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
KLHL17	339451	hgsc.bcm.edu	37	1	900388	900388	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	38.0	13.0	39.0	0.0	0.342	.	.	.	none	.	KLHL17	31	.	NM_198317	exon12	c.1745delT	p.V582fs	.	.	PASS	Pindel,Atlas-Indel
CSK	1445	hgsc.bcm.edu	37	15	75094222	75094223	+	Frame_Shift_Del	DEL	GA	GA	-	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	61.0	17.0	65.0	0.0	0.279	.	.	.	none	.	CSK	43	.	NM_001127190	exon12	c.1073_1074del	p.358_358del	.	.	PASS	Pindel,Atlas-Indel
TPP2	7174	hgsc.bcm.edu	37	13	103316014	103316017	+	Frame_Shift_Del	DEL	ATTT	ATTT	-	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	ATTT	ATTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	63.0	37.0	81.0	0.0	0.587	.	.	.	none	.	TPP2	124	.	NM_003291	exon25	c.3120_3123del	p.1040_1041del	.	.	PASS	Pindel,Atlas-Indel
CHD9	80205	hgsc.bcm.edu	37	16	53256588	53256591	+	Frame_Shift_Del	DEL	AAAG	AAAG	-	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	AAAG	AAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	587.0	166.0	366.0	0.0	0.282794	0	.	.	none	.	CHD9	203	.	NM_025134	exon4	c.1816_1819del	p.606_607del	.	.	PASS	Atlas-Indel
TRIM13	10206	hgsc.bcm.edu	37	13	50588496	50588497	+	RNA	INS	-	-	AC	rs10676627	alternate_allele	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	53.0	32.0	39.0	0.0	0.603774	0	.	.	alt	.	TRIM13	30	.	.	.	.	.	.	.	PASS	Atlas-Indel
BTG2	7832	hgsc.bcm.edu	37	1	203274815	203274823	+	In_Frame_Del	DEL	GGGCTGCGT	GGGCTGCGT	-	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	GGGCTGCGT	GGGCTGCGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	114.0	25.0	63.0	0.0	0.219	.	.	.	none	BTG2,rectum,carcinoma,-1,3	BTG2	16	3	NM_006763	exon1	c.80_88del	p.27_30del	.	.	PASS	Pindel,Atlas-Indel
DENND3	22898	hgsc.bcm.edu	37	8	142202753	142202754	+	Frame_Shift_Ins	INS	-	-	AA	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	74.0	17.0	64.0	0.0	0.230	.	.	.	none	.	DENND3	127	.	NM_014957	exon22	c.3387_3388insAA	p.V1129fs	.	.	PASS	Pindel,Atlas-Indel
CSNK1E	1454	hgsc.bcm.edu	37	22	38690161	38690163	+	In_Frame_Del	DEL	GAG	GAG	-	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	42.0	13.0	31.0	0.0	0.310	.	.	.	none	.	CSNK1E	143	.	NM_001894	exon9	c.1171_1173del	p.391_391del	.	.	PASS	Pindel,Atlas-Indel
ATRX	546	hgsc.bcm.edu	37	X	76845412	76845413	+	Splice_Site	INS	-	-	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	386.0	66.0	274.0	0.0	0.170984	0	.	.	none	.	ATRX	833	.	NM_000489	exon28	c.6111-2->T	.	.	.	PASS	Atlas-Indel
CTRC	11330	hgsc.bcm.edu	37	1	15769988	15769990	+	In_Frame_Del	DEL	AGA	AGA	-	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	56.0	19.0	56.0	0.0	0.339	.	.	.	none	.	CTRC	28	.	NM_007272	exon5	c.430_432del	p.144_144del	.	.	PASS	Pindel,Atlas-Indel
CD14	929	hgsc.bcm.edu	37	5	140011945	140011945	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	57.0	29.0	37.0	0.0	0.508772	0	.	.	none	.	CD14	20	.	NM_001174105	exon3	c.C624T	p.G208G	GCGTTCGCCCAGT	.	PASS	Atlas-SNP
ARHGEF2	9181	hgsc.bcm.edu	37	1	155917765	155917765	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	102.0	43.0	99.0	0.0	0.421569	0	.	.	none	.	ARHGEF2	81	.	NM_001162383	exon22	c.C2929T	p.R977C	CGTCGCGGCTCTC	.	PASS	Atlas-SNP
MAP7D3	79649	hgsc.bcm.edu	37	X	135301796	135301796	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	636.0	191.0	460.0	0.0	0.300314	0	.	.	none	.	MAP7D3	102	.	NM_024597	exon17	c.A2521G	p.K841E	TGGTTTTCGTTGT	.	PASS	Atlas-SNP
PGBD1	84547	hgsc.bcm.edu	37	6	28253469	28253469	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	57.0	48.0	70.0	0.0	0.842105	0	.	.	none	.	PGBD1	106	.	NM_001184743	exon3	c.C538T	p.P180S	GGGAACCCCCAAG	.	PASS	Atlas-SNP
FTMT	94033	hgsc.bcm.edu	37	5	121188183	121188183	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	67.0	39.0	57.0	0.0	0.58209	0	.	.	none	.	FTMT	71	.	NM_177478	exon1	c.G525A	p.L175L	GTTGCTGGAATTG	.	PASS	Atlas-SNP
WDR65	149465	hgsc.bcm.edu	37	1	43688658	43688658	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	65.0	24.0	81.0	0.0	0.369231	0	.	.	none	.	WDR65	76	.	NM_001195831	exon16	c.T2696C	p.M899T	GCATCATGAGGAA	.	PASS	Atlas-SNP
ZBTB20	26137	hgsc.bcm.edu	37	3	114070301	114070301	+	Silent	SNP	G	G	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	33.0	12.0	51.0	0.0	0.363636	0	.	.	none	.	ZBTB20	157	.	NM_001164342	exon4	c.C624G	p.G208G	GTCCTGGCCCGAG	.	PASS	Atlas-SNP
RNF123	63891	hgsc.bcm.edu	37	3	49751413	49751413	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	28.0	13.0	60.0	0.0	0.464286	0	.	.	none	.	RNF123	100	.	NM_022064	exon30	c.C2908T	p.L970L	TGGATCCTGGTGC	.	PASS	Atlas-SNP
TMEM259	91304	hgsc.bcm.edu	37	19	1014261	1014261	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	79.0	10.0	142.0	1.0	0.126582	0.00704225	.	.	none	C19orf6,NS,carcinoma,+1,1	.	.	1	NM_033420	exon2	c.G437A	p.S146N	AGGTTGCTGCCTG	.	scavenged	Atlas-SNP
PLXNB2	23654	hgsc.bcm.edu	37	22	50727961	50727961	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	21.0	13.0	54.0	0.0	0.619048	0	.	.	none	.	PLXNB2	172	.	NM_012401	exon3	c.C1053T	p.C351C	GCCGCCGCACTGG	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75980082	75980082	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	48.0	21.0	55.0	0.0	0.4375	0	.	.	none	.	CSPG4	175	.	NM_001897	exon3	c.C3324T	p.S1108S	CCCGTCGGACACC	.	PASS	Atlas-SNP
