TCCTGCTTGCGGG	.	PASS	Atlas-SNP
NBN	4683	hgsc.bcm.edu	37	8	90967770	90967770	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	78.0	4.0	71.0	0.0	0.0512821	0	.	.	none	.	NBN	86	.	NM_002485	exon10	c.A1138G	p.R380G	TTGGCCTTTCACT	.	PASS	Atlas-SNP
STK11IP	114790	hgsc.bcm.edu	37	2	220474114	220474114	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	77.0	4.0	72.0	0.0	0.0519481	0	.	.	none	.	STK11IP	152	.	NM_052902	exon17	c.C1989T	p.T663T	AGTCACCAATGTG	.	PASS	Atlas-SNP
RNF219	79596	hgsc.bcm.edu	37	13	79219011	79219011	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	66.0	19.0	63.0	0.0	0.287879	0	.	.	none	.	RNF219	94	.	NM_024546	exon2	c.G194C	p.C65S	TCTTTGCAAGGAT	.	PASS	Atlas-SNP
CLPSL1	340204	hgsc.bcm.edu	37	6	35754842	35754842	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	41.0	10.0	38.0	0.0	0.243902	0	.	.	none	.	.	.	.	NM_001010886	exon2	c.A167G	p.N56S	CAGACAATTGCGA	.	PASS	Atlas-SNP
FSD1L	83856	hgsc.bcm.edu	37	9	108297595	108297595	+	Silent	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	58.0	14.0	61.0	0.0	0.241379	0	.	.	none	.	FSD1L	31	.	NM_001145313	exon12	c.T1374C	p.D458D	TTTTGATGGGGGT	.	PASS	Atlas-SNP
TLX3	30012	hgsc.bcm.edu	37	5	170736474	170736474	+	Silent	SNP	G	G	A	rs2303742	bycluster;by1000genomes	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	14.0	12.0	4.0	2.0	0.857143	0.5	G|0.995;A|0.005	0.005	strong	TLX3_ENST00000296921,NS,carcinoma,+2,1	TLX3	23	1	NM_021025	exon1	c.G105A	p.P35P	CGCCCCGCGGGGC	.	scavenged	Atlas-SNP
KIF17	57576	hgsc.bcm.edu	37	1	21031010	21031010	+	Silent	SNP	G	G	A	rs76507805	bycluster;byfrequency;by1000genomes	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	168.0	53.0	183.0	0.0	0.315476	0	G|1.000;A|0.000	0.000	strong	KIF17,colon,carcinoma,0,1	KIF17	130	1	NM_001122819	exon5	c.C1053T	p.R351R	GTACTCGCGAAGC	.	PASS	Atlas-SNP
RIMBP2	23504	hgsc.bcm.edu	37	12	130892335	130892335	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	121.0	42.0	128.0	0.0	0.347107	0	.	.	none	RIMBP2,NS,carcinoma,+1,1	RIMBP2	220	1	NM_015347	exon16	c.C2861T	p.T954M	CTCCGCGTCGATA	.	PASS	Atlas-SNP
DUSP2	1844	hgsc.bcm.edu	37	2	96809900	96809900	+	Silent	SNP	G	G	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	60.0	25.0	60.0	0.0	0.416667	0	.	.	none	DUSP2,NS,lymphoid_neoplasm,-1,1	DUSP2	20	1	NM_004418	exon3	c.C723G	p.G241G	AATGAAGCCTATG	.	PASS	Atlas-SNP
CDH13	1012	hgsc.bcm.edu	37	16	83813610	83813610	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	80.0	17.0	89.0	0.0	0.2125	0	.	.	none	.	CDH13	97	.	NM_001220488	exon13	c.A1860G	p.I620M	GCTGATAACCCTG	.	PASS	Atlas-SNP
SNRPD2	6633	hgsc.bcm.edu	37	19	46191649	46191649	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	209.0	80.0	169.0	0.0	0.382775	0	.	.	none	.	SNRPD2	7	.	NM_004597	exon2	c.G178A	p.D60N	ACCTATCGAAGGC	.	PASS	Atlas-SNP
AUP1	550	hgsc.bcm.edu	37	2	74756500	74756500	+	Silent	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	77.0	57.0	117.0	0.0	0.74026	0	.	.	none	.	AUP1	29	.	NM_181575	exon2	c.C177T	p.S59S	AAGGACGCTGTCT	.	PASS	Atlas-SNP
DMKN	93099	hgsc.bcm.edu	37	19	36002412	36002412	+	Silent	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	36.0	4.0	29.0	0.0	0.111111	0	.	.	none	.	DMKN	116	.	NM_001126058	exon5	c.C819T	p.S273S	GCCACTGCTGCTG	.	PASS	Atlas-SNP
NGFR	4804	hgsc.bcm.edu	37	17	47572823	47572823	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	13.0	5.0	7.0	0.0	0.384615	0	.	.	none	.	NGFR	46	.	NM_002507	exon1	c.T44C	p.L15P	CGCGCCTGCTGCT	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72830766	72830766	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	130.0	49.0	135.0	0.0	0.376923	0	.	.	none	ZFHX3,NS,carcinoma,0,1	ZFHX3	404	1	NM_006885	exon9	c.G5815A	p.D1939N	TGGCATCTGAAGC	.	PASS	Atlas-SNP
NPAS4	266743	hgsc.bcm.edu	37	11	66191694	66191694	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	74.0	4.0	65.0	0.0	0.0540541	0	.	.	none	.	NPAS4	133	.	NM_178864	exon7	c.C1333T	p.Q445X	CCCTTCCAGACCC	.	PASS	Atlas-SNP
ADAMTS2	9509	hgsc.bcm.edu	37	5	178552090	178552090	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	121.0	5.0	74.0	1.0	0.0413223	0.0135135	.	.	none	ADAMTS2,caecum,carcinoma,0,2	ADAMTS2	190	2	NM_014244	exon19	c.G2842A	p.D948N	TGTTGTCGTGTAG	.	scavenged	Atlas-SNP
PDS5B	23047	hgsc.bcm.edu	37	13	33316792	33316792	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	123.0	38.0	115.0	0.0	0.308943	0	.	.	none	.	PDS5B	141	.	NM_015032	exon23	c.G2539A	p.G847R	AAATCAGGAACTT	.	PASS	Atlas-SNP
