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
NEFH	4744	hgsc.bcm.edu	37	22	29885581	29885604	+	In_Frame_Del	DEL	AGGCCAAGTCCCCAGAGAAGGAAG	AGGCCAAGTCCCCAGAGAAGGAAG	-	rs200984527		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	AGGCCAAGTCCCCAGAGAAGGAAG	AGGCCAAGTCCCCAGAGAAGGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	58	11	112	0	0.189655	0	.	.	weak	.	NEFH	178	.	NM_021076	exon4	c.1951_1974del	p.651_658del	.	.	PASS	Atlas-Indel
PRG4	10216	hgsc.bcm.edu	37	1	186277976	186277979	+	Frame_Shift_Del	DEL	GAGT	GAGT	-	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	GAGT	GAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	105	18	118	.	0.171	.	.	.	none	PRG4,NS,adenoma,-1,1	PRG4	259	1	NM_005807	exon7	c.3124_3127del	p.1042_1043del	.	.	PASS	Pindel,Atlas-Indel
PCDH15	65217	hgsc.bcm.edu	37	10	55782809	55782811	+	In_Frame_Del	DEL	ACA	ACA	-	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	ACA	ACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	134	37	171	.	0.276	.	.	.	none	PCDH15_ENST00000417177,NS,carcinoma,-2,4	PCDH15	1715	4	NM_001142763	exon20	c.2383_2385del	p.795_795del	.	.	PASS	Pindel,Atlas-Indel
RECQL5	9400	hgsc.bcm.edu	37	17	73626918	73626919	+	Splice_Site	INS	-	-	TG	rs142406301	bycluster;by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	33	12	51	0	0.363636	0	.	.	strong	.	RECQL5	77	.	NM_004259	exon13	c.1586-1->CA	.	.	.	PASS	Atlas-Indel
MBNL2	10150	hgsc.bcm.edu	37	13	97928659	97928660	+	Frame_Shift_Ins	INS	-	-	AA	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	106	37	147	.	0.349	.	.	.	none	.	MBNL2	84	.	NM_207304	exon2	c.170_171insAA	p.L57fs	.	.	PASS	Pindel,Atlas-Indel
SCN7A	6332	hgsc.bcm.edu	37	2	167313460	167313461	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	151	39	159	.	0.258	.	.	.	none	.	SCN7A	410	.	NM_002976	exon10	c.1210_1211del	p.404_404del	.	.	PASS	Pindel,Atlas-Indel
MLL2	8085	hgsc.bcm.edu	37	12	49433749	49433750	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	54	18	85	.	0.333	.	.	.	none	.	MLL2	1173	.	NM_003482	exon31	c.7804_7805del	p.2602_2602del	.	.	PASS	Pindel,Atlas-Indel
SPCS1	28972	hgsc.bcm.edu	37	3	52741760	52741760	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	202	43	331	.	0.213	.	.	.	none	.	SPCS1	20	.	NM_014041	exon4	c.441delT	p.V147fs	.	.	PASS	Pindel,Atlas-Indel
TBC1D10B	26000	hgsc.bcm.edu	37	16	30369466	30369486	+	In_Frame_Del	DEL	CCGCTCCTTCTCCTGTTTCTG	CCGCTCCTTCTCCTGTTTCTG	-	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	CCGCTCCTTCTCCTGTTTCTG	CCGCTCCTTCTCCTGTTTCTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	131	21	284	.	0.160	.	.	.	none	.	TBC1D10B	32	.	NM_015527	exon9	c.2207_2227del	p.736_743del	.	.	PASS	Pindel,Atlas-Indel
ABCF1	23	hgsc.bcm.edu	37	6	30545854	30545854	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	50	10	65	.	0.200	.	.	.	none	.	ABCF1	61	.	NM_001090	exon4	c.217delC	p.Q73fs	.	.	PASS	Pindel
SPATA3	130560	hgsc.bcm.edu	37	2	231861033	231861059	+	In_Frame_Del	DEL	CAGCAGCCTAGCCCTGAATCCACACCA	CAGCAGCCTAGCCCTGAATCCACACCA	-	rs72362780	bycluster;by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	CAGCAGCCTAGCCCTGAATCCACACCA	CAGCAGCCTAGCCCTGAATCCACACCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	62	21	98	.	0.339	.	.	.	strong	.	SPATA3	52	.	NM_139073	exon1	c.84_110del	p.28_37del	.	.	PASS	Pindel
ITPRIPL2	162073	hgsc.bcm.edu	37	16	19126354	19126354	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	4	4	5	0	1	0	.	.	none	.	ITPRIPL2	40	.	NM_001034841	exon1	c.C571T	p.R191W	GAGCCACGGAGCC	.	PASS	Atlas-SNP
R3HDM2	22864	hgsc.bcm.edu	37	12	57690294	57690294	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	69	17	134	0	0.246377	0	.	.	none	.	R3HDM2	125	.	NM_014925	exon7	c.C601T	p.R201W	GCATCCGGTGATA	.	PASS	Atlas-SNP
PCYT1B	9468	hgsc.bcm.edu	37	X	24608245	24608245	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	114	43	130	0	0.377193	0	.	.	none	.	PCYT1B	88	.	NM_004845	exon4	c.G381T	p.M127I	TTCATTCATCACG	.	PASS	Atlas-SNP
GSTA3	2940	hgsc.bcm.edu	37	6	52764808	52764808	+	Missense_Mutation	SNP	C	C	A	rs45602042	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	147	55	175	0	0.37415	0	C|0.989;T|0.011	.	alt	GSTA3,caecum,carcinoma,-1,1	GSTA3	21	1	NM_000847	exon5	c.G338T	p.R113L	TCAGGTCGACATA	.	PASS	Atlas-SNP
ADAM23	8745	hgsc.bcm.edu	37	2	207437855	207437855	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	100	4	119	0	0.04	0	.	.	none	.	ADAM23	239	.	NM_003812	exon18	c.A1673G	p.Y558C	GAGGGTATGAATG	.	PASS	Atlas-SNP
FAM118B	79607	hgsc.bcm.edu	37	11	126110774	126110774	+	Silent	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	71	33	146	1	0.464789	0.00684932	.	.	none	FAM118B,caecum,carcinoma,0,1	FAM118B	29	1	NM_024556	exon4	c.A174G	p.Q58Q	GCCCCAAGTTCCA	.	scavenged	Atlas-SNP
BIVM-ERCC5	0	hgsc.bcm.edu	37	13	103515306	103515306	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	95	30	124	0	0.315789	0	.	.	none	.	.	.	.	NM_001204425	exon16	c.G3169A	p.V1057M	GAAAATGTGGTGT	.	PASS	Atlas-SNP
NBPF15	284565	hgsc.bcm.edu	37	1	148594455	148594455	+	Missense_Mutation	SNP	A	A	G	rs1043751	bycluster;byfrequency	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	214	29	218	32	0.135514	0.146789	A|0.996;G|0.004	0.004	strong	NBPF15,NS,carcinoma,-1,1	NBPF15	20	1	NM_173638	exon19	c.A1828G	p.R610G	CTGGATAGATGTT	.	scavenged	Atlas-SNP
ZNF319	57567	hgsc.bcm.edu	37	16	58032032	58032032	+	Silent	SNP	G	G	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	32	9	40	0	0.28125	0	.	.	none	.	ZNF319	42	.	NM_020807	exon2	c.C138A	p.G46G	GGCACAGCCCAGG	.	PASS	Atlas-SNP
DRD5	1816	hgsc.bcm.edu	37	4	9783971	9783971	+	Silent	SNP	C	C	T	rs113695344		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	86	9	133	5	0.104651	0.037594	C|0.500;T|0.500	0.500	weak	DRD5,rectum,carcinoma,0,1	DRD5	119	1	NM_000798	exon1	c.C318T	p.Y106Y	CGGTTACTGGCCC	.	scavenged	Atlas-SNP
NASP	4678	hgsc.bcm.edu	37	1	46073697	46073697	+	Missense_Mutation	SNP	C	C	A	rs200497808	bycluster;byfrequency	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	247	12	322	16	0.048583	0.0496894	C|0.985;A|0.015	0.015	strong	NASP,NS,carcinoma,0,3	NASP	77	3	NM_002482	exon6	c.C1114A	p.P372T	GAGGCTCCAGTTC	.	scavenged	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	4494939	4494939	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	78	39	144	0	0.5	0	.	.	none	.	CSMD1	1469	.	NM_033225	exon2	c.C227A	p.T76N	GCAAAGGTATGGA	.	PASS	Atlas-SNP
RNF145	153830	hgsc.bcm.edu	37	5	158630641	158630641	+	Silent	SNP	C	C	T	rs74841177	bycluster	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	30	7	22	2	0.233333	0.0909091	.	.	weak	RNF145,NS,carcinoma,-1,2	RNF145	110	2	NM_001199380	exon2	c.G75A	p.K25K	TTTTTTCTTTTTT	.	scavenged	Atlas-SNP
HERC3	8916	hgsc.bcm.edu	37	4	89627997	89627997	+	Silent	SNP	G	G	A	rs147857680	byfrequency	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	177	3	216	1	0.0169492	0.00462963	G|1.000;A|0.000	0.000	strong	HERC3,NS,carcinoma,+1,1	HERC3	82	1	NM_014606	exon26	c.G3039A	p.P1013P	CTTGCCGGTGGCC	.	scavenged	Atlas-SNP
ZSCAN20	7579	hgsc.bcm.edu	37	1	33959918	33959918	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	169	73	240	0	0.431953	0	.	.	none	.	ZSCAN20	107	.	NM_145238	exon8	c.C1974T	p.C658C	TGTTTGCCAACCT	.	PASS	Atlas-SNP
AKAP2	11217	hgsc.bcm.edu	37	9	112811038	112811038	+	Missense_Mutation	SNP	C	C	T	rs78923754	bycluster;byfrequency;by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	6	4	2	0	0.666667	0	C|0.917;T|0.083	0.083	strong	.	AKAP2	98	.	NM_001004065	exon1	c.C59T	p.P20L	GACCCCCGGAGTC	.	PASS	Atlas-SNP
PATE1	160065	hgsc.bcm.edu	37	11	125616559	125616559	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	128	44	174	0	0.34375	0	.	.	none	.	PATE1	21	.	NM_138294	exon2	c.T56C	p.L19S	CAGCATTATCTGG	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	4494914	4494914	+	Silent	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	64	34	109	0	0.53125	0	.	.	none	.	CSMD1	1469	.	NM_033225	exon2	c.T252C	p.D84D	TAAAATATCAAAA	.	PASS	Atlas-SNP
P2RY13	53829	hgsc.bcm.edu	37	3	151047297	151047297	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	257	4	319	0	0.0155642	0	.	.	none	P2RY13_ENST00000325602,NS,carcinoma,0,1	P2RY13	80	1	NM_176894	exon1	c.G20A	p.R7K	CTCTGTCTTCTTA	.	scavenged	Atlas-SNP