SPTBN4	57731	hgsc.bcm.edu	37	19	41073666	41073666	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	35.0	13.0	33.0	0.0	0.371429	0	.	.	none	.	SPTBN4	213	.	NM_020971	exon31	c.C6434T	p.A2145V	AGGCGGCGCCCCT	.	PASS	Atlas-SNP
PSEN1	5663	hgsc.bcm.edu	37	14	73640277	73640277	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	198.0	73.0	181.0	0.0	0.368687	0	.	.	none	.	PSEN1	38	.	NM_000021	exon5	c.C342T	p.I114I	TAGAATCTATACC	.	PASS	Atlas-SNP
ZNF688	146542	hgsc.bcm.edu	37	16	30583567	30583567	+	Silent	SNP	C	C	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	45.0	29.0	40.0	0.0	0.644444	0	.	.	none	.	ZNF688	37	.	NM_001024683	exon1	c.G30T	p.L10L	TGTTGACAGACTG	.	PASS	Atlas-SNP
GP2	2813	hgsc.bcm.edu	37	16	20322559	20322559	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	126.0	69.0	109.0	0.0	0.547619	0	.	.	none	GP2,colon,carcinoma,+1,1	GP2	122	1	NM_001007240	exon12	c.G1600C	p.A534P	GCCAAGCCAGGAG	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	145075777	145075777	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	180.0	27.0	219.0	0.0	0.15	0	.	.	none	PDE4DIP_ENST00000369348,NS,carcinoma,-1,2	PDE4DIP	817	2	NM_022359	exon1	c.C86T	p.T29M	TAAGGCGTGTAGT	.	PASS	Atlas-SNP
COBL	23242	hgsc.bcm.edu	37	7	51203882	51203882	+	Silent	SNP	T	T	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	136.0	42.0	158.0	0.0	0.308824	0	.	.	none	.	COBL	167	.	NM_015198	exon6	c.A930G	p.P310P	CACAGGTGGCCCT	.	PASS	Atlas-SNP
FMN1	342184	hgsc.bcm.edu	37	15	33359827	33359827	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	161.0	67.0	167.0	0.0	0.416149	0	.	.	none	.	FMN1	174	.	NM_001103184	exon1	c.G259T	p.V87F	GTGAAACCCGAGA	.	PASS	Atlas-SNP
TRAF7	84231	hgsc.bcm.edu	37	16	2226351	2226351	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	44.0	21.0	40.0	0.0	0.477273	0	.	.	none	.	TRAF7	158	.	NM_032271	exon20	c.G1964A	p.R655Q	GGGGCCGACTCTT	.	PASS	Atlas-SNP
RC3H1	149041	hgsc.bcm.edu	37	1	173916598	173916598	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	174.0	60.0	105.0	0.0	0.344828	0	.	.	none	.	RC3H1	110	.	NM_172071	exon14	c.C2646T	p.I882I	TCGTGAGATGGCA	.	PASS	Atlas-SNP
NHSL2	340527	hgsc.bcm.edu	37	X	71358413	71358413	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	181.0	108.0	120.0	0.0	0.596685	0	.	.	none	.	NHSL2	148	.	NM_001013627	exon6	c.A1015G	p.S339G	TTCCCAAGTCTCA	.	PASS	Atlas-SNP
CREBBP	1387	hgsc.bcm.edu	37	16	3828721	3828721	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	120.0	49.0	116.0	0.0	0.408333	0	.	.	none	.	CREBBP	546	.	NM_004380	exon9	c.T1921C	p.Y641H	ACTCGTACATGTC	.	PASS	Atlas-SNP
CCSER1	401145	hgsc.bcm.edu	37	4	92519732	92519732	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	67.0	29.0	62.0	0.0	0.432836	0	.	.	none	.	.	.	.	NM_001145065	exon11	c.C2227T	p.R743X	ACATATCGAAATC	.	PASS	Atlas-SNP
NFYC	4802	hgsc.bcm.edu	37	1	41213216	41213216	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	96.0	42.0	79.0	0.0	0.4375	0	.	.	none	.	NFYC	39	.	NM_001142587	exon3	c.G116A	p.R39Q	ACTTCCGAGTGCA	.	PASS	Atlas-SNP
UACA	55075	hgsc.bcm.edu	37	15	71055671	71055671	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	111.0	52.0	114.0	0.0	0.468468	0	.	.	none	.	UACA	235	.	NM_018003	exon1	c.G76A	p.A26T	TCACCGCGCTGGC	.	PASS	Atlas-SNP
XRN1	54464	hgsc.bcm.edu	37	3	142090122	142090122	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	105.0	50.0	93.0	0.0	0.47619	0	.	.	none	.	XRN1	138	.	NM_001042604	exon26	c.G3027A	p.V1009V	ATAGAACACATCC	.	PASS	Atlas-SNP
IL4I1	259307	hgsc.bcm.edu	37	19	50397663	50397663	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	101.0	41.0	110.0	0.0	0.405941	0	.	.	none	.	IL4I1	50	.	NM_172374	exon7	c.G495C	p.K165N	CGTGTTCTTGTCG	.	PASS	Atlas-SNP
SERPINB9	5272	hgsc.bcm.edu	37	6	2890535	2890535	+	Silent	SNP	T	T	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	92.0	72.0	84.0	0.0	0.782609	0	.	.	none	.	SERPINB9	37	.	NM_004155	exon7	c.A993G	p.A331A	CGACGCTGCCGCT	.	PASS	Atlas-SNP
DCAF6	55827	hgsc.bcm.edu	37	1	168014147	168014147	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	445.0	269.0	271.0	1.0	0.604494	0.00369004	.	.	none	.	DCAF6	99	.	NM_001198956	exon16	c.A1940G	p.D647G	AATCAGATAAGTT	.	PASS	Atlas-SNP
COL21A1	81578	hgsc.bcm.edu	37	6	55988901	55988901	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	247.0	202.0	311.0	0.0	0.817814	0	.	.	none	.	COL21A1	201	.	NM_030820	exon16	c.A1717T	p.R573X	CATGTCTTCCTGG	.	PASS	Atlas-SNP
FBXW11	23291	hgsc.bcm.edu	37	5	171305089	171305089	+	Silent	SNP	T	T	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	171.0	36.0	106.0	0.0	0.210526	0	.	.	none	.	FBXW11	72	.	NM_012300	exon7	c.A834T	p.G278G	TGTGTGTCCTGTT	.	PASS	Atlas-SNP
CHRM3	1131	hgsc.bcm.edu	37	1	240071868	240071868	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	90.0	18.0	89.0	0.0	0.2	0	.	.	none	.	CHRM3	118	.	NM_000740	exon5	c.G1117C	p.G373R	CTTCCGGGTCACA	.	PASS	Atlas-SNP