ADAMTS5	11096	hgsc.bcm.edu	37	21	28327094	28327094	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	58.0	14.0	73.0	0.0	0.241379	0	.	.	none	.	ADAMTS5	184	.	NM_007038	exon2	c.G1201A	p.G401S	GGAGGCCATCGTC	.	PASS	Atlas-SNP
CNPPD1	27013	hgsc.bcm.edu	37	2	220041491	220041491	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	75.0	4.0	46.0	0.0	0.0533333	0	.	.	none	.	CNPPD1	22	.	NM_015680	exon1	c.G60A	p.Q20Q	GAAGTCCTGGAAG	.	PASS	Atlas-SNP
PLCH1	23007	hgsc.bcm.edu	37	3	155205862	155205862	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	84.0	7.0	80.0	0.0	0.0833333	0	.	.	none	.	PLCH1	406	.	NM_001130960	exon20	c.A2538C	p.E846D	GGATGCTTCTGTC	.	PASS	Atlas-SNP
AKAP9	10142	hgsc.bcm.edu	37	7	91625060	91625060	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	38.0	15.0	68.0	0.0	0.394737	0	.	.	none	AKAP9_ENST00000356239,NS,carcinoma,+2,2	AKAP9	788	2	NM_005751	exon7	c.A876C	p.E292D	GAAAGAAGACTTC	.	PASS	Atlas-SNP
GRID2	2895	hgsc.bcm.edu	37	4	94376883	94376883	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	180.0	62.0	147.0	0.0	0.344444	0	.	.	none	GRID2,NS,carcinoma,+1,1	GRID2	233	1	NM_001510	exon11	c.G1616A	p.R539H	CGACACGTTACAT	.	PASS	Atlas-SNP
PRKCB	5579	hgsc.bcm.edu	37	16	24183630	24183630	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	170.0	59.0	193.0	1.0	0.347059	0.00518135	.	.	none	PRKCB_ENST00000321728,caecum,carcinoma,0,3	PRKCB	383	3	NM_212535	exon11	c.G1279A	p.D427N	GGGGGCGACCTCA	.	scavenged	Atlas-SNP
NEB	4703	hgsc.bcm.edu	37	2	152470904	152470904	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	237.0	94.0	210.0	0.0	0.396624	0	.	.	none	.	NEB	1697	.	NM_001271208	exon77	c.G11487A	p.K3829K	CTGACACTTCTTG	.	PASS	Atlas-SNP
SYCE2	256126	hgsc.bcm.edu	37	19	13010850	13010850	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	84.0	5.0	87.0	0.0	0.0595238	0	.	.	none	.	SYCE2	19	.	NM_001105578	exon5	c.T580C	p.F194L	AAACGAACACGTC	.	PASS	Atlas-SNP
C2orf81	388963	hgsc.bcm.edu	37	2	74642265	74642265	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	5.0	3.0	7.0	0.0	0.6	0	.	.	none	C2orf81,colon,carcinoma,0,1	C2orf81	23	1	NM_001145054	exon4	c.T958G	p.S320A	GGCAGGACGCGGA	.	scavenged	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957523	111957523	+	Missense_Mutation	SNP	G	G	T	rs3767608	bycluster;by1000genomes;alternate_allele	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	144.0	22.0	130.0	0.0	0.152778	0	G|1.000;A|0.000	.	alt	OVGP1_ENST00000369728,NS,carcinoma,0,2	OVGP1	177	2	NM_002557	exon11	c.C1600A	p.P534T	TCACAGGGGTCAC	.	PASS	Atlas-SNP
KANK1	23189	hgsc.bcm.edu	37	9	731215	731215	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	153.0	69.0	126.0	0.0	0.45098	0	.	.	none	.	KANK1	231	.	NM_001256876	exon9	c.A2954G	p.K985R	GTAACAAAGATTC	.	PASS	Atlas-SNP
STPG2	285555	hgsc.bcm.edu	37	4	98893436	98893436	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	175.0	66.0	162.0	0.0	0.377143	0	.	.	none	.	.	.	.	NM_174952	exon7	c.T928G	p.Y310D	CCTGATAATCAGC	.	PASS	Atlas-SNP
NPY2R	4887	hgsc.bcm.edu	37	4	156135863	156135863	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	96.0	41.0	117.0	0.0	0.427083	0	.	.	none	.	NPY2R	87	.	NM_000910	exon2	c.C772T	p.H258Y	AATGACCACTACC	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230315	23230315	+	Silent	SNP	C	C	T	rs148489860	by1000genomes	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	140.0	60.0	108.0	0.0	0.428571	0	C|1.000;T|0.000	0.000	strong	.	IGLL5	26	.	NM_001178126	exon1	c.C82T	p.L28L	CTGCTGCTGCTGG	.	PASS	Atlas-SNP
CLVS1	157807	hgsc.bcm.edu	37	8	62289218	62289218	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	89.0	32.0	85.0	0.0	0.359551	0	.	.	none	CLVS1,NS,carcinoma,+2,1	CLVS1	74	1	NM_173519	exon3	c.C510T	p.I170I	CCTAATCGAAGAT	.	PASS	Atlas-SNP
GPX5	2880	hgsc.bcm.edu	37	6	28500106	28500106	+	Missense_Mutation	SNP	G	G	A	rs138279209		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	121.0	95.0	125.0	0.0	0.785124	0	G|1.000;A|0.000	0.000	weak	.	GPX5	42	.	NM_001509	exon4	c.G368A	p.R123H	ATGTCCGTCCAGG	.	PASS	Atlas-SNP
ZNF804A	91752	hgsc.bcm.edu	37	2	185463692	185463692	+	Silent	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	45.0	19.0	42.0	0.0	0.422222	0	.	.	none	.	ZNF804A	322	.	NM_194250	exon1	c.G6A	p.E2E	CATGGAGTGTTAC	.	PASS	Atlas-SNP