C2CD4C	126567	hgsc.bcm.edu	37	19	407323	407323	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	22	17	16	0	0.772727	0	.	.	none	.	C2CD4C	13	.	NM_001136263	exon2	c.G1039T	p.G347C	ACAGGCCCACGCA	.	PASS	Atlas-SNP
DND1	373863	hgsc.bcm.edu	37	5	140052407	140052407	+	Missense_Mutation	SNP	G	G	A	rs75523379		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	21	6	21	1	0.285714	0.047619	.	.	weak	DND1,NS,carcinoma,0,1	DND1	15	1	NM_194249	exon3	c.C227T	p.P76L	AACAGCGGGATAA	.	scavenged	Atlas-SNP
VTI1A	143187	hgsc.bcm.edu	37	10	114575107	114575107	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	150	3	217	2	0.02	0.00921659	.	.	none	VTI1A,caecum,carcinoma,-1,4	VTI1A	15	4	NM_145206	exon8	c.C619T	p.L207L	ACCATCCTGATGG	.	scavenged	Atlas-SNP
KLRC2	3822	hgsc.bcm.edu	37	12	10588444	10588444	+	Missense_Mutation	SNP	G	G	C	rs34194304		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	234	21	287	17	0.0897436	0.0592334	.	.	weak	KLRC2,NS,carcinoma,+1,1	KLRC2	29	1	NM_002260	exon1	c.C142G	p.P48A	GGGAAGGATTTTG	.	scavenged	Atlas-SNP
B2M	567	hgsc.bcm.edu	37	15	45007710	45007710	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	103	87	123	0	0.84466	0	.	.	none	B2M,colon,carcinoma,-2,1	B2M	99	1	NM_004048	exon2	c.T157A	p.S53T	CATCCATCCGACA	.	PASS	Atlas-SNP
KRTAP21-1	337977	hgsc.bcm.edu	37	21	32127679	32127679	+	Silent	SNP	G	G	A	rs147444076	bycluster;by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	34	19	41	0	0.558824	0	G|1.000;A|0.000	0.000	strong	KRTAP21-1,NS,carcinoma,0,1	KRTAP21-1	23	1	NM_181619	exon1	c.C18T	p.Y6Y	GTTGCCGTAGTAG	.	PASS	Atlas-SNP
ZNF438	220929	hgsc.bcm.edu	37	10	31138094	31138094	+	Silent	SNP	T	T	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	64	29	57	0	0.453125	0	.	.	none	.	ZNF438	90	.	NM_182755	exon7	c.A1240C	p.R414R	TTACTCTTTCTTT	.	PASS	Atlas-SNP
FAIM	55179	hgsc.bcm.edu	37	3	138341028	138341028	+	Splice_Site	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	24	6	26	0	0.25	0	.	.	none	.	FAIM	27	.	NM_001033032	exon3	c.112-2A>G	.	TTATGTAGGAAGA	.	PASS	Atlas-SNP
PFN1	5216	hgsc.bcm.edu	37	17	4849259	4849259	+	Missense_Mutation	SNP	T	T	G	rs199714966	bycluster;alternate_allele	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	195	71	331	0	0.364103	0	.	.	alt	.	PFN1	6	.	NM_005022	exon3	c.A359C	p.H120P	CCACCGTGGACAC	.	PASS	Atlas-SNP
HTR3A	3359	hgsc.bcm.edu	37	11	113848285	113848285	+	Silent	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	63	24	73	0	0.380952	0	.	.	none	.	HTR3A	93	.	NM_001161772	exon1	c.G9A	p.R3R	GCATAGGTCCTTT	.	PASS	Atlas-SNP
CYP11B1	1584	hgsc.bcm.edu	37	8	143956474	143956474	+	Missense_Mutation	SNP	C	C	T	rs368155421		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	86	2	125	0	0.0232558	0	.	.	weak	CYP11B1,left_upper_lobe,carcinoma,+1,1	CYP11B1	128	1	NM_000497	exon8	c.G1297A	p.G433S	CGGAGCCCCTGAT	.	scavenged	Atlas-SNP
CHEK2	11200	hgsc.bcm.edu	37	22	29107902	29107902	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	65	4	102	0	0.0615385	0	.	.	none	.	CHEK2	438	.	NM_001005735	exon7	c.G916A	p.E306K	CTGCCTCTCTTGC	.	PASS	Atlas-SNP
PRAMEF4	400735	hgsc.bcm.edu	37	1	12942173	12942173	+	Missense_Mutation	SNP	C	C	G	rs71232900		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	33	4	61	0	0.121212	0	C|0.500;G|0.500	0.500	weak	PRAMEF4,NS,carcinoma,0,1	PRAMEF4	62	1	NM_001009611	exon3	c.G377C	p.C126S	AGGAAGCACCCAT	.	scavenged	Atlas-SNP
SHH	6469	hgsc.bcm.edu	37	7	155599176	155599176	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	94	4	151	0	0.0425532	0	.	.	none	.	SHH	34	.	NM_000193	exon2	c.G376A	p.E126K	AGCCCTCGGTCAC	.	PASS	Atlas-SNP
MUC15	143662	hgsc.bcm.edu	37	11	26582750	26582750	+	Silent	SNP	C	C	T	rs201499877	by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	129	4	150	0	0.0310078	0	C|0.999;T|0.001	0.001	strong	MUC15,NS,carcinoma,0,1	MUC15	88	1	NM_001135091	exon5	c.G948A	p.P316P	AGGTTCCGGTGCA	.	scavenged	Atlas-SNP
B2M	567	hgsc.bcm.edu	37	15	45007681	45007681	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	81	67	109	0	0.82716	0	.	.	none	B2M,colon,carcinoma,0,2	B2M	99	2	NM_004048	exon2	c.T128G	p.L43R	ATTTCCTGAATTG	.	PASS	Atlas-SNP
CEP290	80184	hgsc.bcm.edu	37	12	88483187	88483187	+	Silent	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	100	4	132	0	0.04	0	.	.	none	.	CEP290	195	.	NM_025114	exon31	c.T3651C	p.A1217A	ACCAAGAGCAGTA	.	PASS	Atlas-SNP
TCHHL1	126637	hgsc.bcm.edu	37	1	152057648	152057648	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	339	6	312	0	0.0176991	0	.	.	none	TCHHL1,NS,carcinoma,-1,1	TCHHL1	132	1	NM_001008536	exon3	c.T2510C	p.V837A	AGGGATACACTGC	.	scavenged	Atlas-SNP
BCL6	604	hgsc.bcm.edu	37	3	187442783	187442783	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	88	32	143	0	0.363636	0	.	.	none	.	BCL6	107	.	NM_001706	exon9	c.C1923A	p.H641Q	CTGAAGGTGCCGG	.	PASS	Atlas-SNP
MXRA5	25878	hgsc.bcm.edu	37	X	3242042	3242042	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	282	101	387	1	0.358156	0.00258398	.	.	none	.	MXRA5	815	.	NM_015419	exon5	c.G1684T	p.E562X	CCATTTCATCCCT	.	PASS	Atlas-SNP
PFN1	5216	hgsc.bcm.edu	37	17	4849260	4849260	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	196	72	330	0	0.367347	0	.	.	none	.	PFN1	6	.	NM_005022	exon3	c.C358G	p.H120D	CACCGTGGACACC	.	PASS	Atlas-SNP
UNKL	64718	hgsc.bcm.edu	37	16	1417803	1417803	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	127	73	146	0	0.574803	0	.	.	none	.	UNKL	46	.	NM_001193388	exon13	c.A1642G	p.S548G	AGGGGCTGGGGGA	.	PASS	Atlas-SNP
C1orf86	199990	hgsc.bcm.edu	37	1	2121165	2121165	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	84	3	222	0	0.0357143	0	.	.	none	C1orf86,NS,carcinoma,0,1	C1orf86	20	1	NM_182533	exon4	c.G526A	p.E176K	CGTCTTCTGTGCT	.	scavenged	Atlas-SNP
GYPA	2993	hgsc.bcm.edu	37	4	145041720	145041720	+	Missense_Mutation	SNP	A	A	G	rs7682260	bycluster;byfrequency;by2hit2allele	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	148	34	181	29	0.22973	0.160221	A|0.519;G|0.481	0.481	strong	GYPA,NS,carcinoma,0,1	GYPA	27	1	NM_002099	exon2	c.T59C	p.L20S	GTACTTAATGCTG	.	scavenged	Atlas-SNP
MLLT3	4300	hgsc.bcm.edu	37	9	20414376	20414376	+	Silent	SNP	A	A	G	rs1761445	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	37	5	50	1	0.135135	0.02	A|0.906;G|0.094	0.094	strong	MLLT3,colon,carcinoma,0,3	MLLT3	125	3	NM_004529	exon5	c.T468C	p.S156S	GCTGCTACTGCTG	.	scavenged	Atlas-SNP
MLLT1	4298	hgsc.bcm.edu	37	19	6230658	6230658	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	39	26	78	0	0.666667	0	.	.	none	MLLT1,NS,carcinoma,+2,1	MLLT1	47	1	NM_005934	exon4	c.A343T	p.N115Y	GGTGGTTCACGGG	.	PASS	Atlas-SNP
ERC2	26059	hgsc.bcm.edu	37	3	56052950	56052950	+	Missense_Mutation	SNP	G	G	A	rs201400364	by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	148	57	212	0	0.385135	0	G|1.000;A|0.000	0.000	strong	.	ERC2	221	.	NM_015576	exon8	c.C1751T	p.A584V	AGCGTCGCCAGTG	.	PASS	Atlas-SNP
OR10K2	391107	hgsc.bcm.edu	37	1	158389824	158389824	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	185	3	169	0	0.0162162	0	.	.	none	OR10K2,NS,carcinoma,-1,1	OR10K2	69	1	NM_001004476	exon1	c.A833G	p.Y278C	ATAGTGTAGGATA	.	scavenged	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144857010	144857010	+	Missense_Mutation	SNP	T	T	C	rs3853916	bycluster	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	770	13	1046	17	0.0168831	0.0162524	.	.	weak	PDE4DIP,NS,carcinoma,0,1	PDE4DIP	817	1	NM_014644	exon40	c.A6475G	p.T2159A	GAGGGGTCTTCAT	.	scavenged	Atlas-SNP
UBE2QL1	134111	hgsc.bcm.edu	37	5	6491453	6491453	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	68	30	88	0	0.441176	0	.	.	none	.	UBE2QL1	10	.	NM_001145161	exon2	c.C477T	p.S159S	CGTGTCCGACGGC	.	PASS	Atlas-SNP
KRTAP27-1	643812	hgsc.bcm.edu	37	21	31709494	31709494	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	84	3	127	0	0.0357143	0	.	.	none	KRTAP27-1,colon,carcinoma,+1,1	KRTAP27-1	53	1	NM_001077711	exon1	c.T493C	p.S165P	TCTGAGACTGACA	.	scavenged	Atlas-SNP
KSR2	283455	hgsc.bcm.edu	37	12	117962801	117962801	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	84	38	139	0	0.452381	0	.	.	none	.	KSR2	208	.	NM_173598	exon14	c.G1988A	p.R663Q	ATCAGCCGGATGG	.	PASS	Atlas-SNP