PLCE1	51196	hgsc.bcm.edu	37	10	96084266	96084266	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	83.0	30.0	72.0	0.0	0.361446	0	.	.	none	.	PLCE1	543	.	NM_016341	exon31	c.C6662T	p.A2221V	TTCAAGCCCAAAG	.	PASS	Atlas-SNP
KRAS	3845	hgsc.bcm.edu	37	12	25398255	25398255	+	Missense_Mutation	SNP	G	G	T	rs121913236		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	279.0	167.0	209.0	1.0	0.598566	0.00478469	.	.	weak	KRAS_ENST00000256078,colon,carcinoma,0,18	KRAS	30930	18	NM_004985	exon2	c.C64A	p.Q22K	TTAGCTGTATCGT	.	PASS	Atlas-SNP
HSF2BP	11077	hgsc.bcm.edu	37	21	45064273	45064273	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	101.0	38.0	93.0	0.0	0.376238	0	.	.	none	.	HSF2BP	28	.	NM_007031	exon4	c.A188G	p.N63S	TCCAGGTCTAGGA	.	PASS	Atlas-SNP
C9orf47	286223	hgsc.bcm.edu	37	9	91606581	91606581	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	39.0	12.0	30.0	0.0	0.307692	0	.	.	none	.	C9orf47	9	.	NM_001001938	exon2	c.C443T	p.P148L	GGATGCCGGTGGC	.	PASS	Atlas-SNP
KCNT1	57582	hgsc.bcm.edu	37	9	138664597	138664597	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	59.0	33.0	86.0	0.0	0.559322	0	.	.	none	.	KCNT1	139	.	NM_020822	exon19	c.G2045A	p.R682Q	AGCACCGGCCTAC	.	PASS	Atlas-SNP
NXF1	10482	hgsc.bcm.edu	37	11	62564806	62564806	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	112.0	54.0	143.0	0.0	0.482143	0	.	.	none	.	NXF1	67	.	NM_006362	exon12	c.C1106T	p.T369M	GGTAACGTCGTGG	.	PASS	Atlas-SNP
LRRC73	221424	hgsc.bcm.edu	37	6	43477491	43477491	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	18.0	17.0	13.0	0.0	0.944444	0	.	.	none	.	.	.	.	NM_001012974	exon1	c.G33C	p.E11D	CAGCGGCTCCCCC	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121414039	121414039	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	361.0	141.0	342.0	1.0	0.390582	0.00292398	.	.	none	.	GOLGB1	319	.	NM_001256486	exon13	c.C5331T	p.N1777N	CTCTAGGTTAGCT	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1016749	1016749	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	425.0	20.0	454.0	0.0	0.0470588	0	.	.	none	.	MUC6	408	.	NM_005961	exon31	c.A6052G	p.T2018A	TTGGAGTCACCAA	.	PASS	Atlas-SNP
MAGEB10	139422	hgsc.bcm.edu	37	X	27839462	27839462	+	Missense_Mutation	SNP	A	A	C	rs147336706	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	250.0	49.0	111.0	0.0	0.196	0	A|0.993;G|0.007	.	alt	.	MAGEB10	107	.	NM_182506	exon3	c.A39C	p.E13D	CAGGGAAAAACGC	.	PASS	Atlas-SNP
COL5A1	1289	hgsc.bcm.edu	37	9	137726979	137726979	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	28.0	13.0	30.0	0.0	0.464286	0	.	.	none	.	COL5A1	323	.	NM_000093	exon65	c.C5299T	p.L1767L	CGCTTCCTGGGCT	.	PASS	Atlas-SNP
COL16A1	1307	hgsc.bcm.edu	37	1	32124550	32124550	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	34.0	13.0	44.0	0.0	0.382353	0	.	.	none	.	COL16A1	137	.	NM_001856	exon63	c.C3895T	p.P1299S	GGCCTGGAGGCCC	.	PASS	Atlas-SNP
TECTA	7007	hgsc.bcm.edu	37	11	120989139	120989139	+	Silent	SNP	C	C	T	rs367974065		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	127.0	60.0	119.0	0.0	0.472441	0	.	.	weak	.	TECTA	329	.	NM_005422	exon6	c.C915T	p.C305C	GGTGTGCGAACCC	.	PASS	Atlas-SNP
AKT2	208	hgsc.bcm.edu	37	19	40741861	40741861	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	21.0	6.0	28.0	0.0	0.285714	0	.	.	none	AKT2,NS,carcinoma,+1,1	AKT2	53	1	NM_001626	exon11	c.C1111T	p.R371C	GCGTGCGCGGGAA	.	PASS	Atlas-SNP
DOCK6	57572	hgsc.bcm.edu	37	19	11363469	11363469	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	57.0	6.0	84.0	0.0	0.105263	0	.	.	none	.	DOCK6	104	.	NM_020812	exon3	c.C298T	p.P100S	CCTTGGGGATCCC	.	PASS	Atlas-SNP
FLNA	2316	hgsc.bcm.edu	37	X	153578209	153578209	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	72.0	15.0	56.0	0.0	0.208333	0	.	.	none	.	FLNA	373	.	NM_001110556	exon46	c.A7360T	p.T2454S	TGCTCGTGTTCAC	.	PASS	Atlas-SNP
SPRY3	10251	hgsc.bcm.edu	37	X	155004002	155004002	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	157.0	53.0	132.0	0.0	0.33758	0	.	.	none	.	SPRY3	52	.	NM_005840	exon2	c.C469A	p.P157T	TGCGTCCCCTGCA	.	PASS	Atlas-SNP
GPR158	57512	hgsc.bcm.edu	37	10	25887600	25887600	+	Silent	SNP	C	C	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	77.0	27.0	72.0	0.0	0.350649	0	.	.	none	.	GPR158	255	.	NM_020752	exon11	c.C3045A	p.T1015T	CCTGACCCCTGGT	.	PASS	Atlas-SNP
BIVM-ERCC5	0	hgsc.bcm.edu	37	13	103528055	103528055	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	64.0	59.0	81.0	0.0	0.921875	0	.	.	none	.	.	.	.	NM_001204425	exon23	c.G4725T	p.E1575D	GAAAGAGCCAAAA	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22207014	22207014	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	72.0	32.0	57.0	0.0	0.444444	0	.	.	none	.	HSPG2	311	.	NM_005529	exon16	c.C2037T	p.R679R	CTCCGCGCGCTGC	.	PASS	Atlas-SNP
FLNC	2318	hgsc.bcm.edu	37	7	128492881	128492881	+	Splice_Site	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	77.0	29.0	95.0	0.0	0.376623	0	.	.	none	.	FLNC	339	.	NM_001458	exon37	c.6005-1G>A	.	TCCACAGGGATCT	.	PASS	Atlas-SNP
HAUS8	93323	hgsc.bcm.edu	37	19	17166719	17166719	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	46.0	21.0	40.0	0.0	0.456522	0	.	.	none	.	HAUS8	31	.	NM_033417	exon9	c.C739T	p.L247L	CGGGCAGCTCGTG	.	PASS	Atlas-SNP