BTG1	694	hgsc.bcm.edu	37	12	92539304	92539304	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	83.0	39.0	57.0	0.0	0.46988	0	.	.	none	.	BTG1	30	.	NM_001731	exon1	c.C8G	p.P3R	TAGAAGGGATGCA	.	PASS	Atlas-SNP
LPHN1	22859	hgsc.bcm.edu	37	19	14261777	14261777	+	Missense_Mutation	SNP	G	G	A	rs375528213		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	110.0	41.0	39.0	0.0	0.372727	0	.	.	weak	.	LPHN1	107	.	NM_001008701	exon24	c.C4333T	p.R1445C	TAGGACGCCGCAC	.	PASS	Atlas-SNP
ZNF223	7766	hgsc.bcm.edu	37	19	44571010	44571010	+	Silent	SNP	A	A	G	rs141349301	bycluster;by1000genomes;alternate_allele	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	68.0	15.0	58.0	0.0	0.220588	0	A|1.000;T|0.000	.	alt	.	ZNF223	61	.	NM_013361	exon5	c.A1029G	p.P343P	GAAACCATATAAT	.	PASS	Atlas-SNP
SGK1	6446	hgsc.bcm.edu	37	6	134494230	134494230	+	Silent	SNP	C	C	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	212.0	28.0	188.0	0.0	0.132075	0	.	.	none	.	SGK1	387	.	NM_001143676	exon8	c.G765T	p.V255V	AAGGCCCACCAGG	.	PASS	Atlas-SNP
FCAMR	83953	hgsc.bcm.edu	37	1	207140994	207140994	+	Silent	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	139.0	6.0	117.0	0.0	0.0431655	0	.	.	none	.	FCAMR	125	.	NM_001170631	exon2	c.A42G	p.E14E	CACCACTTCCTGT	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230333	23230333	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	126.0	50.0	108.0	0.0	0.396825	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.G100A	p.V34I	GCCATGGTCGCCC	.	PASS	Atlas-SNP
HIST1H1B	3009	hgsc.bcm.edu	37	6	27834991	27834991	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	99.0	43.0	132.0	0.0	0.434343	0	.	.	none	.	HIST1H1B	54	.	NM_005322	exon1	c.G317C	p.G106A	AAGGAGCCAGAAG	.	PASS	Atlas-SNP
KRTAP10-11	386678	hgsc.bcm.edu	37	21	46067104	46067104	+	Silent	SNP	C	C	T	rs75548048	bycluster;by1000genomes	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	111.0	10.0	88.0	0.0	0.0900901	0	C|0.980;T|0.020	0.020	strong	.	KRTAP10-11	36	.	NM_198692	exon1	c.C729T	p.P243P	CCACCCCGTGTGC	.	PASS	Atlas-SNP
LRRC32	2615	hgsc.bcm.edu	37	11	76371849	76371849	+	Missense_Mutation	SNP	G	G	A	rs201402758	bycluster	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	174.0	59.0	121.0	0.0	0.33908	0	.	.	weak	.	LRRC32	74	.	NM_005512	exon3	c.C788T	p.A263V	GGGAGCGCGGCCA	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152679666	152679666	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	127.0	39.0	135.0	1.0	0.307087	0.00740741	.	.	none	SYNE1_ENST00000423061,NS,carcinoma,0,3	SYNE1	3227	3	NM_033071	exon66	c.G10471A	p.V3491I	TGGTTACGGCTTC	.	scavenged	Atlas-SNP
C21orf2	755	hgsc.bcm.edu	37	21	45753031	45753031	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	100.0	4.0	63.0	0.0	0.04	0	.	.	none	.	C21orf2	10	.	NM_004928	exon4	c.G258A	p.L86L	ACGCGGCAGCCCC	.	PASS	Atlas-SNP
MYO1D	4642	hgsc.bcm.edu	37	17	30932257	30932257	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	103.0	43.0	119.0	0.0	0.417476	0	.	.	none	.	MYO1D	93	.	NM_015194	exon21	c.G2712T	p.L904F	ACCAGTCAACTGC	.	PASS	Atlas-SNP
PRKACA	5566	hgsc.bcm.edu	37	19	14204559	14204559	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	162.0	67.0	152.0	0.0	0.41358	0	.	.	none	.	PRKACA	65	.	NM_002730	exon9	c.C811T	p.R271W	GGTTCCGCAGCAG	.	PASS	Atlas-SNP
WSCD2	9671	hgsc.bcm.edu	37	12	108620920	108620920	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	102.0	17.0	106.0	0.0	0.166667	0	.	.	none	.	WSCD2	125	.	NM_014653	exon6	c.G958A	p.V320M	TTCATTGTGTACC	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230364	23230364	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	142.0	58.0	109.0	0.0	0.408451	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.C131A	p.A44E	TGGTTGCACCGCA	.	PASS	Atlas-SNP
DEK	7913	hgsc.bcm.edu	37	6	18249894	18249894	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	89.0	33.0	124.0	0.0	0.370787	0	.	.	none	DEK,NS,carcinoma,0,1	DEK	31	1	NM_003472	exon7	c.A750C	p.E250D	TTCACTTTCTTTA	.	PASS	Atlas-SNP
RNF133	168433	hgsc.bcm.edu	37	7	122338692	122338692	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	73.0	26.0	112.0	0.0	0.356164	0	.	.	none	.	RNF133	41	.	NM_139175	exon1	c.G281A	p.R94Q	TTTGATCGGCTGA	.	PASS	Atlas-SNP
TECRL	253017	hgsc.bcm.edu	37	4	65188493	65188493	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	98.0	4.0	128.0	0.0	0.0408163	0	.	.	none	.	TECRL	106	.	NM_001010874	exon4	c.G349A	p.D117N	TGTAGTCCTTCAA	.	PASS	Atlas-SNP
