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
SEMA6D	80031	hgsc.bcm.edu	37	15	48058789	48058791	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	116	11	118	0	0.0948276	0	.	.	none	.	SEMA6D	322	.	NM_020858	exon16	c.1661_1663del	p.554_555del	.	.	PASS	Atlas-Indel
SRSF1	6426	hgsc.bcm.edu	37	17	56083716	56083717	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	11	11	0	.	1.000	.	.	.	none	SRSF1,NS,carcinoma,-1,1	SRSF1	41	1	NM_001078166	exon2	c.367_368del	p.123_123del	.	.	PASS	Pindel,Atlas-Indel
URB1	9875	hgsc.bcm.edu	37	21	33747729	33747731	+	In_Frame_Del	DEL	AAA	AAA	-	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	AAA	AAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	128	12	136	0	0.09375	0	.	.	none	.	URB1	176	.	NM_014825	exon6	c.727_729del	p.243_243del	.	.	PASS	Atlas-Indel
CCDC168	643677	hgsc.bcm.edu	37	13	103383805	103383806	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	13	13	0	.	1.000	.	.	.	none	.	.	.	.	NM_001146197	exon4	c.19242_19243insA	p.N6414fs	.	.	PASS	Pindel,Atlas-Indel
NEFH	4744	hgsc.bcm.edu	37	22	29885567	29885568	+	In_Frame_Ins	INS	-	-	AAGTCCCCTGAGAAGGCC	rs147489453	bycluster;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	163	65	193	0	0.398773	0	.	.	strong	NEFH,rectum,carcinoma,0,1	NEFH	178	1	NM_021076	exon4	c.1938_1939insAAGTCCCCTGAGAAGGCC	p.A646delinsAKSPEKA	.	.	PASS	Atlas-Indel
CXCR5	643	hgsc.bcm.edu	37	11	118765330	118765331	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	34	11	31	0	0.323529	0	.	.	none	.	CXCR5	34	.	NM_001716	exon2	c.1076_1077del	p.359_359del	.	.	PASS	Atlas-Indel
KCNN3	3782	hgsc.bcm.edu	37	1	154842199	154842200	+	In_Frame_Ins	INS	-	-	GCTGCTGCTGCT	rs3831942	alternate_allele	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	47	16	36	0	0.340426	0	.	.	alt	KCNN3,colon,carcinoma,0,1	KCNN3	141	1	NM_001204087	exon1	c.242_243insAGCAGCAGCAGC	p.P81delinsQQQQP	.	.	PASS	Atlas-Indel
EP400	57634	hgsc.bcm.edu	37	12	132547068	132547069	+	In_Frame_Ins	INS	-	-	GCA	rs367737531		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	43	16	46	0	0.372093	0	.	.	weak	EP400,NS,carcinoma,0,2	EP400	370	2	NM_015409	exon47	c.8156_8157insGCA	p.R2719delinsRQ	.	.	PASS	Atlas-Indel
KCNQ4	9132	hgsc.bcm.edu	37	1	41300690	41300690	+	Silent	SNP	G	G	T	rs55964611	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	158	3	235	0	0.0189873	0	G|0.974;A|0.026	.	alt	KCNQ4,colon,carcinoma,+1,1	KCNQ4	58	1	NM_004700	exon12	c.G1665T	p.P555P	GCGACCGTACGAC	.	scavenged	Atlas-SNP
UNK	85451	hgsc.bcm.edu	37	17	73780999	73780999	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	51	8	57	0	0.156863	0	.	.	none	.	UNK	87	.	NM_001080419	exon1	c.C38T	p.S13F	CAGCTTCCTCGGC	.	PASS	Atlas-SNP
NUFIP1	26747	hgsc.bcm.edu	37	13	45523879	45523879	+	Silent	SNP	T	T	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	78	7	70	4	0.0897436	0.0571429	.	.	none	NUFIP1,NS,carcinoma,0,5	NUFIP1	41	5	NM_012345	exon8	c.A1116G	p.S372S	TGACCCTGAAAGA	.	scavenged	Atlas-SNP
KCNJ6	3763	hgsc.bcm.edu	37	21	39087049	39087049	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	79	9	110	0	0.113924	0	.	.	none	.	KCNJ6	58	.	NM_002240	exon3	c.C411T	p.N137N	GAACCCGTTGAGG	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145304529	145304529	+	Missense_Mutation	SNP	T	T	C	rs76272271	byfrequency	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	87	23	83	15	0.264368	0.180723	T|0.625;C|0.375	0.375	strong	NBPF10_ENST00000369338,NS,carcinoma,0,6	NBPF10	221	6	NM_001039703	exon10	c.T1462C	p.S488P	CATGGCTCTTATG	.	scavenged	Atlas-SNP