C14orf28	122525	hgsc.bcm.edu	37	14	45370114	45370114	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	85	31	88	0	0.364706	0	.	.	none	C14orf28,NS,carcinoma,0,1	C14orf28	32	1	NM_001017923	exon2	c.G476A	p.R159Q	ACTGGCGATGCCC	.	PASS	Atlas-SNP
TYW1	55253	hgsc.bcm.edu	37	7	66514943	66514943	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	177	3	189	0	0.0169492	0	.	.	none	TYW1,NS,carcinoma,0,1	TYW1	71	1	NM_018264	exon8	c.A992G	p.K331R	GAGAAAAGGAACA	.	scavenged	Atlas-SNP
PRAMEF1	65121	hgsc.bcm.edu	37	1	12855647	12855647	+	Silent	SNP	C	C	T	rs200536957		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	231	23	376	61	0.0995671	0.162234	C|0.999;T|0.001	0.001	weak	PRAMEF1,NS,carcinoma,+2,2	PRAMEF1	78	2	NM_023013	exon4	c.C927T	p.D309D	AGAAGACATGAAG	.	scavenged	Atlas-SNP
POTEE	445582	hgsc.bcm.edu	37	2	132021684	132021684	+	Missense_Mutation	SNP	C	C	A	rs28583670		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	299	5	575	5	0.0167224	0.00869565	.	.	weak	ENSG00000188219,NS,carcinoma,-1,1	.	.	1	NM_001083538	exon15	c.C2656A	p.P886T	GAACTGCCTGACT	.	scavenged	Atlas-SNP
ARHGAP10	79658	hgsc.bcm.edu	37	4	148787894	148787894	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	212	5	255	0	0.0235849	0	.	.	none	ARHGAP10,NS,carcinoma,-1,1	ARHGAP10	92	1	NM_024605	exon7	c.T629C	p.F210S	TTACCTTCTATCA	.	scavenged	Atlas-SNP
RBMX2	51634	hgsc.bcm.edu	37	X	129545348	129545348	+	Silent	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	99	48	107	0	0.484848	0	.	.	none	.	RBMX2	46	.	NM_016024	exon5	c.T330C	p.D110D	AGTGGATCATGTG	.	PASS	Atlas-SNP
DLGAP2	9228	hgsc.bcm.edu	37	8	1497731	1497731	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	65	13	86	0	0.2	0	.	.	none	.	DLGAP2	292	.	NM_004745	exon2	c.G872A	p.W291X	GCTCCTGGTCTAC	.	PASS	Atlas-SNP
ZNF676	163223	hgsc.bcm.edu	37	19	22363817	22363817	+	Silent	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	24	3	26	1	0.125	0.0384615	.	.	none	ZNF676,NS,carcinoma,-1,2	ZNF676	146	2	NM_001001411	exon3	c.T702C	p.F234F	TCGATTAAAAGCT	.	scavenged	Atlas-SNP
SLC6A3	6531	hgsc.bcm.edu	37	5	1406387	1406387	+	Silent	SNP	G	G	A	rs114563841	by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	84	26	160	0	0.309524	0	G|0.995;A|0.005	0.005	strong	.	SLC6A3	102	.	NM_001044	exon12	c.C1515T	p.S505S	GTCGTCGCTGAAC	.	PASS	Atlas-SNP
ARID1A	8289	hgsc.bcm.edu	37	1	27056217	27056217	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	269	99	376	1	0.36803	0.00265957	.	.	none	ARID1A,NS,carcinoma,0,1	ARID1A	842	1	NM_006015	exon2	c.C1213T	p.Q405X	CAGCAACAGGGAC	.	PASS	Atlas-SNP
EZH2	2146	hgsc.bcm.edu	37	7	148523590	148523590	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	87	2	97	0	0.0229885	0	.	.	none	EZH2_ENST00000350995,rectum,carcinoma,+1,8	EZH2	823	8	NM_001203247	exon8	c.G863A	p.R288Q	AAACATCGCCTAC	.	scavenged	Atlas-SNP
RELN	5649	hgsc.bcm.edu	37	7	103236931	103236931	+	Missense_Mutation	SNP	T	T	G	rs374443790	alternate_allele	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	187	46	188	0	0.245989	0	.	.	alt	.	RELN	593	.	NM_173054	exon25	c.A3511C	p.M1171L	AGTACATCTCTGC	.	PASS	Atlas-SNP
FPR2	2358	hgsc.bcm.edu	37	19	52272028	52272028	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	250	3	403	0	0.012	0	.	.	none	FPR2,mouth,carcinoma,+2,1	FPR2	66	1	NM_001005738	exon2	c.C117T	p.L39L	TGTCCTCGGGGTC	.	scavenged	Atlas-SNP
KPRP	448834	hgsc.bcm.edu	37	1	152732767	152732767	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	129	30	142	0	0.232558	0	.	.	none	.	KPRP	152	.	NM_001025231	exon2	c.C703T	p.Q235X	CAGTGCCAGACCC	.	PASS	Atlas-SNP
ATOH1	474	hgsc.bcm.edu	37	4	94750977	94750977	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	37	13	44	0	0.351351	0	.	.	none	.	ATOH1	40	.	NM_005172	exon1	c.C900T	p.S300S	GGACAGCGCCCTG	.	PASS	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	37	2	109367729	109367729	+	Missense_Mutation	SNP	G	G	A	rs2556291	bycluster	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	381	5	482	2	0.0131234	0.00414938	G|0.500;A|0.500	0.500	weak	RANBP2_ENST00000283195,NS,carcinoma,0,6	RANBP2	488	6	NM_006267	exon10	c.G1283A	p.R428Q	CTATTCGAGCACA	.	scavenged	Atlas-SNP
PCDHA13	56136	hgsc.bcm.edu	37	5	140263476	140263476	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	24	14	55	0	0.583333	0	.	.	none	.	PCDHA13	213	.	NM_031865	exon1	c.C1623T	p.G541G	CTCTGGCGTGCCG	.	PASS	Atlas-SNP
HCRTR2	3062	hgsc.bcm.edu	37	6	55113583	55113583	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	142	59	211	0	0.415493	0	.	.	none	.	HCRTR2	112	.	NM_001526	exon2	c.C370A	p.Q124K	TTTGGACAGTCCC	.	PASS	Atlas-SNP
DEFA3	1668	hgsc.bcm.edu	37	8	6873603	6873603	+	Missense_Mutation	SNP	T	T	G	rs2230231	bycluster;byfrequency;byhapmap	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	427	15	689	28	0.0351288	0.0406386	T|0.167;G|0.833	0.833	strong	DEFA3,NS,carcinoma,0,1	DEFA3	7	1	NM_005217	exon3	c.A194C	p.D65A	TAGCAGTCCATGT	.	scavenged	Atlas-SNP
CACNA1F	778	hgsc.bcm.edu	37	X	49088337	49088337	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	70	19	102	0	0.271429	0	.	.	none	.	CACNA1F	218	.	NM_001256789	exon2	c.G78A	p.W26X	CAGCCCCCATTCG	.	PASS	Atlas-SNP
MUC12	10071	hgsc.bcm.edu	37	7	100634964	100634964	+	Missense_Mutation	SNP	C	C	A	rs4370452	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	3	3	0	0	1	.	C|0.492;A|0.508	0.508	strong	MUC12,NS,carcinoma,0,1	MUC12	140	1	NM_001164462	exon2	c.C1120A	p.P374T	CACTTCCCTGAAA	.	scavenged	Atlas-SNP
RNF145	153830	hgsc.bcm.edu	37	5	158630639	158630639	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	31	2	23	1	0.0645161	0.0434783	.	.	none	RNF145,caecum,carcinoma,0,4	RNF145	110	4	NM_001199380	exon2	c.A77G	p.K26R	TTTTTTTTCTTTT	.	scavenged	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54744358	54744358	+	Nonsense_Mutation	SNP	A	A	C	rs1052992	bycluster	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	16	16	32	32	1	1	A|1.000;|0.000	.	weak	LILRA6,NS,carcinoma,0,1	LILRA6	75	1	NM_024318	exon6	c.T1050G	p.Y350X	GTCAAAATAACCC	.	scavenged	Atlas-SNP
CYP7A1	1581	hgsc.bcm.edu	37	8	59409213	59409213	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	64	4	80	0	0.0625	0	.	.	none	CYP7A1,NS,carcinoma,-1,2	CYP7A1	76	2	NM_000780	exon3	c.G858A	p.S286S	TGCTTGCGATGCC	.	PASS	Atlas-SNP
MEF2C	4208	hgsc.bcm.edu	37	5	88100564	88100564	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	174	4	250	0	0.0229885	0	.	.	none	MEF2C_ENST00000437473,NS,carcinoma,0,2	MEF2C	184	2	NM_001193350	exon3	c.G109A	p.V37M	ACAGCACGCTCAG	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513411	195513411	+	Silent	SNP	A	A	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	292	4	512	10	0.0136986	0.0195312	.	.	none	MUC4_ENST00000463781,trunk,malignant_melanoma,-2,4	MUC4	1505	4	NM_018406	exon2	c.T5040A	p.P1680P	AGGAAGAGGGGTG	.	scavenged	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	37	22	25016442	25016442	+	Missense_Mutation	SNP	C	C	T	rs3895576	bycluster;by2hit2allele	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	333	25	531	14	0.0750751	0.0263653	.	.	weak	GGT1,NS,carcinoma,0,1	GGT1	68	1	NM_013430	exon8	c.C530T	p.A177V	CGGCAGCCCTGGA	.	scavenged	Atlas-SNP
PCDHA6	56142	hgsc.bcm.edu	37	5	140209043	140209043	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	197	2	327	1	0.0101523	0.0030581	.	.	none	PCDHA6_ENST00000529310,NS,carcinoma,+1,2	PCDHA6	442	2	NM_018909	exon1	c.C1367T	p.A456V	CGTTCGCGCAGCC	.	scavenged	Atlas-SNP
XPO1	7514	hgsc.bcm.edu	37	2	61726851	61726851	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	201	144	104	0	0.716418	0	.	.	none	.	XPO1	108	.	NM_003400	exon7	c.A587T	p.D196V	TGCCTGTCTTTTA	.	PASS	Atlas-SNP
PIGC	5279	hgsc.bcm.edu	37	1	172411314	172411314	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	114	61	123	0	0.535088	0	.	.	none	.	PIGC	24	.	NM_153747	exon2	c.A449G	p.Y150C	ATGGCATAGATGG	.	PASS	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4511354	4511354	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	157	3	284	3	0.0191083	0.0105634	.	.	none	PLIN4_ENST00000301286,NS,carcinoma,0,2	PLIN4	191	2	NM_001080400	exon3	c.C2576T	p.A859V	ACTTTCGCAGCAC	.	scavenged	Atlas-SNP
HECW2	57520	hgsc.bcm.edu	37	2	197105187	197105187	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	81	2	118	0	0.0246914	0	.	.	none	HECW2,NS,carcinoma,0,2	HECW2	239	2	NM_020760	exon21	c.C3750A	p.F1250L	CCCAACGAAGGTG	.	scavenged	Atlas-SNP