NACC2	138151	hgsc.bcm.edu	37	9	138903792	138903792	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	83.0	39.0	71.0	0.0	0.46988	0	.	.	none	.	NACC2	16	.	NM_144653	exon6	c.G1334A	p.R445H	ACGCGGCGGGCGT	.	PASS	Atlas-SNP
DIP2C	22982	hgsc.bcm.edu	37	10	332259	332259	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	76.0	35.0	89.0	0.0	0.460526	0	.	.	none	.	DIP2C	195	.	NM_014974	exon34	c.C4073T	p.A1358V	GGGTTGGCAATTA	.	PASS	Atlas-SNP
WASF1	8936	hgsc.bcm.edu	37	6	110429812	110429812	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	88.0	5.0	65.0	0.0	0.0568182	0	.	.	none	.	WASF1	35	.	NM_001024935	exon5	c.G341A	p.R114H	GTCTTGCGATCGA	.	PASS	Atlas-SNP
ZBTB40	9923	hgsc.bcm.edu	37	1	22838451	22838451	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	72.0	30.0	80.0	0.0	0.416667	0	.	.	none	.	ZBTB40	87	.	NM_001083621	exon12	c.A2285C	p.K762T	TGGCTAAGAGCAA	.	PASS	Atlas-SNP
TRPC5	7224	hgsc.bcm.edu	37	X	111090430	111090430	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	216.0	56.0	177.0	0.0	0.259259	0	.	.	none	.	TRPC5	142	.	NM_012471	exon6	c.C1612A	p.L538I	AGTAAAGCTGGTT	.	PASS	Atlas-SNP
C1orf61	10485	hgsc.bcm.edu	37	1	156386596	156386596	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	177.0	39.0	152.0	0.0	0.220339	0	.	.	none	.	C1orf61	15	.	NM_006365	exon3	c.G36C	p.L12F	GTTCCTCAAGTTA	.	PASS	Atlas-SNP
TBC1D10B	26000	hgsc.bcm.edu	37	16	30380609	30380609	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	58.0	18.0	51.0	0.0	0.310345	0	.	.	none	.	TBC1D10B	32	.	NM_015527	exon1	c.T896A	p.L299Q	AGGGCCAGCCCGT	.	PASS	Atlas-SNP
RBM12	10137	hgsc.bcm.edu	37	20	34242575	34242575	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	67.0	32.0	49.0	0.0	0.477612	0	.	.	none	.	RBM12	93	.	NM_001198840	exon2	c.C670A	p.P224T	TCGGGGGCACAGG	.	PASS	Atlas-SNP
GRIPAP1	56850	hgsc.bcm.edu	37	X	48837643	48837643	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	199.0	124.0	97.0	0.0	0.623116	0	.	.	none	.	GRIPAP1	128	.	NM_020137	exon21	c.C1914T	p.N638N	CTTGCTGTTAGTG	.	PASS	Atlas-SNP
FOXD4	2298	hgsc.bcm.edu	37	9	118097	118097	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	247.0	32.0	204.0	0.0	0.129555	0	.	.	none	FOXD4,colon,carcinoma,-1,1	FOXD4	75	1	NM_207305	exon1	c.G23A	p.R8H	CGAAGGCGCTCAG	.	PASS	Atlas-SNP
AGL	178	hgsc.bcm.edu	37	1	100327164	100327164	+	Missense_Mutation	SNP	G	G	A	rs199958942	by1000genomes	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	177.0	73.0	187.0	0.0	0.412429	0	G|1.000;A|0.000	0.000	strong	AGL,caecum,carcinoma,+1,2	AGL	137	2	NM_000644	exon3	c.G188A	p.R63H	AATTCCGTTCTCT	.	PASS	Atlas-SNP
COG4	25839	hgsc.bcm.edu	37	16	70515315	70515315	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	61.0	16.0	25.0	0.0	0.262295	0	.	.	none	.	COG4	64	.	NM_015386	exon18	c.C2182T	p.R728X	TGTCTCGGATGGT	.	PASS	Atlas-SNP
ADAMTSL2	9719	hgsc.bcm.edu	37	9	136404949	136404949	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	34.0	11.0	24.0	0.0	0.323529	0	.	.	none	.	ADAMTSL2	40	.	NM_014694	exon5	c.C366T	p.S122S	CAACTCCCACGTG	.	PASS	Atlas-SNP
PCF11	51585	hgsc.bcm.edu	37	11	82872427	82872427	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	151.0	60.0	191.0	0.0	0.397351	0	.	.	none	.	PCF11	220	.	NM_015885	exon2	c.T251G	p.V84G	AAAACGTTGGAAG	.	PASS	Atlas-SNP
KIF13A	63971	hgsc.bcm.edu	37	6	17788042	17788042	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	177.0	71.0	169.0	0.0	0.40113	0	.	.	none	.	KIF13A	276	.	NM_001105566	exon27	c.T3326G	p.L1109R	TCATCCAGGTATT	.	PASS	Atlas-SNP
C2orf91	400950	hgsc.bcm.edu	37	2	42180352	42180352	+	Silent	SNP	G	G	A	rs151243275	bycluster;by1000genomes	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	111.0	42.0	107.0	0.0	0.378378	0	G|0.995;A|0.005	0.005	strong	.	.	.	.	NM_001242815	exon2	c.C84T	p.Y28Y	TGGTCCGTAGGTC	.	PASS	Atlas-SNP
CCDC40	55036	hgsc.bcm.edu	37	17	78064015	78064015	+	Missense_Mutation	SNP	G	G	C	rs4889953	bycluster;by2hit2allele;by1000genomes	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	5.0	4.0	0.0	0.0	0.8	.	G|0.396;C|0.604	0.604	strong	CCDC40_ENST00000374877,NS,other,0,1	CCDC40	198	1	NM_001243342	exon18	c.G2910C	p.K970N	CACGAAGAACACG	.	scavenged	Atlas-SNP
MLLT6	4302	hgsc.bcm.edu	37	17	36865739	36865739	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	78.0	22.0	48.0	0.0	0.282051	0	.	.	none	.	MLLT6	80	.	NM_005937	exon6	c.C463T	p.Q155X	AGTGCCCAAATGG	.	PASS	Atlas-SNP
ANKHD1	54882	hgsc.bcm.edu	37	5	139887371	139887371	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	135.0	81.0	97.0	0.0	0.6	0	.	.	none	.	ANKHD1	233	.	NM_017747	exon20	c.A3553G	p.T1185A	TTTAGGACTGGGA	.	PASS	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	37	15	63128104	63128104	+	Silent	SNP	G	G	A	rs74020685	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	91.0	35.0	86.0	0.0	0.384615	0	G|0.999;C|0.001	.	alt	.	TLN2	253	.	NM_015059	exon54	c.G7206A	p.A2402A	GGTGGCGGCTGCG	.	PASS	Atlas-SNP
H3F3A	3020	hgsc.bcm.edu	37	1	226252097	226252097	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	239.0	148.0	151.0	0.0	0.619247	0	.	.	none	.	H3F3A	245	.	NM_002107	exon2	c.A45C	p.K15N	TGGTAAAGCACCC	.	PASS	Atlas-SNP