CTSH	1512	hgsc.bcm.edu	37	15	79215405	79215405	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	104	14	95	0	0.134615	0	.	.	none	.	CTSH	23	.	NM_004390	exon11	c.T862C	p.Y288H	CTCCATACCCAAC	.	PASS	Atlas-SNP
ZNF749	388567	hgsc.bcm.edu	37	19	57956104	57956104	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	102	3	112	1	0.0294118	0.00892857	.	.	none	ZNF749,NS,malignant_melanoma,0,2	ZNF749	75	2	NM_001023561	exon3	c.G1588C	p.E530Q	CAGCATGAGAAAA	.	scavenged	Atlas-SNP
HPS3	84343	hgsc.bcm.edu	37	3	148863160	148863160	+	Silent	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	83	7	74	0	0.0843373	0	.	.	none	.	HPS3	104	.	NM_032383	exon5	c.A990G	p.G330G	TGATGGAAAAAAT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238202	31238202	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	58	5	76	0	0.0862069	0	.	.	none	.	HLA-C	92	.	NM_002117	exon4	c.G680A	p.C227Y	GCCCAGCACCTCA	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7887248	7887248	+	Silent	SNP	G	G	A	rs2859387	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	82	3	99	0	0.0365854	0	G|0.567;A|0.433	0.433	strong	PER3,NS,carcinoma,+1,1	PER3	95	1	NM_016831	exon17	c.G2235A	p.P745P	GCTGCCGGAGCCG	.	scavenged	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1016851	1016851	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	402	16	549	24	0.039801	0.0437158	.	.	none	MUC6_ENST00000421673,NS,carcinoma,+2,2	MUC6	408	2	NM_005961	exon31	c.A5950G	p.M1984V	CAGTCATAGGACC	.	scavenged	Atlas-SNP
PRB2	653247	hgsc.bcm.edu	37	12	11546309	11546309	+	Missense_Mutation	SNP	C	C	G	rs201308939		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	151	6	178	4	0.0397351	0.0224719	.	.	weak	PRB2_ENST00000389362,trunk,malignant_melanoma,0,2	PRB2	168	2	NM_006248	exon3	c.G703C	p.A235P	ATCGGGCACTTTG	.	scavenged	Atlas-SNP
MPEG1	219972	hgsc.bcm.edu	37	11	58978525	58978525	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	108	43	67	0	0.398148	0	.	.	none	.	MPEG1	72	.	NM_001039396	exon1	c.C1814T	p.A605V	GTGGCAGCCTGAC	.	PASS	Atlas-SNP
ZNF575	284346	hgsc.bcm.edu	37	19	44039461	44039461	+	Silent	SNP	G	G	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	76	5	90	1	0.0657895	0.0111111	.	.	none	ZNF575,NS,carcinoma,+1,1	ZNF575	14	1	NM_174945	exon4	c.G360T	p.P120P	GCACCCGTGCCCA	.	scavenged	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141324966	141324966	+	Missense_Mutation	SNP	T	T	C	rs62380003	bycluster;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	51	14	35	0	0.27451	0	T|0.988;C|0.012	0.012	strong	.	PCDH12	133	.	NM_016580	exon4	c.A3535G	p.S1179G	TGCTGCTGCTGCT	.	PASS	Atlas-SNP
LILRA2	11027	hgsc.bcm.edu	37	19	55086873	55086873	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	166	5	217	4	0.0301205	0.0184332	.	.	none	LILRA2,NS,carcinoma,0,1	LILRA2	99	1	NM_001130917	exon5	c.G806A	p.W269X	CTGGTTGGCAGCC	.	scavenged	Atlas-SNP
PEX2	5828	hgsc.bcm.edu	37	8	77896279	77896279	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	102	8	89	0	0.0784314	0	.	.	none	.	PEX2	44	.	NM_000318	exon4	c.C136T	p.P46S	GCCCAGGTTTAAA	.	PASS	Atlas-SNP
KLRC2	3822	hgsc.bcm.edu	37	12	10588444	10588444	+	Missense_Mutation	SNP	G	G	C	rs34194304		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	89	20	104	17	0.224719	0.163462	.	.	weak	KLRC2,NS,carcinoma,+1,1	KLRC2	29	1	NM_002260	exon1	c.C142G	p.P48A	GGGAAGGATTTTG	.	scavenged	Atlas-SNP