CADM2	253559	hgsc.bcm.edu	37	3	85932591	85932591	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	59.0	22.0	79.0	0.0	0.372881	0	.	.	none	.	CADM2	195	.	NM_001167675	exon4	c.T389G	p.L130R	CCGTTCTGGGTAA	.	PASS	Atlas-SNP
HTR7	3363	hgsc.bcm.edu	37	10	92509323	92509323	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	87.0	4.0	83.0	0.0	0.045977	0	.	.	none	.	HTR7	122	.	NM_019860	exon2	c.T568C	p.Y190H	CAGGGTATGTGAG	.	PASS	Atlas-SNP
ITSN1	6453	hgsc.bcm.edu	37	21	35190669	35190669	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	142.0	60.0	155.0	0.0	0.422535	0	.	.	none	.	ITSN1	166	.	NM_001001132	exon23	c.C2826T	p.V942V	CACCGTCCTGGAA	.	PASS	Atlas-SNP
MYOF	26509	hgsc.bcm.edu	37	10	95089487	95089487	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	143.0	63.0	131.0	0.0	0.440559	0	.	.	none	.	MYOF	177	.	NM_013451	exon44	c.T4916C	p.I1639T	AGATCAATAATTG	.	PASS	Atlas-SNP
PARD6G	84552	hgsc.bcm.edu	37	18	77960661	77960661	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	91.0	42.0	136.0	0.0	0.461538	0	.	.	none	.	PARD6G	20	.	NM_032510	exon2	c.A227G	p.N76S	TCATCATTGTTGA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506555	195506555	+	Missense_Mutation	SNP	C	C	T	rs368695884		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	33.0	6.0	31.0	1.0	0.181818	0.0322581	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.G11896A	p.A3966T	AGGTGGCGTGACC	.	scavenged	Atlas-SNP
L3HYPDH	112849	hgsc.bcm.edu	37	14	59950587	59950587	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	16.0	8.0	9.0	0.0	0.5	0	.	.	none	.	.	.	.	NM_144581	exon1	c.G448A	p.D150N	GGCCGTCCTCGCA	.	PASS	Atlas-SNP
BAI1	575	hgsc.bcm.edu	37	8	143625724	143625724	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	43.0	20.0	12.0	0.0	0.465116	0	.	.	none	.	BAI1	146	.	NM_001702	exon30	c.C4701T	p.G1567G	GTCGGGCGCCACG	.	PASS	Atlas-SNP
KIAA1377	57562	hgsc.bcm.edu	37	11	101834043	101834043	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	80.0	9.0	69.0	0.0	0.1125	0	.	.	none	.	KIAA1377	111	.	NM_020802	exon6	c.A2277C	p.K759N	TAGAAAACCAGGA	.	PASS	Atlas-SNP
COL16A1	1307	hgsc.bcm.edu	37	1	32164126	32164126	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	83.0	7.0	58.0	0.0	0.0843373	0	.	.	none	.	COL16A1	137	.	NM_001856	exon5	c.G348A	p.T116T	ATACCACGTCTTC	.	PASS	Atlas-SNP
HIST2H2BE	8349	hgsc.bcm.edu	37	1	149857830	149857830	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	117.0	38.0	80.0	0.0	0.324786	0	.	.	none	.	HIST2H2BE	33	.	NM_003528	exon1	c.A361G	p.K121E	TGTACTTGGTGAC	.	PASS	Atlas-SNP
PCDHA10	56139	hgsc.bcm.edu	37	5	140236835	140236835	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	189.0	77.0	130.0	0.0	0.407407	0	.	.	none	.	PCDHA10	358	.	NM_031859	exon1	c.A1202G	p.K401R	CCTACAAGAATTA	.	PASS	Atlas-SNP
P2RY8	286530	hgsc.bcm.edu	37	X	1585217	1585217	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	260.0	105.0	218.0	0.0	0.403846	0	.	.	none	.	P2RY8	53	.	NM_178129	exon2	c.C235A	p.Q79K	AGATTTGGAAAGG	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230312	23230312	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	142.0	61.0	108.0	0.0	0.429577	0	.	.	none	IGLL5,NS,lymphoid_neoplasm,-2,1	IGLL5	26	1	NM_001178126	exon1	c.C79G	p.L27V	CCCCTGCTGCTGC	.	PASS	Atlas-SNP
OR5B3	441608	hgsc.bcm.edu	37	11	58170412	58170412	+	Silent	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	100.0	4.0	89.0	0.0	0.04	0	.	.	none	OR5B3,right_upper_lobe,carcinoma,-2,1	OR5B3	65	1	NM_001005469	exon1	c.C471T	p.H157H	CCCAGTGTGGATG	.	PASS	Atlas-SNP
PGM3	5238	hgsc.bcm.edu	37	6	83898451	83898451	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	90.0	34.0	108.0	0.0	0.377778	0	.	.	none	.	PGM3	39	.	NM_001199917	exon4	c.G355A	p.A119T	AGGTGGCATGTTC	.	PASS	Atlas-SNP
RIMS2	9699	hgsc.bcm.edu	37	8	104513174	104513174	+	Silent	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	93.0	6.0	71.0	0.0	0.0645161	0	.	.	none	.	RIMS2	1357	.	NM_001100117	exon1	c.G60A	p.P20P	TCAGCCGCCTCTG	.	PASS	Atlas-SNP
PPP2R5B	5526	hgsc.bcm.edu	37	11	64700699	64700699	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	64.0	4.0	54.0	0.0	0.0625	0	.	.	none	.	PPP2R5B	47	.	NM_006244	exon13	c.T1327C	p.Y443H	GCCTCCTACAAGC	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230402	23230402	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	146.0	61.0	101.0	0.0	0.417808	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.G169A	p.G57R	TCAGTTGGAAGCA	.	PASS	Atlas-SNP