TBX4	9496	hgsc.bcm.edu	37	17	59560607	59560607	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	75.0	25.0	57.0	0.0	0.333333	0	.	.	none	.	TBX4	69	.	NM_018488	exon8	c.C1368T	p.P456P	GCTGCCCACCCTC	.	PASS	Atlas-SNP
CHID1	66005	hgsc.bcm.edu	37	11	902268	902268	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	65.0	26.0	69.0	0.0	0.4	0	.	.	none	.	CHID1	29	.	NM_001142676	exon5	c.C399T	p.P133P	CCAGACGGGTGAG	.	PASS	Atlas-SNP
SOCS1	8651	hgsc.bcm.edu	37	16	11348972	11348972	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	37.0	16.0	36.0	0.0	0.432432	0	.	.	none	.	SOCS1	84	.	NM_003745	exon2	c.G364T	p.G122X	TGGGTCCCGAGGC	.	PASS	Atlas-SNP
BCL7A	605	hgsc.bcm.edu	37	12	122460020	122460020	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	59.0	26.0	50.0	0.0	0.440678	0	.	.	none	.	BCL7A	31	.	NM_020993	exon1	c.C23T	p.A8V	TTCGAGCCGAGAC	.	PASS	Atlas-SNP
SDCCAG8	10806	hgsc.bcm.edu	37	1	243437859	243437859	+	Silent	SNP	T	T	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	454.0	117.0	300.0	0.0	0.257709	0	.	.	none	.	SDCCAG8	73	.	NM_006642	exon4	c.T321C	p.H107H	AGAACATGAGGAA	.	PASS	Atlas-SNP
IRF2BPL	64207	hgsc.bcm.edu	37	14	77493809	77493809	+	Silent	SNP	C	C	T	rs61991638	by1000genomes	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	36.0	7.0	22.0	0.0	0.194444	0	C|0.978;T|0.022	0.022	strong	.	IRF2BPL	40	.	NM_024496	exon1	c.G327A	p.Q109Q	CTGCTGCTGCTGT	.	PASS	Atlas-SNP
IRF1	3659	hgsc.bcm.edu	37	5	131825149	131825149	+	Missense_Mutation	SNP	T	T	C	rs121912469	alternate_allele	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	101.0	71.0	61.0	0.0	0.70297	0	.	.	alt	.	IRF1	26	.	NM_002198	exon2	c.A22G	p.M8V	GTCTCATGCGCAT	.	PASS	Atlas-SNP
HMMR	3161	hgsc.bcm.edu	37	5	162894753	162894753	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	415.0	95.0	272.0	0.0	0.228916	0	.	.	none	.	HMMR	64	.	NM_001142556	exon4	c.A272C	p.E91A	AGAAAGAGGTAAG	.	PASS	Atlas-SNP
ADCY4	196883	hgsc.bcm.edu	37	14	24802153	24802153	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	47.0	22.0	67.0	0.0	0.468085	0	.	.	none	.	ADCY4	86	.	NM_001198592	exon3	c.C201T	p.C67C	CAGCGCGCACAGC	.	PASS	Atlas-SNP
ZBP1	81030	hgsc.bcm.edu	37	20	56195323	56195323	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	69.0	29.0	65.0	0.0	0.42029	0	.	.	none	.	ZBP1	65	.	NM_001160419	exon1	c.G29A	p.R10K	CCTTCTCTGCCCG	.	PASS	Atlas-SNP
RTN4RL1	146760	hgsc.bcm.edu	37	17	1840012	1840012	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	226.0	66.0	165.0	0.0	0.292035	0	.	.	none	.	RTN4RL1	21	.	NM_178568	exon2	c.G1104A	p.A368A	GGCGCCCGCCTTA	.	PASS	Atlas-SNP
SCGN	10590	hgsc.bcm.edu	37	6	25701447	25701447	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	76.0	68.0	65.0	0.0	0.894737	0	.	.	none	SCGN,NS,carcinoma,0,1	SCGN	57	1	NM_006998	exon11	c.G715A	p.G239R	ATCAGCGGGGTGG	.	PASS	Atlas-SNP
SYMPK	8189	hgsc.bcm.edu	37	19	46347378	46347378	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	88.0	28.0	69.0	0.0	0.318182	0	.	.	none	.	SYMPK	104	.	NM_004819	exon8	c.C757G	p.L253V	TGGTCAGGTTGAT	.	PASS	Atlas-SNP
ZNF703	80139	hgsc.bcm.edu	37	8	37555934	37555934	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	12.0	10.0	37.0	0.0	0.833333	0	.	.	none	.	ZNF703	16	.	NM_025069	exon2	c.C1515T	p.S505S	GGGCAGCGCCGCC	.	PASS	Atlas-SNP
ARHGAP6	395	hgsc.bcm.edu	37	X	11160430	11160430	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	491.0	151.0	400.0	1.0	0.307536	0.0025	.	.	none	.	ARHGAP6	130	.	NM_013427	exon12	c.T2180G	p.L727R	TCTGACAGATCTA	.	PASS	Atlas-SNP
S1PR2	9294	hgsc.bcm.edu	37	19	10335123	10335123	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	33.0	26.0	35.0	0.0	0.787879	0	.	.	none	.	S1PR2	36	.	NM_004230	exon2	c.G459A	p.G153G	CGAGGCCCCGATG	.	PASS	Atlas-SNP
PEX5L	51555	hgsc.bcm.edu	37	3	179537727	179537727	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	250.0	98.0	244.0	0.0	0.392	0	.	.	none	.	PEX5L	104	.	NM_016559	exon9	c.G860A	p.W287X	TCTTCCCATTCTG	.	PASS	Atlas-SNP
KRT79	338785	hgsc.bcm.edu	37	12	53216988	53216988	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	101.0	68.0	90.0	0.0	0.673267	0	.	.	none	.	KRT79	78	.	NM_175834	exon7	c.G1179A	p.A393A	CTGCTCCGCTTCC	.	PASS	Atlas-SNP
AVIL	10677	hgsc.bcm.edu	37	12	58197059	58197059	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	199.0	58.0	125.0	0.0	0.291457	0	.	.	none	.	AVIL	60	.	NM_006576	exon15	c.G1933A	p.D645N	TCACGTCAGTAGG	.	PASS	Atlas-SNP
OR5M11	219487	hgsc.bcm.edu	37	11	56310329	56310329	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	48.0	26.0	41.0	0.0	0.541667	0	.	.	none	OR5M11,NS,carcinoma,0,2	OR5M11	60	2	NM_001005245	exon1	c.G405A	p.T135T	CCTGGACGTTTTC	.	PASS	Atlas-SNP
SOCS1	8651	hgsc.bcm.edu	37	16	11349096	11349096	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	25.0	8.0	23.0	0.0	0.32	0	.	.	none	SOCS1,lymph_node,lymphoid_neoplasm,0,1	SOCS1	84	1	NM_003745	exon2	c.C240T	p.Y80Y	CCCCCAGTAGAAT	.	PASS	Atlas-SNP
CAD	790	hgsc.bcm.edu	37	2	27456274	27456274	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	76.0	33.0	58.0	0.0	0.434211	0	.	.	none	CAD,NS,malignant_melanoma,+1,1	CAD	199	1	NM_004341	exon20	c.G3086A	p.R1029Q	TGCATCGGCAGCA	.	PASS	Atlas-SNP