NOTCH2	4853	hgsc.bcm.edu	37	1	120539668	120539668	+	Missense_Mutation	SNP	T	T	A	rs200464440	bycluster	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	265	3	403	4	0.0113208	0.00992556	.	.	weak	NOTCH2_ENST00000369342,NS,carcinoma,0,2	NOTCH2	348	2	NM_001200001	exon4	c.A703T	p.T235S	GACAGGTGCCTCC	.	scavenged	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	37	6	90437660	90437660	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	61	28	79	0	0.459016	0	.	.	none	.	MDN1	478	.	NM_014611	exon37	c.G5364A	p.L1788L	TCCAAACAGGTCT	.	PASS	Atlas-SNP
MEF2BNB-MEF2B	4207	hgsc.bcm.edu	37	19	19260045	19260045	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	97	70	172	2	0.721649	0.0116279	.	.	none	MEF2BNB-MEF2B,NS,lymphoid_neoplasm,0,15	MEF2BNB-MEF2B	29	15	NM_005919	exon5	c.A248C	p.D83A	AGGATGTCAGTGT	.	scavenged	Atlas-SNP
HAUS6	54801	hgsc.bcm.edu	37	9	19058365	19058365	+	Silent	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	132	49	196	0	0.371212	0	.	.	none	.	HAUS6	66	.	NM_017645	exon16	c.A2400G	p.K800K	CTCCAGTTTAAAA	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092950	1092950	+	Missense_Mutation	SNP	C	C	T	rs199605832	bycluster	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	55	3	149	1	0.0545455	0.00671141	.	.	weak	MUC2_ENST00000441003,NS,carcinoma,0,2	MUC2	614	2	NM_002457	exon30	c.C4769T	p.T1590I	CCACCACTACGGT	.	scavenged	Atlas-SNP
ANK3	288	hgsc.bcm.edu	37	10	61946498	61946498	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	100	55	136	0	0.55	0	.	.	none	.	ANK3	703	.	NM_020987	exon17	c.A2060G	p.N687S	TTCGCATTTCTAC	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017483	1017483	+	Missense_Mutation	SNP	T	T	G	rs79986665	bycluster	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	411	89	901	170	0.216545	0.188679	T|0.500;G|0.500	0.500	weak	MUC6_ENST00000421673,NS,carcinoma,0,2	MUC6	408	2	NM_005961	exon31	c.A5318C	p.H1773P	CTGGTGTGGTTGG	.	scavenged	Atlas-SNP
MINK1	50488	hgsc.bcm.edu	37	17	4797860	4797860	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	75	4	108	0	0.0533333	0	.	.	none	.	MINK1	110	.	NM_153827	exon24	c.C2849T	p.S950L	AGAGCTCGTTCAC	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	37	2	128350377	128350377	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	63	22	116	0	0.349206	0	.	.	none	.	MYO7B	359	.	NM_001080527	exon17	c.C2001G	p.D667E	GTTCGACCGGGAG	.	PASS	Atlas-SNP
FUT5	2527	hgsc.bcm.edu	37	19	5867725	5867725	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	107	32	223	0	0.299065	0	.	.	none	.	FUT5	29	.	NM_002034	exon2	c.G12A	p.L4L	TGGGCCCAGGGGA	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092553	1092553	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	164	7	270	5	0.0426829	0.0185185	.	.	none	MUC2_ENST00000441003,extremity,malignant_melanoma,-1,2	MUC2	614	2	NM_002457	exon30	c.A4372C	p.I1458L	CCTCCAATAAGCA	.	scavenged	Atlas-SNP
FPGT-TNNI3K	100526835	hgsc.bcm.edu	37	1	74957869	74957869	+	Missense_Mutation	SNP	G	G	A	rs200277602		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	164	3	219	0	0.0182927	0	.	.	weak	TNNI3K,NS,carcinoma,-1,1	.	.	1	NM_001112808	exon25	c.G2573A	p.R858Q	CTGGCCGGAGTCA	.	scavenged	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4512945	4512945	+	Missense_Mutation	SNP	C	C	T	rs75031432	bycluster;byfrequency	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	224	4	386	3	0.0178571	0.00777202	C|0.826;T|0.174	0.174	strong	PLIN4_ENST00000301286,NS,carcinoma,0,2	PLIN4	191	2	NM_001080400	exon3	c.G985A	p.G329S	TGGCACCAGTCAC	.	scavenged	Atlas-SNP
PRB2	653247	hgsc.bcm.edu	37	12	11545937	11545937	+	Missense_Mutation	SNP	C	C	G	rs367874175	bycluster	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	377	7	654	7	0.0185676	0.0107034	.	.	weak	PRB2_ENST00000389362,brain,glioma,0,2	PRB2	168	2	NM_006248	exon3	c.G1075C	p.A359P	ATCGGGCACTTCG	.	scavenged	Atlas-SNP
TRPS1	7227	hgsc.bcm.edu	37	8	116616371	116616371	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	115	3	121	0	0.026087	0	.	.	none	TRPS1_ENST00000395715,NS,carcinoma,+1,2	TRPS1	516	2	NM_014112	exon4	c.G1825A	p.A609T	AGAGTGCACAGTG	.	scavenged	Atlas-SNP
CDC42BPA	8476	hgsc.bcm.edu	37	1	227223299	227223299	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	152	3	128	0	0.0197368	0	.	.	none	CDC42BPA_ENST00000366769,NS,carcinoma,+1,3	CDC42BPA	528	3	NM_003607	exon24	c.T3104C	p.F1035S	CATGAGAATCCAC	.	scavenged	Atlas-SNP
NLRC5	84166	hgsc.bcm.edu	37	16	57060777	57060777	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	161	103	145	0	0.639752	0	.	.	none	.	NLRC5	186	.	NM_032206	exon5	c.T1922G	p.F641C	TGCCCTTCCACAA	.	PASS	Atlas-SNP
KIAA0408	9729	hgsc.bcm.edu	37	6	127768258	127768258	+	Silent	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	80	31	77	0	0.3875	0	.	.	none	.	KIAA0408	61	.	NM_014702	exon5	c.T1206C	p.H402H	ATCAGGATGAGAT	.	PASS	Atlas-SNP
EZH2	2146	hgsc.bcm.edu	37	7	148508727	148508727	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	36	14	31	0	0.388889	0	.	.	none	EZH2_ENST00000350995,face,carcinoma,-1,214	EZH2	823	214	NM_004456	exon16	c.A1937T	p.Y646F	CCACAGTATTCTG	.	PASS	Atlas-SNP
NCKAP5	344148	hgsc.bcm.edu	37	2	133542832	133542832	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	129	46	157	0	0.356589	0	.	.	none	.	NCKAP5	322	.	NM_207363	exon14	c.A1552G	p.R518G	GTTTTCTGTTTGT	.	PASS	Atlas-SNP
LOXL4	84171	hgsc.bcm.edu	37	10	100017842	100017842	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	72	25	118	0	0.347222	0	.	.	none	.	LOXL4	60	.	NM_032211	exon7	c.C1001T	p.T334M	CAGACCGTGCCCC	.	PASS	Atlas-SNP
SMOC1	64093	hgsc.bcm.edu	37	14	70459149	70459149	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	79	4	110	0	0.0506329	0	.	.	none	.	SMOC1	61	.	NM_001034852	exon6	c.C542T	p.P181L	CTAAGCCGACACC	.	PASS	Atlas-SNP
SLFN12	55106	hgsc.bcm.edu	37	17	33738875	33738875	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	47	18	74	0	0.382979	0	.	.	none	SLFN12,colon,carcinoma,+2,1	SLFN12	56	1	NM_018042	exon4	c.A1219C	p.K407Q	ATTGCTTAAGTCC	.	PASS	Atlas-SNP
SPRED3	399473	hgsc.bcm.edu	37	19	38882747	38882747	+	Silent	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	79	35	110	0	0.443038	0	.	.	none	.	SPRED3	47	.	NM_001042522	exon2	c.G339A	p.L113L	CGCACTGGGTCGA	.	PASS	Atlas-SNP
PRKAG3	53632	hgsc.bcm.edu	37	2	219694845	219694845	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	95	3	97	0	0.0315789	0	.	.	none	PRKAG3,NS,carcinoma,-1,1	PRKAG3	47	1	NM_017431	exon4	c.G489A	p.P163P	GGCCTGCGGGGAC	.	scavenged	Atlas-SNP
ANKRD35	148741	hgsc.bcm.edu	37	1	145561654	145561654	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	148	44	124	0	0.297297	0	.	.	none	.	ANKRD35	96	.	NM_144698	exon10	c.G1342A	p.G448R	ACCAATGGGGCAC	.	PASS	Atlas-SNP
DAAM2	23500	hgsc.bcm.edu	37	6	39832772	39832772	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	105	37	189	0	0.352381	0	.	.	none	.	DAAM2	101	.	NM_015345	exon5	c.C350T	p.A117V	TGTACGCGTTTGA	.	PASS	Atlas-SNP
ARHGEF5	7984	hgsc.bcm.edu	37	7	144062632	144062632	+	Nonsense_Mutation	SNP	C	C	G	rs202036368		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	146	34	217	44	0.232877	0.202765	.	.	weak	ARHGEF5,NS,carcinoma,0,1	ARHGEF5	73	1	NM_005435	exon2	c.C2870G	p.S957X	GGGTCTCAGAACA	.	scavenged	Atlas-SNP
EGFR	1956	hgsc.bcm.edu	37	7	55214404	55214404	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	69	16	97	0	0.231884	0	.	.	none	.	EGFR	20426	.	NM_201283	exon4	c.C530T	p.S177L	ACATGTCGATGGA	.	PASS	Atlas-SNP
OR2L8	391190	hgsc.bcm.edu	37	1	248112914	248112914	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	208	45	234	0	0.216346	0	.	.	none	OR2L8,right_upper_lobe,carcinoma,0,1	OR2L8	92	1	NM_001001963	exon1	c.C755A	p.A252E	ACTATGCACCTTT	.	PASS	Atlas-SNP
RSPO3	84870	hgsc.bcm.edu	37	6	127476585	127476585	+	Splice_Site	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	50	24	59	0	0.48	0	.	.	none	RSPO3,NS,carcinoma,+2,1	RSPO3	32	1	NM_032784	exon4	c.634+2T>C	.	ACGAGGTACAATC	.	PASS	Atlas-SNP
AURKA	6790	hgsc.bcm.edu	37	20	54945628	54945628	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	92	31	126	0	0.336957	0	.	.	none	.	AURKA	42	.	NM_198437	exon8	c.C942G	p.S314R	TCCAAGGCTCCAG	.	PASS	Atlas-SNP