CARD11	84433	hgsc.bcm.edu	37	7	2977605	2977605	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	69.0	33.0	52.0	0.0	0.478261	0	.	.	none	CARD11,colon,carcinoma,-1,4	CARD11	339	4	NM_032415	exon8	c.T1079C	p.M360T	TTGTACATTTCAC	.	PASS	Atlas-SNP
GDPD4	220032	hgsc.bcm.edu	37	11	76996151	76996151	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	88.0	26.0	67.0	0.0	0.295455	0	.	.	none	.	GDPD4	49	.	NM_182833	exon2	c.G32A	p.S11N	TATTCACTGGATG	.	PASS	Atlas-SNP
PDGFC	56034	hgsc.bcm.edu	37	4	157689051	157689051	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	94.0	38.0	110.0	0.0	0.404255	0	.	.	none	.	PDGFC	46	.	NM_016205	exon5	c.A795T	p.R265S	ATCGGTTCTCTTT	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	216495278	216495278	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	151.0	9.0	172.0	0.0	0.0596026	0	.	.	none	.	USH2A	1168	.	NM_007123	exon9	c.A1591C	p.S531R	GCTGGCTTGTTGT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195518110	195518110	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	156.0	11.0	121.0	0.0	0.0705128	0	.	.	none	MUC4_ENST00000463781,caecum,adenoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C341T	p.A114V	GGAGGAGCTGTCT	.	PASS	Atlas-SNP
GUCY1A3	2982	hgsc.bcm.edu	37	4	156634257	156634257	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	113.0	39.0	119.0	0.0	0.345133	0	.	.	none	.	GUCY1A3	133	.	NM_001130687	exon7	c.A1094G	p.D365G	TTATGGACCTCAA	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138355	37138355	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	33.0	10.0	29.0	0.0	0.30303	0	.	.	none	PIM1,NS,lymphoid_neoplasm,0,3	PIM1	71	3	NM_001243186	exon1	c.C277T	p.L93F	GGGATGCTCTTGT	.	PASS	Atlas-SNP
OR5C1	392391	hgsc.bcm.edu	37	9	125551542	125551542	+	Silent	SNP	C	C	T	rs201755571	by1000genomes;alternate_allele	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	81.0	4.0	91.0	0.0	0.0493827	0	C|1.000;A|0.000	.	alt	.	OR5C1	45	.	NM_001001923	exon1	c.C331T	p.L111L	GCAGGTCTGGCTG	.	PASS	Atlas-SNP
DUSP2	1844	hgsc.bcm.edu	37	2	96810590	96810590	+	Silent	SNP	G	G	C	rs187607778	bycluster;by1000genomes	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	97.0	48.0	84.0	0.0	0.494845	0	C|0.000;G|1.000	0.000	strong	DUSP2,NS,carcinoma,0,1	DUSP2	20	1	NM_004418	exon2	c.C420G	p.P140P	CAGATCGGGACAG	.	PASS	Atlas-SNP
CBX3	11335	hgsc.bcm.edu	37	7	26245986	26245986	+	Splice_Site	SNP	A	A	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	40.0	5.0	20.0	1.0	0.125	0.05	.	.	none	CBX3,colon,adenoma,0,1	CBX3	25	1	NM_007276	exon3	c.25-2A>T	.	TATTTTAGCAAAA	.	scavenged	Atlas-SNP
NPAS4	266743	hgsc.bcm.edu	37	11	66191437	66191437	+	Missense_Mutation	SNP	C	C	A	rs145746289	bycluster;by1000genomes;alternate_allele	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	49.0	17.0	48.0	0.0	0.346939	0	C|1.000;T|0.000	.	alt	.	NPAS4	133	.	NM_178864	exon7	c.C1076A	p.T359N	CCAGCACTAACCC	.	PASS	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	37	2	84785000	84785000	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	51.0	18.0	70.0	0.0	0.352941	0	.	.	none	.	DNAH6	194	.	NM_001370	exon11	c.A1744G	p.S582G	GGGCCAAGTTTAG	.	PASS	Atlas-SNP
BOD1L1	259282	hgsc.bcm.edu	37	4	13602085	13602085	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	65.0	3.0	65.0	0.0	0.0461538	0	.	.	none	BOD1L,NS,carcinoma,0,1	.	.	1	NM_148894	exon10	c.A6439G	p.S2147G	CTATGCTTGTGGA	.	scavenged	Atlas-SNP
RNF123	63891	hgsc.bcm.edu	37	3	49757994	49757994	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	105.0	42.0	78.0	0.0	0.4	0	.	.	none	.	RNF123	100	.	NM_022064	exon36	c.G3551A	p.R1184H	AGCTACGCTCAAT	.	PASS	Atlas-SNP
RHPN2	85415	hgsc.bcm.edu	37	19	33517507	33517507	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	37.0	3.0	34.0	1.0	0.0810811	0.0294118	.	.	none	RHPN2,face,carcinoma,0,2	RHPN2	107	2	NM_033103	exon3	c.G217A	p.V73M	GCCGCACTTGCTC	.	scavenged	Atlas-SNP
NFKBIE	4794	hgsc.bcm.edu	37	6	44229533	44229533	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	56.0	24.0	50.0	0.0	0.428571	0	.	.	none	.	NFKBIE	31	.	NM_004556	exon3	c.T938A	p.L313Q	AGCACCAGTGCCC	.	PASS	Atlas-SNP
GFM2	84340	hgsc.bcm.edu	37	5	74021852	74021852	+	Missense_Mutation	SNP	A	A	T	rs76339998	bycluster;by1000genomes	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	66.0	6.0	44.0	0.0	0.0909091	0	A|0.971;T|0.029	0.029	strong	GFM2,NS,carcinoma,0,1	GFM2	38	1	NM_032380	exon18	c.T1826A	p.F609Y	TACTCAAACTCAA	.	PASS	Atlas-SNP