SALL1	6299	hgsc.bcm.edu	37	16	51175886	51175886	+	Missense_Mutation	SNP	C	C	T	rs376234367		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	170.0	95.0	101.0	1.0	0.558824	0.00990099	.	.	weak	SALL1,face,carcinoma,0,2	SALL1	301	2	NM_002968	exon2	c.G247A	p.E83K	AGGTTTCGGGTGG	.	scavenged	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	37	22	18314712	18314712	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	80.0	38.0	99.0	0.0	0.475	0	.	.	none	.	MICAL3	53	.	NM_015241	exon21	c.G2963A	p.G988E	CCAGGCCCAAAGC	.	PASS	Atlas-SNP
HIST1H3B	8358	hgsc.bcm.edu	37	6	26031889	26031889	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	60.0	51.0	66.0	0.0	0.85	0	.	.	none	.	HIST1H3B	59	.	NM_003537	exon1	c.G400C	p.E134Q	CTCTTTCTCCGCG	.	PASS	Atlas-SNP
ZNF569	148266	hgsc.bcm.edu	37	19	37904751	37904751	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	89.0	36.0	66.0	0.0	0.404494	0	.	.	none	.	ZNF569	101	.	NM_152484	exon6	c.A809G	p.Y270C	CATGCATAGGGCT	.	PASS	Atlas-SNP
RIMS4	140730	hgsc.bcm.edu	37	20	43385538	43385538	+	Splice_Site	SNP	C	C	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	113.0	52.0	111.0	0.0	0.460177	0	.	.	none	.	RIMS4	47	.	NM_001205317	exon6	c.594+1G>T	.	CCCTCACCTGGAG	.	PASS	Atlas-SNP
MAP1S	55201	hgsc.bcm.edu	37	19	17837421	17837421	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	67.0	31.0	66.0	0.0	0.462687	0	.	.	none	MAP1S,bladder,carcinoma,-2,1	MAP1S	74	1	NM_018174	exon5	c.G1228A	p.A410T	ACGCTGGCCTCTG	.	PASS	Atlas-SNP
MROH2B	133558	hgsc.bcm.edu	37	5	41038933	41038933	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	66.0	18.0	24.0	0.0	0.272727	0	.	.	none	.	.	.	.	NM_173489	exon21	c.G2119A	p.A707T	CCACTGCTCCATA	.	PASS	Atlas-SNP
HECW1	23072	hgsc.bcm.edu	37	7	43360271	43360271	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	178.0	77.0	198.0	0.0	0.432584	0	.	.	none	.	HECW1	540	.	NM_015052	exon5	c.C390A	p.N130K	TAAAAACCGTGGA	.	PASS	Atlas-SNP
RHOT1	55288	hgsc.bcm.edu	37	17	30551748	30551748	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	96.0	50.0	66.0	0.0	0.520833	0	.	.	none	RHOT1,NS,lymphoid_neoplasm,+1,1	RHOT1	69	1	NM_001033568	exon21	c.G2072A	p.R691Q	AACAGCGATGATA	.	PASS	Atlas-SNP
TMEM237	65062	hgsc.bcm.edu	37	2	202501530	202501530	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	35.0	19.0	40.0	0.0	0.542857	0	.	.	none	.	TMEM237	21	.	NM_001044385	exon4	c.T215G	p.L72R	TCTTTGAGTTCTT	.	PASS	Atlas-SNP
SHROOM3	57619	hgsc.bcm.edu	37	4	77661110	77661110	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	59.0	23.0	36.0	0.0	0.38983	0	.	.	none	.	SHROOM3	134	.	NM_020859	exon5	c.A1784T	p.K595I	GTAACAAACCATC	.	PASS	Atlas-SNP
BANP	54971	hgsc.bcm.edu	37	16	88039849	88039849	+	Silent	SNP	G	G	A	rs372273341		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	78.0	48.0	70.0	0.0	0.615385	0	.	.	weak	.	BANP	67	.	NM_001173542	exon6	c.G633A	p.T211T	CGTCACGCTCATC	.	PASS	Atlas-SNP
FLG2	388698	hgsc.bcm.edu	37	1	152326298	152326298	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	247.0	98.0	227.0	0.0	0.396761	0	.	.	none	.	FLG2	431	.	NM_001014342	exon3	c.A3964T	p.T1322S	GTCTAGTGGTATC	.	PASS	Atlas-SNP
IARS	3376	hgsc.bcm.edu	37	9	95021262	95021262	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	44.0	10.0	61.0	1.0	0.227273	0.0163934	.	.	none	IARS,NS,carcinoma,-2,1	IARS	74	1	NM_013417	exon19	c.C1890T	p.S630S	CACAGGGGAGTTA	.	scavenged	Atlas-SNP
OR2L2	26246	hgsc.bcm.edu	37	1	248202362	248202362	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	152.0	89.0	102.0	1.0	0.585526	0.00980392	.	.	none	OR2L2,face,carcinoma,-1,4	OR2L2	115	4	NM_001004686	exon1	c.C793T	p.R265X	TCCCTGCGATCTC	.	scavenged	Atlas-SNP
CTPS2	56474	hgsc.bcm.edu	37	X	16707682	16707682	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	668.0	169.0	483.0	1.0	0.252994	0.00207039	.	.	none	.	CTPS2	49	.	NM_001144002	exon8	c.G763A	p.V255M	AAAGCACAGGAAC	.	PASS	Atlas-SNP
ZNF492	57615	hgsc.bcm.edu	37	19	22848027	22848027	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	761.0	235.0	829.0	1.0	0.308804	0.00120627	.	.	none	ZNF492_ENST00000456783,NS,carcinoma,-1,1	ZNF492	129	1	NM_020855	exon4	c.A1556G	p.K519R	TTGCAAAGATTTC	.	scavenged	Atlas-SNP
ARHGAP30	257106	hgsc.bcm.edu	37	1	161026256	161026256	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	49.0	14.0	35.0	0.0	0.285714	0	.	.	none	.	ARHGAP30	105	.	NM_001025598	exon3	c.C267T	p.C89C	GGAGACGCAGTGA	.	PASS	Atlas-SNP
CIITA	4261	hgsc.bcm.edu	37	16	11001721	11001721	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	42.0	22.0	24.0	0.0	0.52381	0	.	.	none	.	CIITA	92	.	NM_000246	exon11	c.G2372A	p.R791K	TTGCGAGGTACCT	.	PASS	Atlas-SNP
SGSH	6448	hgsc.bcm.edu	37	17	78184539	78184539	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	147.0	85.0	139.0	0.0	0.578231	0	.	.	none	.	SGSH	27	.	NM_000199	exon8	c.C1221T	p.T407T	CTGGAAGGTGGGT	.	PASS	Atlas-SNP
IGSF3	3321	hgsc.bcm.edu	37	1	117122394	117122394	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	76.0	32.0	51.0	0.0	0.421053	0	.	.	none	.	IGSF3	294	.	NM_001542	exon11	c.G3014A	p.R1005H	GCGAAGCGGGAGT	.	PASS	Atlas-SNP
KLF2	10365	hgsc.bcm.edu	37	19	16437842	16437842	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	38.0	17.0	52.0	0.0	0.447368	0	.	.	none	.	KLF2	10	.	NM_016270	exon3	c.G1068C	p.X356Y	CATGTAGCCGGGA	.	PASS	Atlas-SNP