GJA9	81025	hgsc.bcm.edu	37	1	39341674	39341674	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	88	32	105	0	0.363636	0	.	.	none	GJA9,NS,carcinoma,+1,2	GJA9	55	2	NM_030772	exon2	c.C97T	p.R33X	GCATTCGAAATAT	.	PASS	Atlas-SNP
GRK6	2870	hgsc.bcm.edu	37	5	176857911	176857911	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	139	2	273	0	0.0143885	0	.	.	none	GRK6,NS,adenocarcinoma,-1,2	GRK6	48	2	NM_002082	exon2	c.C91T	p.R31W	AAATGGCGGCAGA	.	scavenged	Atlas-SNP
PLD2	5338	hgsc.bcm.edu	37	17	4718855	4718855	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	115	48	156	0	0.417391	0	.	.	none	PLD2_ENST00000263088,bladder,carcinoma,-2,2	PLD2	138	2	NM_001243108	exon13	c.C1258T	p.L420L	AGGGCGCTGATGC	.	PASS	Atlas-SNP
CHRNB2	1141	hgsc.bcm.edu	37	1	154544532	154544532	+	Silent	SNP	G	G	A	rs55857552	bycluster;byfrequency	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	6	4	1	0	0.666667	0	G|0.992;A|0.008	0.008	strong	.	CHRNB2	74	.	NM_000748	exon5	c.G1233A	p.A411A	AGTGGCGGGCCCC	.	PASS	Atlas-SNP
TSEN15	116461	hgsc.bcm.edu	37	1	184020964	184020964	+	Silent	SNP	C	C	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	41	13	38	0	0.317073	0	.	.	none	.	TSEN15	19	.	NM_001127394	exon1	c.C75A	p.G25G	CTTTGGCGACGGC	.	PASS	Atlas-SNP
SIPA1L1	26037	hgsc.bcm.edu	37	14	72190600	72190600	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	37	12	61	0	0.324324	0	.	.	none	.	SIPA1L1	219	.	NM_015556	exon16	c.G4508A	p.R1503K	ACACGAGAAAGTA	.	PASS	Atlas-SNP
MZF1	7593	hgsc.bcm.edu	37	19	59073591	59073591	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	47	23	94	0	0.489362	0	.	.	none	MZF1,NS,carcinoma,0,1	MZF1	37	1	NM_198055	exon6	c.G2053A	p.E685K	CACACTCAGGGCA	.	PASS	Atlas-SNP
ZNF518B	85460	hgsc.bcm.edu	37	4	10444982	10444982	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	181	3	199	0	0.0165746	0	.	.	none	ZNF518B,colon,carcinoma,+1,1	ZNF518B	116	1	NM_053042	exon3	c.C2971T	p.R991C	TCAGGCGTACATG	.	scavenged	Atlas-SNP
RUNX1	861	hgsc.bcm.edu	37	21	36231789	36231789	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	176	3	351	0	0.0170455	0	.	.	none	RUNX1,rectum,carcinoma,0,5	RUNX1	687	5	NM_001754	exon6	c.G595A	p.G199R	GGGGCCCATCCAC	.	scavenged	Atlas-SNP
EZH2	2146	hgsc.bcm.edu	37	7	148507460	148507460	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	61	22	79	0	0.360656	0	.	.	none	.	EZH2	823	.	NM_004456	exon17	c.A1994G	p.K665R	ATGTATTTATCAT	.	PASS	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	37	17	4446457	4446457	+	Silent	SNP	G	G	A	rs751670	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	5	5	4	0	1	0	G|0.812;A|0.188	0.188	strong	.	MYBBP1A	69	.	NM_014520	exon20	c.C2643T	p.H881H	CAGGTGGTGCCTG	.	PASS	Atlas-SNP
PTBP2	58155	hgsc.bcm.edu	37	1	97243142	97243142	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	216	98	332	0	0.453704	0	.	.	none	.	PTBP2	62	.	NM_021190	exon6	c.G434A	p.R145H	TCCAGCGTGCTCA	.	PASS	Atlas-SNP
VANGL1	81839	hgsc.bcm.edu	37	1	116206595	116206595	+	Missense_Mutation	SNP	G	G	A	rs148341022		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	214	82	344	1	0.383178	0.00290698	G|1.000;A|0.000	0.000	weak	.	VANGL1	65	.	NM_138959	exon4	c.G518A	p.R173H	TTTTCCGCAAGCG	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126412678	126412678	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	141	60	148	0	0.425532	0	.	.	none	.	FAT4	1752	.	NM_024582	exon17	c.G14701A	p.G4901R	GAGGGAGGACCTG	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45234727	45234727	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	108	5	191	5	0.0462963	0.026178	.	.	none	CDC27_ENST00000531206,NS,carcinoma,+2,10	CDC27	337	10	NM_001114091	exon6	c.A499T	p.T167S	TAAATGTTTGGTC	.	scavenged	Atlas-SNP
DNAH1	25981	hgsc.bcm.edu	37	3	52409342	52409342	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	36	17	78	0	0.472222	0	.	.	none	.	DNAH1	534	.	NM_015512	exon45	c.A7072G	p.M2358V	CGGCTGATGCGTC	.	PASS	Atlas-SNP
C2CD3	26005	hgsc.bcm.edu	37	11	73881800	73881800	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	104	3	117	0	0.0288462	0	.	.	none	C2CD3_ENST00000334126,NS,carcinoma,+1,2	C2CD3	288	2	NM_015531	exon1	c.G38A	p.R13H	CGCCCACGGCTGC	.	scavenged	Atlas-SNP
GPR21	2844	hgsc.bcm.edu	37	9	125797749	125797749	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	96	2	115	0	0.0208333	0	.	.	none	GPR21,NS,carcinoma,-1,1	GPR21	29	1	NM_005294	exon2	c.G904A	p.V302I	AACTGTGTAATTT	.	scavenged	Atlas-SNP
DCC	1630	hgsc.bcm.edu	37	18	50832066	50832066	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	88	35	121	0	0.397727	0	.	.	none	.	DCC	360	.	NM_005215	exon13	c.A2030G	p.N677S	AGCCAAACAACCT	.	PASS	Atlas-SNP
ADRA1D	146	hgsc.bcm.edu	37	20	4229009	4229009	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	83	32	135	0	0.385542	0	.	.	none	ADRA1D,NS,carcinoma,0,1	ADRA1D	36	1	NM_000678	exon1	c.G596A	p.R199H	GAGTGGCGCACGC	.	PASS	Atlas-SNP
GNAI2	2771	hgsc.bcm.edu	37	3	50294169	50294169	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	191	76	283	0	0.397906	0	.	.	none	.	GNAI2	42	.	NM_002070	exon6	c.G608A	p.G203D	ATGTGGGTGGTCA	.	PASS	Atlas-SNP
FAM194B	220081	hgsc.bcm.edu	37	13	46115752	46115752	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	153	48	219	0	0.313726	0	.	.	none	.	FAM194B	42	.	NM_182542	exon15	c.C1936T	p.P646S	CTGTTGGGCCGGG	.	PASS	Atlas-SNP
TRIM42	287015	hgsc.bcm.edu	37	3	140406661	140406661	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	126	57	174	0	0.452381	0	.	.	none	.	TRIM42	143	.	NM_152616	exon3	c.C1137T	p.G379G	AAATGGCTTTCTC	.	PASS	Atlas-SNP
KLHL6	89857	hgsc.bcm.edu	37	3	183273173	183273173	+	Missense_Mutation	SNP	A	A	G	rs140971016		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	147	58	206	0	0.394558	0	A|1.000;G|0.000	0.000	weak	.	KLHL6	100	.	NM_130446	exon1	c.T269C	p.L90P	GCGGCAAGCACCA	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48314642	48314642	+	Silent	SNP	T	T	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	157	44	123	0	0.280255	0	.	.	none	.	ABCA13	1192	.	NM_152701	exon17	c.T5379A	p.I1793I	CGCAATTGTGATA	.	PASS	Atlas-SNP
SEC16A	9919	hgsc.bcm.edu	37	9	139371030	139371030	+	Silent	SNP	A	A	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	87	40	96	0	0.45977	0	.	.	none	.	SEC16A	249	.	NM_014866	exon3	c.T1038G	p.R346R	GTGCGTACGGTTT	.	PASS	Atlas-SNP
AVL9	23080	hgsc.bcm.edu	37	7	32620454	32620454	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	178	33	159	0	0.185393	0	.	.	none	.	AVL9	66	.	NM_015060	exon15	c.G1783A	p.V595I	GGAAACGTCATGG	.	PASS	Atlas-SNP
HIST1H3D	8351	hgsc.bcm.edu	37	6	26197212	26197212	+	Silent	SNP	C	C	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	109	36	186	0	0.330275	0	.	.	none	HIST1H3D,colon,carcinoma,0,1	HIST1H3D	31	1	NM_003530	exon2	c.G267C	p.A89A	CATCACCGCCGAG	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151970845	151970845	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	404	21	704	0	0.0519802	0	.	.	none	MLL3_ENST00000355193,NS,carcinoma,-1,2	MLL3	1564	2	NM_170606	exon7	c.T957A	p.D319E	ACTGAAATCCTGA	.	PASS	Atlas-SNP
GRIA2	2891	hgsc.bcm.edu	37	4	158257596	158257596	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	197	84	270	1	0.426396	0.0037037	.	.	none	.	GRIA2	358	.	NM_000826	exon11	c.A1541C	p.K514T	TCTCAAAGCCCTT	.	PASS	Atlas-SNP
RNH1	6050	hgsc.bcm.edu	37	11	499889	499889	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	111	3	147	0	0.027027	0	.	.	none	RNH1,NS,carcinoma,0,1	RNH1	24	1	NM_203384	exon4	c.C383T	p.A128V	AGGCCCGCATCCC	.	scavenged	Atlas-SNP
NLRP1	22861	hgsc.bcm.edu	37	17	5440172	5440172	+	Missense_Mutation	SNP	G	G	A	rs199748129		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	37	11	53	0	0.297297	0	.	.	weak	NLRP1,colon,carcinoma,0,1	NLRP1	358	1	NM_014922	exon8	c.C2959T	p.R987W	CTTACCGTCTGCT	.	PASS	Atlas-SNP
SERPINB7	8710	hgsc.bcm.edu	37	18	61471521	61471521	+	Silent	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	19	7	22	0	0.368421	0	.	.	none	.	SERPINB7	66	.	NM_001261830	exon8	c.G795A	p.R265R	TCCAAGGCGAATG	.	PASS	Atlas-SNP