LAMA2	3908	hgsc.bcm.edu	37	6	129636794	129636794	+	Silent	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	95.0	4.0	78.0	0.0	0.0421053	0	.	.	none	.	LAMA2	481	.	NM_000426	exon25	c.A3729G	p.G1243G	TGAAGGAAAGAAG	.	PASS	Atlas-SNP
DHRS12	79758	hgsc.bcm.edu	37	13	52345982	52345982	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	142.0	34.0	125.0	0.0	0.239437	0	.	.	none	.	DHRS12	28	.	NM_001270424	exon8	c.G681A	p.M227I	AGGATGCATGGAA	.	PASS	Atlas-SNP
TMTC4	84899	hgsc.bcm.edu	37	13	101287349	101287349	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	108.0	37.0	117.0	0.0	0.342593	0	.	.	none	.	TMTC4	103	.	NM_032813	exon11	c.C1303T	p.L435F	TGGGGAGGTAGAG	.	PASS	Atlas-SNP
DROSHA	29102	hgsc.bcm.edu	37	5	31521306	31521306	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	107.0	5.0	144.0	0.0	0.046729	0	.	.	none	.	DROSHA	130	.	NM_013235	exon5	c.A871G	p.R291G	TGTGTCTCTCCCG	.	PASS	Atlas-SNP
SERPINB10	5273	hgsc.bcm.edu	37	18	61600364	61600364	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	61.0	12.0	81.0	0.0	0.196721	0	.	.	none	.	SERPINB10	53	.	NM_005024	exon6	c.T716G	p.L239R	TGGGCCTTCAACT	.	PASS	Atlas-SNP
PFDN2	5202	hgsc.bcm.edu	37	1	161071920	161071920	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	123.0	9.0	144.0	0.0	0.0731707	0	.	.	none	.	PFDN2	10	.	NM_012394	exon3	c.A206C	p.K69T	TAGCACTTACGAG	.	PASS	Atlas-SNP
ATP10A	57194	hgsc.bcm.edu	37	15	25969147	25969147	+	Missense_Mutation	SNP	C	C	T	rs144743073		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	83.0	31.0	124.0	0.0	0.373494	0	C|1.000;T|0.000	0.000	weak	.	ATP10A	270	.	NM_024490	exon6	c.G1001A	p.R334Q	TGATACCGCCATA	.	PASS	Atlas-SNP
CFH	3075	hgsc.bcm.edu	37	1	196648799	196648799	+	Silent	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	88.0	29.0	118.0	0.0	0.329545	0	.	.	none	.	CFH	251	.	NM_001014975	exon6	c.T666C	p.S222S	TATATCTCAGAAG	.	PASS	Atlas-SNP
ZAP70	7535	hgsc.bcm.edu	37	2	98340878	98340878	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	30.0	16.0	11.0	0.0	0.533333	0	.	.	none	.	ZAP70	77	.	NM_001079	exon3	c.G379A	p.V127M	GACTACGTGCGCC	.	PASS	Atlas-SNP
CPLX3	594855	hgsc.bcm.edu	37	15	75119053	75119053	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	55.0	45.0	26.0	0.0	0.818182	0	.	.	none	.	CPLX3	12	.	NM_001030005	exon1	c.C9A	p.F3L	GGCGTTCATGGTG	.	PASS	Atlas-SNP
TSPYL2	64061	hgsc.bcm.edu	37	X	53112146	53112146	+	Missense_Mutation	SNP	C	C	T	rs144264921	bycluster;byfrequency	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	85.0	4.0	66.0	0.0	0.0470588	0	C|0.998;T|0.002	0.002	strong	.	TSPYL2	53	.	NM_022117	exon1	c.C466T	p.P156S	TGGGCGCCCCAGA	.	PASS	Atlas-SNP
BTG2	7832	hgsc.bcm.edu	37	1	203276256	203276256	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	106.0	40.0	84.0	0.0	0.377358	0	.	.	none	.	BTG2	16	.	NM_006763	exon2	c.C167T	p.P56L	GGTTTCCCGAAAA	.	PASS	Atlas-SNP
CRMP1	1400	hgsc.bcm.edu	37	4	5868477	5868477	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	83.0	24.0	100.0	1.0	0.289157	0.01	.	.	none	CRMP1,NS,carcinoma,+1,1	CRMP1	118	1	NM_001014809	exon2	c.C388T	p.R130X	GGAGTCGGTCACT	.	scavenged	Atlas-SNP
CIT	11113	hgsc.bcm.edu	37	12	120295436	120295436	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	110.0	33.0	104.0	0.0	0.3	0	.	.	none	.	CIT	535	.	NM_001206999	exon4	c.T305C	p.L102P	CCTACAAGACTTC	.	PASS	Atlas-SNP
HRCT1	646962	hgsc.bcm.edu	37	9	35906583	35906583	+	Missense_Mutation	SNP	T	T	A	rs112821450	bycluster	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	31.0	3.0	25.0	1.0	0.0967742	0.04	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
CDRT1	374286	hgsc.bcm.edu	37	17	15519066	15519066	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	231.0	18.0	208.0	0.0	0.0779221	0	.	.	none	.	CDRT1	83	.	NM_006382	exon2	c.A563C	p.K188T	GCAGACTTGGAGC	.	PASS	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	37	15	63017221	63017221	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	37.0	31.0	36.0	0.0	0.837838	0	.	.	none	.	TLN2	253	.	NM_015059	exon24	c.C3173T	p.T1058M	TGAATACGGTGCA	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230412	23230412	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	148.0	64.0	94.0	0.0	0.432432	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.G179C	p.R60P	GCAGCCGATCCAG	.	PASS	Atlas-SNP