FAS	355	hgsc.bcm.edu	37	10	90773125	90773125	+	Splice_Site	SNP	G	G	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	100.0	66.0	156.0	1.0	0.66	0.00641026	.	.	none	.	FAS	47	.	NM_152871	exon7	c.613+1G>C	.	TATCTGGTAAGGC	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11520880	11520880	+	Missense_Mutation	SNP	C	C	T	rs377415601	alternate_allele	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	92.0	54.0	74.0	0.0	0.586957	0	.	.	alt	.	DNAH9	695	.	NM_001372	exon5	c.C1057T	p.R353C	TCCTACCGCTCCC	.	PASS	Atlas-SNP
POLE	5426	hgsc.bcm.edu	37	12	133240614	133240614	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	145.0	28.0	98.0	0.0	0.193103	0	.	.	none	.	POLE	416	.	NM_006231	exon23	c.C2682T	p.G894G	CATGGCGCCTGGG	.	PASS	Atlas-SNP
GOLGA6L6	727832	hgsc.bcm.edu	37	15	20739696	20739696	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	78.0	14.0	94.0	0.0	0.179487	0	.	.	none	GOLGA6L6,NS,carcinoma,-1,1	GOLGA6L6	37	1	NM_001145004	exon8	c.G2054A	p.R685Q	TGCTCCCGTATCT	.	scavenged	Atlas-SNP
IKZF3	22806	hgsc.bcm.edu	37	17	37944556	37944556	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	145.0	88.0	88.0	0.0	0.606897	0	.	.	none	.	IKZF3	79	.	NM_012481	exon6	c.G664A	p.E222K	AGCGCTCCTTGTG	.	PASS	Atlas-SNP
GALNT9	50614	hgsc.bcm.edu	37	12	132837584	132837584	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	53.0	31.0	51.0	0.0	0.584906	0	.	.	none	.	GALNT9	74	.	NM_001122636	exon4	c.C711T	p.T237T	TGGGGCGGTGGCC	.	PASS	Atlas-SNP
CDH11	1009	hgsc.bcm.edu	37	16	65016083	65016083	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	240.0	82.0	179.0	1.0	0.341667	0.00558659	.	.	none	CDH11,colon,carcinoma,0,1	CDH11	260	1	NM_001797	exon8	c.T1121C	p.V374A	TCTTCTACTGAGA	.	scavenged	Atlas-SNP
CCDC81	60494	hgsc.bcm.edu	37	11	86133616	86133616	+	Silent	SNP	G	G	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	42.0	20.0	42.0	0.0	0.47619	0	.	.	none	.	CCDC81	89	.	NM_001156474	exon15	c.G1818T	p.R606R	CCTCAGGGCTTCA	.	PASS	Atlas-SNP
PGD	5226	hgsc.bcm.edu	37	1	10479771	10479771	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	66.0	37.0	62.0	0.0	0.560606	0	.	.	none	.	PGD	39	.	NM_002631	exon13	c.G1417A	p.G473S	GGCCATGGTGGCA	.	PASS	Atlas-SNP
TECRL	253017	hgsc.bcm.edu	37	4	65165691	65165691	+	Splice_Site	SNP	C	C	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	398.0	159.0	361.0	1.0	0.399497	0.00277008	.	.	none	.	TECRL	106	.	NM_001010874	exon9	c.774+1G>T	.	TACATACCAGAAA	.	PASS	Atlas-SNP
MBOAT2	129642	hgsc.bcm.edu	37	2	9002786	9002786	+	Silent	SNP	G	G	A	rs142879518	bycluster;by1000genomes	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	30.0	21.0	74.0	0.0	0.7	0	G|1.000;A|0.000	0.000	strong	.	MBOAT2	36	.	NM_138799	exon11	c.C1119T	p.H373H	TACCCCGTGCCAA	.	PASS	Atlas-SNP
NEB	4703	hgsc.bcm.edu	37	2	152486101	152486101	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	120.0	52.0	147.0	0.0	0.433333	0	.	.	none	.	NEB	1697	.	NM_001271208	exon68	c.C9783T	p.D3261D	GATGGCGTCACTT	.	PASS	Atlas-SNP
BAI3	577	hgsc.bcm.edu	37	6	69772924	69772924	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	76.0	59.0	95.0	0.0	0.776316	0	.	.	none	.	BAI3	451	.	NM_001704	exon16	c.C2432A	p.A811D	ATTTGGCTAATGT	.	PASS	Atlas-SNP
HIATL1	84641	hgsc.bcm.edu	37	9	97203305	97203305	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	354.0	130.0	361.0	0.0	0.367232	0	.	.	none	.	HIATL1	31	.	NM_032558	exon5	c.C434T	p.S145L	TCTTCTCGGTCAC	.	PASS	Atlas-SNP
MYO1E	4643	hgsc.bcm.edu	37	15	59506886	59506886	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	173.0	70.0	179.0	0.0	0.404624	0	.	.	none	.	MYO1E	99	.	NM_004998	exon11	c.G1141T	p.E381X	TGTATTCTTCATG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179593297	179593297	+	Silent	SNP	G	G	A	rs369275615		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	125.0	60.0	120.0	0.0	0.48	0	.	.	weak	TTN_ENST00000356127,NS,carcinoma,0,3	TTN	18412	3	NM_001267550	exon66	c.C19356T	p.S6452S	CTGACCGCTGTCC	.	PASS	Atlas-SNP
PRDM9	56979	hgsc.bcm.edu	37	5	23527595	23527595	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	172.0	102.0	118.0	1.0	0.593023	0.00847458	.	.	none	PRDM9,NS,carcinoma,-1,1	PRDM9	344	1	NM_020227	exon11	c.G2398T	p.G800W	CACACAGGGGAGA	.	scavenged	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92495108	92495108	+	Silent	SNP	C	C	G	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	104.0	42.0	88.0	0.0	0.403846	0	.	.	none	.	FAT3	1822	.	NM_001008781	exon4	c.C3756G	p.P1252P	CAAGCCCCAGTTC	.	PASS	Atlas-SNP
RHOA	387	hgsc.bcm.edu	37	3	49413010	49413010	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	93.0	43.0	107.0	0.0	0.462366	0	.	.	none	RHOA,NS,lymphoid_neoplasm,+1,7	RHOA	46	7	NM_001664	exon2	c.C13T	p.R5W	TCTTCCGGATGGC	.	PASS	Atlas-SNP
CYP4F3	4051	hgsc.bcm.edu	37	19	15760884	15760884	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	100.0	34.0	125.0	0.0	0.34	0	.	.	none	.	CYP4F3	69	.	NM_001199209	exon7	c.T809C	p.V270A	ATGCCGTCATCCA	.	PASS	Atlas-SNP