OR8B3	390271	hgsc.bcm.edu	37	11	124266927	124266927	+	Silent	SNP	A	A	G	rs142812088		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	234	10	288	13	0.042735	0.0451389	A|1.000;G|0.000	0.000	weak	OR8B3,NS,carcinoma,0,1	OR8B3	36	1	NM_001005467	exon1	c.T321C	p.F107F	GATGACAAAAAAG	.	scavenged	Atlas-SNP
USP29	57663	hgsc.bcm.edu	37	19	57640529	57640529	+	Silent	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	106	81	101	0	0.764151	0	.	.	none	.	USP29	186	.	NM_020903	exon4	c.A486G	p.L162L	GATATTAGAAAAT	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88537081	88537081	+	Silent	SNP	C	C	T	rs370267258		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	25	8	18	0	0.32	0	.	.	weak	.	DSPP	174	.	NM_014208	exon5	c.C3267T	p.D1089D	CAGTGACAGCAGC	.	PASS	Atlas-SNP
DAZAP1	26528	hgsc.bcm.edu	37	19	1434902	1434902	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	12	5	15	0	0.416667	0	.	.	none	.	DAZAP1	52	.	NM_018959	exon12	c.C1215G	p.Y405X	CCCCTACCGACGC	.	PASS	Atlas-SNP
NEGR1	257194	hgsc.bcm.edu	37	1	72748159	72748159	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	235	5	349	0	0.0212766	0	.	.	none	NEGR1,NS,carcinoma,+2,1	NEGR1	60	1	NM_173808	exon1	c.G19A	p.V7M	CCTGCACCAACAG	.	scavenged	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79032562	79032562	+	Silent	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	118	4	113	1	0.0338983	0.00884956	.	.	none	CMYA5_ENST00000446378,lower_third,carcinoma,0,2	CMYA5	643	2	NM_153610	exon2	c.A7974G	p.V2658V	TCTAGTATTAGAA	.	scavenged	Atlas-SNP
SLC10A4	201780	hgsc.bcm.edu	37	4	48490448	48490448	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	44	14	61	0	0.318182	0	.	.	none	.	SLC10A4	23	.	NM_152679	exon3	c.C806T	p.S269F	AGGTTTCCCTGTG	.	PASS	Atlas-SNP
KBTBD13	390594	hgsc.bcm.edu	37	15	65369395	65369395	+	Missense_Mutation	SNP	C	C	T	rs2919358	bycluster;byfrequency;by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	5	5	0	0	1	.	C|0.451;T|0.549	0.549	strong	.	KBTBD13	9	.	NM_001101362	exon1	c.C242T	p.A81V	TGCAGGCCGTGGA	.	PASS	Atlas-SNP
PRPF39	55015	hgsc.bcm.edu	37	14	45579854	45579854	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	135	62	194	0	0.459259	0	.	.	none	.	PRPF39	46	.	NM_017922	exon10	c.G1406A	p.G469E	GGCATGGAAATCT	.	PASS	Atlas-SNP
DSG2	1829	hgsc.bcm.edu	37	18	29098213	29098213	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	69	32	83	0	0.463768	0	.	.	none	.	DSG2	115	.	NM_001943	exon2	c.C57T	p.N19N	CTTTAACGTTGGA	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	170127524	170127524	+	Missense_Mutation	SNP	G	G	A	rs201860953	bycluster	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	97	36	142	0	0.371134	0	G|0.999;A|0.001	0.001	weak	LRP2,rectum,carcinoma,0,2	LRP2	751	2	NM_004525	exon16	c.C2210T	p.S737L	TTCCCCGAAACTG	.	PASS	Atlas-SNP
L1CAM	3897	hgsc.bcm.edu	37	X	153128162	153128162	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	98	29	163	0	0.295918	0	.	.	none	.	L1CAM	189	.	NM_000425	exon28	c.T3730C	p.S1244P	CCCCTGAGCTGTC	.	PASS	Atlas-SNP
SATB2	23314	hgsc.bcm.edu	37	2	200193545	200193545	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	76	33	137	0	0.434211	0	.	.	none	SATB2,NS,carcinoma,+1,1	SATB2	134	1	NM_015265	exon9	c.T1262C	p.F421S	TTGAGGAAATTCT	.	PASS	Atlas-SNP
ZKSCAN7	55888	hgsc.bcm.edu	37	3	44598759	44598759	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	101	2	152	0	0.019802	0	.	.	none	ZNF167,NS,adenocarcinoma,0,1	.	.	1	NM_018651	exon2	c.C220T	p.R74W	TTGAGCCGGCTTC	.	scavenged	Atlas-SNP
IQCF2	389123	hgsc.bcm.edu	37	3	51897174	51897174	+	Missense_Mutation	SNP	G	G	A	rs369181892		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	60	3	134	1	0.05	0.00746269	.	.	weak	IQCF2,mouth,carcinoma,0,1	IQCF2	21	1	NM_203424	exon3	c.G283A	p.A95T	CTGATCGCCTACG	.	scavenged	Atlas-SNP
HINT2	84681	hgsc.bcm.edu	37	9	35813717	35813717	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	76	30	120	0	0.394737	0	.	.	none	.	HINT2	15	.	NM_032593	exon2	c.G146A	p.G49E	GCTCCCCCAGGAG	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	114031393	114031393	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	146	54	220	0	0.369863	0	.	.	none	.	CSMD3	2325	.	NM_052900	exon6	c.T933A	p.N311K	TGGTATATTCATT	.	PASS	Atlas-SNP
ILF3	3609	hgsc.bcm.edu	37	19	10795539	10795539	+	Silent	SNP	T	T	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	94	76	119	0	0.808511	0	.	.	none	.	ILF3	99	.	NM_153464	exon18	c.T2064G	p.G688G	AGCAGGTTTTGTA	.	PASS	Atlas-SNP
PNLIPRP1	5407	hgsc.bcm.edu	37	10	118351352	118351352	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	61	20	89	0	0.327869	0	.	.	none	.	PNLIPRP1	82	.	NM_006229	exon3	c.G119A	p.R40K	CAATCAGGCCCCT	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28483809	28483809	+	Silent	SNP	G	G	A	rs149204675	bycluster;byfrequency;by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	346	5	538	5	0.0144509	0.00929368	G|0.998;A|0.002	0.002	strong	HERC2,NS,carcinoma,0,1	HERC2	501	1	NM_004667	exon24	c.C3687T	p.D1229D	CTTCCCGTCAATC	.	scavenged	Atlas-SNP
HOXD4	3233	hgsc.bcm.edu	37	2	177016724	177016724	+	Silent	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	18	11	29	0	0.611111	0	.	.	none	.	HOXD4	32	.	NM_014621	exon1	c.G363A	p.P121P	GCAGCCGCCCTCC	.	PASS	Atlas-SNP
FAM102A	399665	hgsc.bcm.edu	37	9	130742408	130742408	+	Silent	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	59	25	82	0	0.423729	0	.	.	none	.	FAM102A	32	.	NM_001035254	exon1	c.C9T	p.F3F	CATCAAGAAAGCC	.	PASS	Atlas-SNP
SDHA	6389	hgsc.bcm.edu	37	5	256455	256455	+	Missense_Mutation	SNP	C	C	G	rs1126697	bycluster	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	85	2	131	0	0.0235294	0	C|0.998;G|0.002	0.002	weak	SDHA,NS,adenocarcinoma,0,1	SDHA	80	1	NM_004168	exon15	c.C1915G	p.L639V	GTCACTCTGGAAT	.	scavenged	Atlas-SNP
SLC12A1	6557	hgsc.bcm.edu	37	15	48521429	48521429	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	179	4	225	0	0.0223464	0	.	.	none	SLC12A1_ENST00000396577,NS,carcinoma,0,2	SLC12A1	243	2	NM_001184832	exon6	c.C768T	p.F256F	CGAGTTCGGTGGG	.	scavenged	Atlas-SNP
OR52L1	338751	hgsc.bcm.edu	37	11	6007209	6007209	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	101	2	149	0	0.019802	0	.	.	none	OR52L1_ENST00000332249,NS,carcinoma,+1,6	OR52L1	100	6	NM_001005173	exon1	c.C952T	p.R318C	GCTGGCGGATCTG	.	scavenged	Atlas-SNP
ASIC3	9311	hgsc.bcm.edu	37	7	150746203	150746203	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	36	15	62	0	0.416667	0	.	.	none	.	.	.	.	NM_020322	exon1	c.T231G	p.D77E	CCTGGATGAGCGA	.	PASS	Atlas-SNP
COL6A5	256076	hgsc.bcm.edu	37	3	130159037	130159037	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	117	52	146	0	0.444444	0	.	.	none	.	COL6A5	205	.	NM_153264	exon35	c.G5855A	p.R1952Q	GCATTCGAGAGGC	.	PASS	Atlas-SNP
RFX3	5991	hgsc.bcm.edu	37	9	3225259	3225259	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	61	24	94	0	0.393443	0	.	.	none	RFX3_ENST00000382004,NS,carcinoma,+1,1	RFX3	156	1	NM_134428	exon18	c.G2033A	p.S678N	ATTTCACTTTCTA	.	PASS	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238277339	238277339	+	Silent	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	110	42	159	0	0.381818	0	.	.	none	.	COL6A3	608	.	NM_004369	exon10	c.C4767T	p.D1589D	TCTGGGGTCATTG	.	PASS	Atlas-SNP
CYP11B1	1584	hgsc.bcm.edu	37	8	143957271	143957271	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	163	2	260	0	0.0122699	0	.	.	none	CYP11B1,brain,primitive_neuroectodermal_tumour-medulloblastoma,-1,1	CYP11B1	128	1	NM_000497	exon6	c.G978A	p.T326T	AAAGAGCGTCATC	.	scavenged	Atlas-SNP
VPS13B	157680	hgsc.bcm.edu	37	8	100789120	100789120	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	203	76	292	1	0.374384	0.00342466	.	.	none	.	VPS13B	811	.	NM_017890	exon41	c.C7440T	p.C2480C	CCTTTGCGTTTCT	.	PASS	Atlas-SNP
PCMTD1	115294	hgsc.bcm.edu	37	8	52733214	52733214	+	Missense_Mutation	SNP	A	A	C	rs200377849		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	169	7	290	2	0.0414201	0.00689655	.	.	weak	PCMTD1,trunk,malignant_melanoma,0,1	PCMTD1	73	1	NM_052937	exon6	c.T771G	p.N257K	TATGAAATTTCTA	.	scavenged	Atlas-SNP
LTB	4050	hgsc.bcm.edu	37	6	31550123	31550123	+	Silent	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	164	63	251	0	0.384146	0	.	.	none	.	LTB	19	.	NM_002341	exon1	c.A72G	p.A24A	GGCTCCTGCCACA	.	PASS	Atlas-SNP