PLEKHM2	23207	hgsc.bcm.edu	37	1	16051840	16051840	+	Silent	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	95.0	4.0	85.0	0.0	0.0421053	0	.	.	none	.	PLEKHM2	94	.	NM_015164	exon8	c.T741C	p.G247G	CAGTGGTCCCCGC	.	PASS	Atlas-SNP
ZNF761	388561	hgsc.bcm.edu	37	19	53950528	53950528	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	34.0	12.0	21.0	0.0	0.352941	0	.	.	none	.	ZNF761	104	.	NM_001008401	exon4	c.T7G	p.F3V	ATGGCTTTTTCTC	.	PASS	Atlas-SNP
NOSIP	51070	hgsc.bcm.edu	37	19	50063941	50063941	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	59.0	18.0	45.0	0.0	0.305085	0	.	.	none	.	NOSIP	28	.	NM_015953	exon3	c.G8A	p.R3Q	CCATGCCGCGTCA	.	PASS	Atlas-SNP
MKNK2	2872	hgsc.bcm.edu	37	19	2041911	2041911	+	Silent	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	38.0	5.0	35.0	0.0	0.131579	0	.	.	none	.	MKNK2	56	.	NM_017572	exon11	c.C873T	p.G291G	CGGGTAGCCGCTG	.	PASS	Atlas-SNP
UHRF2	115426	hgsc.bcm.edu	37	9	6413558	6413558	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	108.0	28.0	82.0	0.0	0.259259	0	.	.	none	.	UHRF2	50	.	NM_152896	exon1	c.C68G	p.A23G	GCAAAGCCACGAT	.	PASS	Atlas-SNP
PPP1R36	145376	hgsc.bcm.edu	37	14	65053990	65053990	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	154.0	72.0	197.0	0.0	0.467532	0	.	.	none	.	.	.	.	NM_172365	exon10	c.G790A	p.G264R	GAAGTAGGGAGAC	.	PASS	Atlas-SNP
SLITRK3	22865	hgsc.bcm.edu	37	3	164907346	164907346	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	49.0	3.0	65.0	0.0	0.0612245	0	.	.	none	SLITRK3,NS,carcinoma,+1,1	SLITRK3	263	1	NM_014926	exon2	c.C1273A	p.R425S	CAGAACGGTATAT	.	scavenged	Atlas-SNP
ADAMTSL5	339366	hgsc.bcm.edu	37	19	1510692	1510692	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	43.0	16.0	27.0	0.0	0.372093	0	.	.	none	.	ADAMTSL5	24	.	NM_213604	exon3	c.G137A	p.R46H	GAGCAGCGGGTCC	.	PASS	Atlas-SNP
HIST1H1C	3006	hgsc.bcm.edu	37	6	26056233	26056233	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	152.0	9.0	179.0	0.0	0.0592105	0	.	.	none	.	HIST1H1C	80	.	NM_005319	exon1	c.G424A	p.A142T	CGCCAGCCGCCTT	.	PASS	Atlas-SNP
ZCCHC12	170261	hgsc.bcm.edu	37	X	117959875	117959875	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	77.0	4.0	66.0	0.0	0.0519481	0	.	.	none	.	ZCCHC12	60	.	NM_173798	exon4	c.A668G	p.D223G	ATTGGGATGATGC	.	PASS	Atlas-SNP
COL3A1	1281	hgsc.bcm.edu	37	2	189849577	189849577	+	Silent	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	122.0	42.0	124.0	0.0	0.344262	0	.	.	none	.	COL3A1	292	.	NM_000090	exon2	c.A171G	p.S57S	TGACTCAGGATCC	.	PASS	Atlas-SNP
ARHGAP11A	9824	hgsc.bcm.edu	37	15	32926229	32926229	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	237.0	48.0	282.0	0.0	0.202532	0	.	.	none	.	ARHGAP11A	84	.	NM_199357	exon10	c.A1331T	p.N444I	GGAAAAATGGCAG	.	PASS	Atlas-SNP
TLL1	7092	hgsc.bcm.edu	37	4	166913969	166913969	+	Silent	SNP	C	C	T	rs377042841	alternate_allele	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	80.0	4.0	91.0	0.0	0.05	0	.	.	alt	.	TLL1	194	.	NM_001204760	exon3	c.C294T	p.D98D	TGGAGACCATGCT	.	PASS	Atlas-SNP
ZBED2	79413	hgsc.bcm.edu	37	3	111312927	111312927	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	190.0	76.0	154.0	0.0	0.4	0	.	.	none	.	ZBED2	22	.	NM_024508	exon2	c.C122T	p.A41V	GGCATAGCACTCA	.	PASS	Atlas-SNP
ETV5	2119	hgsc.bcm.edu	37	3	185797673	185797673	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	166.0	74.0	145.0	0.0	0.445783	0	.	.	none	.	ETV5	106	.	NM_004454	exon7	c.C583T	p.R195X	GTGGTCGGGGGAC	.	PASS	Atlas-SNP
ESPNL	339768	hgsc.bcm.edu	37	2	239040089	239040089	+	Missense_Mutation	SNP	C	C	T	rs199724430	bycluster;by1000genomes	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	11.0	6.0	1.0	1.0	0.545455	1	C|0.998;T|0.002	0.002	strong	ESPNL,NS,carcinoma,-1,1	ESPNL	63	1	NM_194312	exon9	c.C2734T	p.R912C	GCCGGCCGCCGGG	.	scavenged	Atlas-SNP
SWAP70	23075	hgsc.bcm.edu	37	11	9685820	9685820	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	222.0	97.0	121.0	0.0	0.436937	0	.	.	none	.	SWAP70	40	.	NM_015055	exon1	c.C94T	p.L32F	TCCCAGCTCAAGG	.	PASS	Atlas-SNP
SH3YL1	26751	hgsc.bcm.edu	37	2	218939	218939	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	94.0	43.0	111.0	0.0	0.457447	0	.	.	none	.	SH3YL1	49	.	NM_015677	exon10	c.G901A	p.D301N	TCAAATCCCCAGG	.	PASS	Atlas-SNP
PIANP	196500	hgsc.bcm.edu	37	12	6806573	6806573	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	109.0	5.0	101.0	0.0	0.0458716	0	.	.	none	.	.	.	.	NM_001244014	exon3	c.C403A	p.P135T	CATGAGGGGCTGC	.	PASS	Atlas-SNP