NAV2	89797	hgsc.bcm.edu	37	11	20066704	20066704	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	42.0	15.0	48.0	0.0	0.357143	0	.	.	none	NAV2,NS,carcinoma,+2,1	NAV2	255	1	NM_001244963	exon15	c.C3459T	p.A1153A	CGCCGCCGGCCTG	.	PASS	Atlas-SNP
FAM135B	51059	hgsc.bcm.edu	37	8	139164971	139164971	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	129.0	77.0	90.0	0.0	0.596899	0	.	.	none	LOC51059,rectum,carcinoma,0,2	FAM135B	423	2	NM_015912	exon13	c.G1747A	p.D583N	ACTTATCTCTAGA	.	PASS	Atlas-SNP
MYH14	79784	hgsc.bcm.edu	37	19	50779294	50779294	+	Missense_Mutation	SNP	C	C	T	rs373919106	alternate_allele	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	88.0	39.0	112.0	0.0	0.443182	0	.	.	alt	MYH14_ENST00000262269,colon,carcinoma,0,4	MYH14	261	4	NM_001145809	exon28	c.C3514T	p.R1172W	TCCCTGCGGGAGG	.	PASS	Atlas-SNP
HIST1H2AM	8336	hgsc.bcm.edu	37	6	27860757	27860757	+	Silent	SNP	C	C	T	rs140056231	alternate_allele	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	125.0	111.0	122.0	1.0	0.888	0.00819672	C|1.000;G|0.000	.	alt	.	HIST1H2AM	27	.	NM_003514	exon1	c.G171A	p.E57E	TAGGTACTCCAGC	.	PASS	Atlas-SNP
CLCA2	9635	hgsc.bcm.edu	37	1	86905898	86905898	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	112.0	45.0	135.0	0.0	0.401786	0	.	.	none	.	CLCA2	102	.	NM_006536	exon8	c.A1271C	p.K424T	ATGATAAGCTTCT	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88803982	88803982	+	Missense_Mutation	SNP	C	C	G	rs6500493	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	4.0	4.0	0.0	0.0	1	.	C|0.223;G|0.777	0.777	strong	.	PIEZO1	79	.	NM_001142864	exon10	c.G1180C	p.V394L	GCAGGACGGAGCT	.	PASS	Atlas-SNP
CCDC66	285331	hgsc.bcm.edu	37	3	56650054	56650054	+	Missense_Mutation	SNP	T	T	C	rs111934125	bycluster	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	141.0	11.0	149.0	0.0	0.0780142	0	C|1.000;|0.000	1.000	weak	CCDC66_ENST00000394672,caecum,carcinoma,0,2	CCDC66	145	2	NM_001141947	exon13	c.T1816C	p.S606P	ACGACTTCTAAGA	.	PASS	Atlas-SNP
OR10H3	26532	hgsc.bcm.edu	37	19	15852443	15852443	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	231.0	99.0	226.0	2.0	0.428571	0.00884956	.	.	none	OR10H3,colon,carcinoma,0,2	OR10H3	53	2	NM_013938	exon1	c.C241T	p.R81C	ACCCCTCGCATGC	.	scavenged	Atlas-SNP
NTN4	59277	hgsc.bcm.edu	37	12	96076600	96076600	+	Splice_Site	SNP	T	T	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	78.0	4.0	53.0	0.0	0.0512821	0	.	.	none	.	NTN4	67	.	NM_021229	exon8	c.1395-2A>G	.	TGTGGCTAACAAA	.	PASS	Atlas-SNP
C7	730	hgsc.bcm.edu	37	5	40958155	40958155	+	Silent	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	122.0	44.0	94.0	0.0	0.360656	0	.	.	none	.	C7	136	.	NM_000587	exon11	c.G1281A	p.L427L	TGAGCTGGTAAAG	.	PASS	Atlas-SNP
GABRG3	2567	hgsc.bcm.edu	37	15	27772698	27772698	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	90.0	12.0	102.0	0.0	0.133333	0	.	.	none	.	GABRG3	115	.	NM_033223	exon8	c.G985A	p.A329T	GTCTTCGCCGCGC	.	PASS	Atlas-SNP
CD163L1	283316	hgsc.bcm.edu	37	12	7556213	7556213	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	118.0	64.0	108.0	0.0	0.542373	0	.	.	none	.	CD163L1	238	.	NM_174941	exon6	c.G1326T	p.E442D	AGCTGACTCATTC	.	PASS	Atlas-SNP
SEMA3C	10512	hgsc.bcm.edu	37	7	80418691	80418691	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	240.0	100.0	221.0	0.0	0.416667	0	.	.	none	.	SEMA3C	106	.	NM_006379	exon12	c.T1285A	p.Y429N	TTGTATACTTGTA	.	PASS	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	37	2	73677595	73677595	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	90.0	34.0	72.0	0.0	0.377778	0	.	.	none	.	ALMS1	384	.	NM_015120	exon8	c.C3938A	p.S1313X	ATGTTTCAGCGGT	.	PASS	Atlas-SNP
KIF4B	285643	hgsc.bcm.edu	37	5	154395805	154395805	+	Missense_Mutation	SNP	C	C	T	rs193075545	bycluster;by1000genomes	TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	149.0	80.0	100.0	0.0	0.536913	0	C|1.000;T|0.000	0.000	strong	.	KIF4B	307	.	NM_001099293	exon1	c.C2386T	p.R796W	AAACTCCGGAAGT	.	PASS	Atlas-SNP
ORC5	5001	hgsc.bcm.edu	37	7	103835607	103835607	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	90.0	45.0	74.0	0.0	0.5	0	.	.	none	.	ORC5	48	.	NM_002553	exon5	c.C537A	p.F179L	ATCAGGGAAATAT	.	PASS	Atlas-SNP
DHRS2	10202	hgsc.bcm.edu	37	14	24108080	24108080	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	55.0	22.0	66.0	0.0	0.4	0	.	.	none	.	DHRS2	78	.	NM_182908	exon2	c.T7A	p.S3T	ATGCTGTCAGCAG	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	170134323	170134323	+	Silent	SNP	C	C	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	219.0	107.0	209.0	0.0	0.488584	0	.	.	none	.	LRP2	751	.	NM_004525	exon13	c.G1704A	p.S568S	ACGCTTCGATATC	.	PASS	Atlas-SNP
KLHL14	57565	hgsc.bcm.edu	37	18	30350456	30350456	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	53.0	18.0	32.0	0.0	0.339623	0	.	.	none	.	KLHL14	92	.	NM_020805	exon2	c.C99G	p.C33W	CACGTCGCAAAAC	.	PASS	Atlas-SNP
MROH2B	133558	hgsc.bcm.edu	37	5	41038932	41038932	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A7Q1-01A-11D-A382-10	TCGA-FA-A7Q1-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	9c377b8a-f2c6-4113-8515-8eb29e95690c	722874f7-34b9-4f67-8cf3-700ec8f4c50e	65.0	18.0	25.0	0.0	0.276923	0	.	.	none	.	.	.	.	NM_173489	exon21	c.C2120A	p.A707E	GCCACTGCTCCAT	.	PASS	Atlas-SNP