MAG	4099	hgsc.bcm.edu	37	19	35793379	35793379	+	Silent	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	29	22	55	0	0.758621	0	.	.	none	.	MAG	172	.	NM_080600	exon7	c.G999A	p.G333G	GAACGGGACAATG	.	PASS	Atlas-SNP
C17orf97	400566	hgsc.bcm.edu	37	17	263652	263652	+	Missense_Mutation	SNP	G	G	A	rs111543298	bycluster;byfrequency	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	164	7	323	8	0.0426829	0.0247678	G|0.162;A|0.838	0.838	strong	C17orf97_ENST00000360127,rectum,carcinoma,0,5	C17orf97	76	5	NM_001013672	exon2	c.G1018A	p.E340K	GACCCCGAGGCCC	.	scavenged	Atlas-SNP
TNS3	64759	hgsc.bcm.edu	37	7	47408879	47408879	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	171	5	143	1	0.0292398	0.00699301	.	.	none	TNS3,NS,carcinoma,0,1	TNS3	140	1	NM_022748	exon17	c.G1364A	p.R455H	ACGTGGCGGGTCC	.	scavenged	Atlas-SNP
ADCY9	115	hgsc.bcm.edu	37	16	4016487	4016487	+	Silent	SNP	C	C	T	rs371159341		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	76	20	80	0	0.263158	0	.	.	weak	.	ADCY9	151	.	NM_001116	exon11	c.G3351A	p.A1117A	CCCTGACGCCGCC	.	PASS	Atlas-SNP
NUDT6	11162	hgsc.bcm.edu	37	4	123814096	123814096	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	96	34	118	0	0.354167	0	.	.	none	.	NUDT6	50	.	NM_007083	exon5	c.G838A	p.D280N	TTTTGTCAAACCC	.	PASS	Atlas-SNP
OR4C16	219428	hgsc.bcm.edu	37	11	55340486	55340486	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	65	24	62	0	0.369231	0	.	.	none	.	OR4C16	104	.	NM_001004701	exon1	c.G883A	p.A295T	AAAAGTGCCATGA	.	PASS	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	37	3	57494905	57494905	+	Silent	SNP	C	C	T	rs150553536	bycluster;byfrequency	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	318	4	442	0	0.0125786	0	C|1.000;T|0.000	0.000	strong	DNAH12L,NS,carcinoma,-1,2	DNAH12	182	2	NM_198564	exon6	c.G504A	p.S168S	TTCAAGCGATTTA	.	scavenged	Atlas-SNP
AATK	9625	hgsc.bcm.edu	37	17	79098649	79098649	+	Splice_Site	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	99	46	186	0	0.464646	0	.	.	none	.	AATK	102	.	NM_001080395	exon10	c.841-1G>A	.	GTCCTCCTGTTGG	.	PASS	Atlas-SNP
BAZ1B	9031	hgsc.bcm.edu	37	7	72912836	72912836	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	195	3	199	0	0.0153846	0	.	.	none	BAZ1B,NS,haematopoietic_neoplasm,0,1	BAZ1B	147	1	NM_032408	exon4	c.G562A	p.E188K	TACTCTCTCTCCT	.	scavenged	Atlas-SNP
SLC6A11	6538	hgsc.bcm.edu	37	3	10976837	10976837	+	Silent	SNP	G	G	A	rs138273152		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	133	28	207	0	0.210526	0	G|1.000;A|0.000	0.000	weak	SLC6A11,NS,carcinoma,+1,2	SLC6A11	87	2	NM_014229	exon13	c.G1698A	p.P566P	CATCCCGCTCTGG	.	PASS	Atlas-SNP
ZNF675	171392	hgsc.bcm.edu	37	19	23869831	23869831	+	Splice_Site	SNP	A	A	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	26	7	59	0	0.269231	0	.	.	none	.	ZNF675	88	.	NM_138330	exon2	c.3+2T>G	.	ACTCTCACCATTT	.	PASS	Atlas-SNP
CCZ1B	221960	hgsc.bcm.edu	37	7	6862967	6862967	+	Missense_Mutation	SNP	G	G	A	rs140768534	bycluster	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	254	3	287	0	0.011811	0	G|1.000;A|0.000	0.000	weak	C7orf28B,NS,carcinoma,+2,1	.	.	1	NM_198097	exon5	c.C415T	p.R139W	ACTGCCGCAGCAC	.	scavenged	Atlas-SNP
CLCN3	1182	hgsc.bcm.edu	37	4	170618497	170618497	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	240	3	274	0	0.0125	0	.	.	none	CLCN3,NS,malignant_melanoma,0,1	CLCN3	85	1	NM_001829	exon9	c.C1175T	p.P392L	TGTTTCCTTTTAT	.	scavenged	Atlas-SNP
REV3L	5980	hgsc.bcm.edu	37	6	111694135	111694135	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	70	32	100	0	0.457143	0	.	.	none	.	REV3L	386	.	NM_002912	exon13	c.G5423A	p.G1808E	GACTGTCCCATTT	.	PASS	Atlas-SNP
EPHA7	2045	hgsc.bcm.edu	37	6	93982068	93982068	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	208	75	278	1	0.360577	0.00359712	.	.	none	.	EPHA7	251	.	NM_004440	exon6	c.C1397G	p.P466R	TGCTCTGGTTCCT	.	PASS	Atlas-SNP
DARS2	55157	hgsc.bcm.edu	37	1	173802522	173802522	+	Silent	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	53	2	50	0	0.0377358	0	.	.	none	DARS2,colon,carcinoma,+2,1	DARS2	61	1	NM_018122	exon6	c.G501A	p.E167E	AACAGAGGCTCTT	.	scavenged	Atlas-SNP
KIAA1967	57805	hgsc.bcm.edu	37	8	22464810	22464810	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	15	2	30	0	0.133333	0	.	.	none	KIAA1967,NS,carcinoma,+2,1	KIAA1967	72	1	NM_021174	exon6	c.C459T	p.H153H	GCCTCACCGGATT	.	scavenged	Atlas-SNP
PRPF40B	25766	hgsc.bcm.edu	37	12	50026835	50026835	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	61	17	86	0	0.278689	0	.	.	none	.	PRPF40B	83	.	NM_001031698	exon7	c.C387T	p.R129R	TGGGCGCATCTAC	.	PASS	Atlas-SNP
PCDHGA1	56114	hgsc.bcm.edu	37	5	140711926	140711926	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	65	3	132	0	0.0461538	0	.	.	none	PCDHGA1_ENST00000517417,NS,carcinoma,0,4	PCDHGA1	397	4	NM_018912	exon1	c.G1675A	p.A559T	GACAACGCGCCCG	.	scavenged	Atlas-SNP
FRMD4B	23150	hgsc.bcm.edu	37	3	69230472	69230472	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	87	45	92	0	0.517241	0	.	.	none	.	FRMD4B	90	.	NM_015123	exon21	c.C2429T	p.T810I	TAGGGTGTGTACC	.	PASS	Atlas-SNP
ZNF559	84527	hgsc.bcm.edu	37	19	9449245	9449245	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	119	98	157	1	0.823529	0.00636943	.	.	none	.	ZNF559	77	.	NM_001202408	exon3	c.C212G	p.T71R	GGTTGACAAATTA	.	PASS	Atlas-SNP
HAUS6	54801	hgsc.bcm.edu	37	9	19058226	19058226	+	Missense_Mutation	SNP	T	T	G	rs201053056	by1000genomes;alternate_allele	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	135	57	197	0	0.422222	0	T|1.000;C|0.000	.	alt	.	HAUS6	66	.	NM_017645	exon16	c.A2539C	p.K847Q	CCCTTTTCTTGGA	.	PASS	Atlas-SNP
BCO2	83875	hgsc.bcm.edu	37	11	112071462	112071462	+	Missense_Mutation	SNP	C	C	T	rs141269805		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	92	33	80	0	0.358696	0	C|1.000;T|0.000	0.000	weak	.	BCO2	44	.	NM_031938	exon7	c.C992T	p.T331M	GTAATACGCGGTT	.	PASS	Atlas-SNP
SDHA	6389	hgsc.bcm.edu	37	5	256470	256470	+	Missense_Mutation	SNP	G	G	A	rs3211483		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	98	2	151	0	0.0204082	0	G|1.000;|0.000	.	weak	SDHA,NS,adenocarcinoma,0,2	SDHA	80	2	NM_004168	exon15	c.G1930A	p.V644M	AGACCCGTGATCG	.	scavenged	Atlas-SNP
AQPEP	0	hgsc.bcm.edu	37	5	115299001	115299001	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	38	16	59	0	0.421053	0	.	.	none	.	.	.	.	NM_173800	exon1	c.C687T	p.G229G	CCAGGGCGAGCGC	.	PASS	Atlas-SNP
BCR	613	hgsc.bcm.edu	37	22	23654017	23654017	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	151	3	318	7	0.0198676	0.0220126	.	.	none	BCR,NS,carcinoma,0,1	BCR	74	1	NM_004327	exon19	c.G3316A	p.D1106N	GCCTTCGACGTCA	.	scavenged	Atlas-SNP
STRIP1	85369	hgsc.bcm.edu	37	1	110593021	110593021	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	147	2	200	1	0.0136054	0.005	.	.	none	FAM40A,colon,carcinoma,0,1	STRIP1	1	1	NM_033088	exon18	c.C1946T	p.A649V	TGACGGCGGAGAG	.	scavenged	Atlas-SNP
PKD2L2	27039	hgsc.bcm.edu	37	5	137228235	137228235	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	86	34	122	0	0.395349	0	.	.	none	.	PKD2L2	68	.	NM_001258448	exon3	c.A200T	p.D67V	TTTTGGACACTTC	.	PASS	Atlas-SNP
ETS1	2113	hgsc.bcm.edu	37	11	128442997	128442997	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	70	21	101	0	0.3	0	.	.	none	.	ETS1	123	.	NM_001143820	exon2	c.G29A	p.S10N	GGGCTGCTCCCAG	.	PASS	Atlas-SNP
MACROD2	140733	hgsc.bcm.edu	37	20	15967421	15967421	+	Silent	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	121	50	178	0	0.413223	0	.	.	none	MACROD2,colon,carcinoma,+2,2	MACROD2	34	2	NM_080676	exon14	c.G1035A	p.S345S	AGAATCGCAGAGC	.	PASS	Atlas-SNP
MAP4K5	11183	hgsc.bcm.edu	37	14	50901153	50901153	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	68	32	88	0	0.470588	0	.	.	none	.	MAP4K5	48	.	NM_006575	exon27	c.A2123G	p.N708S	TTCAAATTGATTG	.	PASS	Atlas-SNP
TIRAP	114609	hgsc.bcm.edu	37	11	126162924	126162924	+	Missense_Mutation	SNP	G	G	A	rs199561634		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	77	36	90	0	0.467532	0	G|0.999;A|0.001	0.001	weak	.	TIRAP	37	.	NM_148910	exon5	c.G620A	p.R207H	GCTTTCGTCAAGT	.	PASS	Atlas-SNP
MCM4	4173	hgsc.bcm.edu	37	8	48875553	48875553	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	111	31	153	0	0.279279	0	.	.	none	.	MCM4	97	.	NM_182746	exon7	c.A646T	p.K216X	CACATCAAATCAT	.	PASS	Atlas-SNP