CCAR1	55749	hgsc.bcm.edu	37	10	70549639	70549639	+	Silent	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	167.0	8.0	158.0	0.0	0.0479042	0	.	.	none	.	CCAR1	118	.	NM_018237	exon24	c.G3360A	p.T1120T	ATCTACGGTAATG	.	PASS	Atlas-SNP
KRTAP9-9	81870	hgsc.bcm.edu	37	17	39411694	39411694	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	15.0	2.0	24.0	2.0	0.133333	0.0833333	.	.	none	KRTAP9-9,NS,carcinoma,+2,1	KRTAP9-9	24	1	NM_030975	exon1	c.G57C	p.W19C	CTGCTGGAAGCCC	.	scavenged	Atlas-SNP
FMO5	2330	hgsc.bcm.edu	37	1	146656089	146656089	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	76.0	4.0	120.0	0.0	0.0526316	0	.	.	none	.	FMO5	94	.	NM_001144829	exon9	c.G1377A	p.K459K	AGGCCCCTTTATT	.	PASS	Atlas-SNP
PSG4	5672	hgsc.bcm.edu	37	19	43708388	43708388	+	Silent	SNP	A	A	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	190.0	74.0	200.0	0.0	0.389474	0	.	.	none	.	PSG4	129	.	NM_002780	exon2	c.G80G	p.X27X	TTCCAGAAGTTTA	.	PASS	Atlas-SNP
ZDBF2	57683	hgsc.bcm.edu	37	2	207174869	207174869	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	77.0	26.0	95.0	0.0	0.337662	0	.	.	none	ZDBF2_ENST00000374423,caecum,carcinoma,0,2	ZDBF2	531	2	NM_020923	exon5	c.A5617G	p.K1873E	AAGGGGAAAAAAA	.	PASS	Atlas-SNP
NMUR1	10316	hgsc.bcm.edu	37	2	232389859	232389859	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	157.0	60.0	125.0	0.0	0.382166	0	.	.	none	.	NMUR1	46	.	NM_006056	exon3	c.G1176A	p.M392I	TGTGGTCATCCTG	.	PASS	Atlas-SNP
IWS1	55677	hgsc.bcm.edu	37	2	128263223	128263223	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	175.0	55.0	129.0	0.0	0.314286	0	.	.	none	.	IWS1	61	.	NM_017969	exon3	c.G256A	p.E86K	GAAGCTCCTCACT	.	PASS	Atlas-SNP
NFKBIA	4792	hgsc.bcm.edu	37	14	35871695	35871695	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	180.0	46.0	142.0	0.0	0.255556	0	.	.	none	.	NFKBIA	28	.	NM_020529	exon5	c.C811T	p.Q271X	TCAGCTGGCCCAG	.	PASS	Atlas-SNP
NAGA	4668	hgsc.bcm.edu	37	22	42463804	42463804	+	Missense_Mutation	SNP	G	G	T	rs140775168	bycluster;byfrequency;alternate_allele	TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	80.0	32.0	58.0	0.0	0.4	0	G|1.000;C|0.000	.	alt	.	NAGA	26	.	NM_000262	exon3	c.C289A	p.R97S	GGAAGCGCTTGGG	.	PASS	Atlas-SNP
MGAT5	4249	hgsc.bcm.edu	37	2	135102520	135102520	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	90.0	32.0	86.0	0.0	0.355556	0	.	.	none	.	MGAT5	84	.	NM_002410	exon8	c.G997A	p.G333R	GTTGTAGGAAACC	.	PASS	Atlas-SNP
SOGA2	23255	hgsc.bcm.edu	37	18	8806921	8806921	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	62.0	3.0	58.0	0.0	0.0483871	0	.	.	none	CCDC165,NS,carcinoma,-2,1	.	.	1	NM_015210	exon11	c.T2467C	p.F823L	AGCGCCTTCAAGG	.	scavenged	Atlas-SNP
STAT3	6774	hgsc.bcm.edu	37	17	40474482	40474482	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	271.0	137.0	228.0	0.0	0.505535	0	.	.	none	STAT3,NS,lymphoid_neoplasm,0,46	STAT3	268	46	NM_003150	exon21	c.A1919T	p.Y640F	TTTGTGTATGGTT	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82545106	82545106	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	78.0	31.0	99.0	0.0	0.397436	0	.	.	none	.	PCLO	1506	.	NM_014510	exon7	c.T12196C	p.F4066L	GGCTAAATGCGGT	.	PASS	Atlas-SNP
DPYD	1806	hgsc.bcm.edu	37	1	97548004	97548004	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	109.0	44.0	116.0	0.0	0.40367	0	.	.	none	.	DPYD	219	.	NM_000110	exon22	c.A2789G	p.Q930R	AGGTACTGCAGTG	.	PASS	Atlas-SNP
KRTAP10-11	386678	hgsc.bcm.edu	37	21	46067193	46067193	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	134.0	6.0	80.0	0.0	0.0447761	0	.	.	none	KRTAP10-11,NS,carcinoma,-1,1	KRTAP10-11	36	1	NM_198692	exon1	c.G818C	p.C273S	CCTCCTGCGTGTC	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138424	37138424	+	Silent	SNP	C	C	T	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	12.0	3.0	11.0	0.0	0.25	0	.	.	none	PIM1,NS,lymphoid_neoplasm,0,1	PIM1	71	1	NM_001243186	exon1	c.C346T	p.L116L	ACCAAGCTGGCGC	.	scavenged	Atlas-SNP
PCDH17	27253	hgsc.bcm.edu	37	13	58207600	58207600	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8061-01A-11D-2210-10	TCGA-FF-8061-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	a29278af-7ecf-403e-b6a9-623ea7879d05	08470796-8ff6-4e18-98d5-f9ee0d079517	66.0	15.0	66.0	0.0	0.227273	0	.	.	none	PCDH17,NS,carcinoma,+1,1	PCDH17	304	1	NM_001040429	exon1	c.G920A	p.G307D	TGAAGGGCAATCT	.	PASS	Atlas-SNP