WIPF3	644150	hgsc.bcm.edu	37	7	29923921	29923921	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	116	4	125	0	0.0344828	0	.	.	none	WIPF3_ENST00000409123,NS,carcinoma,0,2	WIPF3	46	2	NM_001080529	exon5	c.G811A	p.G271R	CCTTGTGGGTATC	.	scavenged	Atlas-SNP
OR2T2	401992	hgsc.bcm.edu	37	1	248616749	248616749	+	Silent	SNP	C	C	G	rs1770044	byfrequency	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	544	19	528	7	0.0349265	0.0132576	C|0.500;G|0.500	0.500	strong	OR2T2,NS,carcinoma,0,1	OR2T2	73	1	NM_001004136	exon1	c.C651G	p.V217V	CTCTGTCTCCTAC	.	scavenged	Atlas-SNP
CCDC88C	440193	hgsc.bcm.edu	37	14	91770135	91770135	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	71	29	84	0	0.408451	0	.	.	none	CCDC88C_ENST00000389857,caecum,carcinoma,+1,2	CCDC88C	192	2	NM_001080414	exon20	c.C3545A	p.S1182X	TCGGCCGATTGCC	.	PASS	Atlas-SNP
KREMEN2	79412	hgsc.bcm.edu	37	16	3014557	3014557	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	136	35	144	0	0.257353	0	.	.	none	.	KREMEN2	13	.	NM_001253725	exon1	c.C36T	p.L12L	CTTTCTCCTCTTC	.	PASS	Atlas-SNP
FCGR3A	2214	hgsc.bcm.edu	37	1	161512867	161512867	+	Nonsense_Mutation	SNP	G	G	A	rs1042207	bycluster;by2hit2allele;byhapmap;by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	342	8	343	4	0.0233918	0.0116618	G|0.996;A|0.004	0.004	strong	FCGR3A,NS,carcinoma,0,2	FCGR3A	38	2	NM_000569	exon5	c.C808T	p.R270X	AGCTTCGAATGTT	.	scavenged	Atlas-SNP
GCC1	79571	hgsc.bcm.edu	37	7	127223206	127223206	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	168	2	139	0	0.0119048	0	.	.	none	GCC1,NS,carcinoma,0,1	GCC1	83	1	NM_024523	exon2	c.G1190A	p.R397H	AGAATGCGCTCCT	.	scavenged	Atlas-SNP
TRIM48	79097	hgsc.bcm.edu	37	11	55032685	55032685	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	355	4	550	3	0.0112676	0.00545455	.	.	none	TRIM48_ENST00000417545,right_lower_lobe,carcinoma,0,4	TRIM48	149	4	NM_024114	exon2	c.G354A	p.M118I	GAAGATGTTCTGT	.	scavenged	Atlas-SNP
MTMR8	55613	hgsc.bcm.edu	37	X	63574801	63574801	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	63	30	83	0	0.47619	0	.	.	none	.	MTMR8	178	.	NM_017677	exon4	c.T324A	p.D108E	ATAAAGATCTTCA	.	PASS	Atlas-SNP
SNTG2	54221	hgsc.bcm.edu	37	2	1094061	1094061	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	119	3	162	0	0.0252101	0	.	.	none	SNTG2,NS,carcinoma,0,1	SNTG2	125	1	NM_018968	exon4	c.C290T	p.P97L	ACGTCCCTGTCGT	.	scavenged	Atlas-SNP
OR5H15	403274	hgsc.bcm.edu	37	3	97887970	97887970	+	Missense_Mutation	SNP	C	C	T	rs72933946	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	356	8	509	3	0.0224719	0.00589391	C|0.965;A|0.035	.	alt	OR5H15,NS,carcinoma,-2,1	OR5H15	70	1	NM_001005515	exon1	c.C427T	p.R143W	TGCATCCGGCTAT	.	scavenged	Atlas-SNP
ADCY2	108	hgsc.bcm.edu	37	5	7826845	7826845	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	60	22	104	0	0.366667	0	.	.	none	.	ADCY2	337	.	NM_020546	exon25	c.C3137T	p.T1046M	AGGAGACGAGCCT	.	PASS	Atlas-SNP
ZNF485	220992	hgsc.bcm.edu	37	10	44112510	44112510	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	34	13	70	0	0.382353	0	.	.	none	.	ZNF485	102	.	NM_145312	exon5	c.C1019G	p.S340C	GCTCATCCTTTGC	.	PASS	Atlas-SNP
ZNF608	57507	hgsc.bcm.edu	37	5	123984038	123984038	+	Missense_Mutation	SNP	G	G	A	rs186374145	bycluster;by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	147	71	185	0	0.482993	0	G|1.000;A|0.000	0.000	strong	.	ZNF608	117	.	NM_020747	exon4	c.C2039T	p.T680M	GCAGCCGTCATGT	.	PASS	Atlas-SNP
TMPO	7112	hgsc.bcm.edu	37	12	98931352	98931352	+	Splice_Site	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	68	27	71	0	0.397059	0	.	.	none	.	TMPO	111	.	NM_001032284	exon4	c.663+2T>C	.	ATCAGGTATCTTT	.	PASS	Atlas-SNP
EZH2	2146	hgsc.bcm.edu	37	7	148507461	148507461	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	63	23	78	0	0.365079	0	.	.	none	.	EZH2	823	.	NM_004456	exon17	c.A1993G	p.K665E	TGTATTTATCATA	.	PASS	Atlas-SNP
ZNF286A	57335	hgsc.bcm.edu	37	17	15619469	15619469	+	Missense_Mutation	SNP	G	G	A	rs184773569	bycluster;by1000genomes	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	281	3	376	0	0.0106762	0	G|0.997;A|0.003	0.003	strong	ZNF286A,NS,adenocarcinoma,0,1	ZNF286A	58	1	NM_020652	exon6	c.G431A	p.R144Q	TGACACGGAATAG	.	scavenged	Atlas-SNP
USP13	8975	hgsc.bcm.edu	37	3	179474854	179474854	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	233	3	329	0	0.0128755	0	.	.	none	USP13,NS,carcinoma,0,2	USP13	117	2	NM_003940	exon16	c.C1936A	p.Q646K	ATGAACCAATTGA	.	scavenged	Atlas-SNP
BCL2	596	hgsc.bcm.edu	37	18	60985444	60985444	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	128	50	190	0	0.390625	0	.	.	none	.	BCL2	272	.	NM_000633	exon2	c.G456A	p.E152E	ACCGAACTCAAAG	.	PASS	Atlas-SNP
PCDHA6	56142	hgsc.bcm.edu	37	5	140209668	140209668	+	Silent	SNP	G	G	A	rs141570762	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	56	29	94	0	0.517857	0	G|0.998;C|0.002	.	alt	.	PCDHA6	442	.	NM_018909	exon1	c.G1992A	p.T664T	GGCCACGGTTCTG	.	PASS	Atlas-SNP
GPR158	57512	hgsc.bcm.edu	37	10	25701364	25701364	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	88	35	159	0	0.397727	0	.	.	none	.	GPR158	255	.	NM_020752	exon4	c.G1297A	p.V433I	GACTTCGTTAGCA	.	PASS	Atlas-SNP
RUFY2	55680	hgsc.bcm.edu	37	10	70143622	70143622	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	74	41	103	0	0.554054	0	.	.	none	.	RUFY2	58	.	NM_017987	exon10	c.G977A	p.R326H	CCCTGACGAGAAT	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113234498	113234498	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	128	3	188	0	0.0234375	0	.	.	none	SVEP1,NS,carcinoma,-1,1	SVEP1	326	1	NM_153366	exon15	c.G2705A	p.R902Q	TTAATCCGTGAGG	.	scavenged	Atlas-SNP
PCDHGA1	56114	hgsc.bcm.edu	37	5	140711925	140711925	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	65	20	133	1	0.307692	0.0075188	.	.	none	PCDHGA1_ENST00000517417,NS,carcinoma,0,4	PCDHGA1	397	4	NM_018912	exon1	c.C1674T	p.N558N	CGACAACGCGCCC	.	scavenged	Atlas-SNP
NLRP1	22861	hgsc.bcm.edu	37	17	5462409	5462409	+	Missense_Mutation	SNP	C	C	T	rs138756363	bycluster	TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	160	3	216	0	0.01875	0	C|1.000;T|0.000	0.000	weak	NLRP1_ENST00000572272,NS,carcinoma,0,3	NLRP1	358	3	NM_033007	exon4	c.G1607A	p.R536Q	TCCTTCCGCTTCA	.	scavenged	Atlas-SNP
POTEB	339010	hgsc.bcm.edu	37	15	21071492	21071492	+	Missense_Mutation	SNP	G	G	T	rs2664992		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	142	88	325	101	0.619718	0.310769	.	.	weak	ENSG00000230031,NS,carcinoid-endocrine_tumour,0,1	POTEB	22	1	NM_207355	exon1	c.C119A	p.T40K	TTGCTCGTGCCGC	.	scavenged	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28366537	28366537	+	Silent	SNP	T	T	C	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	75	4	115	0	0.0533333	0	.	.	none	.	HERC2	501	.	NM_004667	exon86	c.A13227G	p.V4409V	ATCGCGTACCATA	.	PASS	Atlas-SNP
USF1	7391	hgsc.bcm.edu	37	1	161012436	161012436	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	145	31	148	0	0.213793	0	.	.	none	.	USF1	29	.	NM_001276373	exon4	c.C83T	p.P28L	CTGGTTGGGTCTT	.	PASS	Atlas-SNP
ZBTB41	360023	hgsc.bcm.edu	37	1	197128828	197128828	+	Silent	SNP	C	C	T	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	245	3	217	0	0.0122449	0	.	.	none	ZBTB41,NS,carcinoma,0,1	ZBTB41	116	1	NM_194314	exon10	c.G2391A	p.T797T	TAACATCGTCTTG	.	scavenged	Atlas-SNP
OR10A5	144124	hgsc.bcm.edu	37	11	6866966	6866966	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	220	85	273	0	0.386364	0	.	.	none	.	OR10A5	48	.	NM_178168	exon1	c.C53A	p.S18Y	GCTTCTCTTCCCT	.	PASS	Atlas-SNP
ATP9A	10079	hgsc.bcm.edu	37	20	50313972	50313972	+	Silent	SNP	G	G	A	rs376498362		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	94	34	143	0	0.361702	0	.	.	weak	.	ATP9A	135	.	NM_006045	exon5	c.C486T	p.I162I	TTCAACGATGATA	.	PASS	Atlas-SNP
ATP8B2	57198	hgsc.bcm.edu	37	1	154318340	154318340	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FM-8000-01A-11D-2210-10	TCGA-FM-8000-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	68ab7686-eb0b-4bdd-8e60-132917be4063	b1ed3024-96f1-49e2-bde2-851174877525	84	2	114	0	0.0238095	0	.	.	none	ATP8B2,NS,carcinoma,0,1	ATP8B2	158	1	NM_020452	exon24	c.C2858A	p.A953D	TCCTGGCTATGGG	.	scavenged	Atlas-SNP