HIST1H2BK	85236	hgsc.bcm.edu	37	6	27114224	27114224	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	91	3	136	2	0.032967	0.0147059	.	.	none	HIST1H2BK_ENST00000396891,NS,carcinoma,0,2	HIST1H2BK	68	2	NM_080593	exon1	c.C354T	p.A118A	GGTGACGGCCTTG	.	scavenged	Atlas-SNP
DEFB114	245928	hgsc.bcm.edu	37	6	49928117	49928117	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	97	18	107	0	0.185567	0	.	.	none	.	DEFB114	12	.	NM_001037499	exon2	c.A98T	p.Y33F	CGACCGTAACGTT	.	PASS	Atlas-SNP
ATN1	1822	hgsc.bcm.edu	37	12	7045924	7045924	+	Missense_Mutation	SNP	G	G	T	rs199988271	bycluster;alternate_allele	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	36	3	41	2	0.0833333	0.0487805	G|0.999;A|0.001	.	alt	ATN1,colon,carcinoma,0,1	ATN1	95	1	NM_001007026	exon5	c.G1494T	p.Q498H	GCAGCAGCAGCAG	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9006370	9006370	+	Silent	SNP	A	A	G	rs79341062	bycluster;byfrequency;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	35	3	48	2	0.0857143	0.0416667	A|0.500;G|0.500	0.500	strong	MUC16_ENST00000397910,NS,carcinoma,-2,2	MUC16	4315	2	NM_024690	exon45	c.T39648C	p.Y13216Y	GCCAGAATACAGA	.	scavenged	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32017196	32017196	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	85	4	109	0	0.0470588	0	.	.	none	.	TNXB	553	.	NM_019105	exon28	c.G9602A	p.R3201K	CCGTCCCTGTCCT	.	PASS	Atlas-SNP
TRPM6	140803	hgsc.bcm.edu	37	9	77427256	77427256	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	61	5	74	0	0.0819672	0	.	.	none	TRPM6,NS,carcinoma,0,1	TRPM6	377	1	NM_017662	exon12	c.C1402T	p.R468C	GAAAGCGATGGAG	.	scavenged	Atlas-SNP
PHKA1	5255	hgsc.bcm.edu	37	X	71855062	71855062	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	55	17	49	0	0.309091	0	.	.	none	.	PHKA1	129	.	NM_001172436	exon16	c.C1657T	p.R553C	GCCAGCGGCTACA	.	PASS	Atlas-SNP
MPEG1	219972	hgsc.bcm.edu	37	11	58978341	58978341	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	138	11	70	0	0.0797101	0	.	.	none	.	MPEG1	72	.	NM_001039396	exon1	c.C1998T	p.T666T	CAGAATGGTGGTG	.	PASS	Atlas-SNP
MYH13	8735	hgsc.bcm.edu	37	17	10267752	10267752	+	Silent	SNP	G	G	A	rs189377998	by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	159	19	193	0	0.119497	0	G|1.000;A|0.000	0.000	strong	MYH13_ENST00000252172,NS,carcinoma,0,2	MYH13	533	2	NM_003802	exon3	c.C96T	p.F32F	GGAATCGAATGGA	.	PASS	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97883094	97883094	+	Missense_Mutation	SNP	T	T	G	rs62156176	bycluster;byfrequency	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	305	4	314	3	0.0131148	0.00955414	T|0.905;G|0.095	0.095	strong	ANKRD36_ENST00000420699,NS,carcinoma,0,4	ANKRD36	170	4	NM_001164315	exon64	c.T3838G	p.W1280G	GGCGGTTGGAAAT	.	scavenged	Atlas-SNP
LPHN1	22859	hgsc.bcm.edu	37	19	14288465	14288465	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	48	7	78	0	0.145833	0	.	.	none	LPHN1,NS,carcinoma,-1,1	LPHN1	107	1	NM_001008701	exon3	c.C162T	p.D54D	GATGACGTCGCTG	.	PASS	Atlas-SNP
NOM1	64434	hgsc.bcm.edu	37	7	156743222	156743222	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	72	3	73	2	0.0416667	0.0273973	.	.	none	NOM1,NS,carcinoma,+1,1	NOM1	73	1	NM_138400	exon1	c.A791G	p.E264G	AGGAGGAGGGAGA	.	scavenged	Atlas-SNP
MPEG1	219972	hgsc.bcm.edu	37	11	58978740	58978740	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	99	6	67	0	0.0606061	0	.	.	none	MPEG1,NS,lymphoid_neoplasm,0,2	MPEG1	72	2	NM_001039396	exon1	c.C1599T	p.S533S	TGTGCAGCTAAAG	.	PASS	Atlas-SNP
C21orf62	56245	hgsc.bcm.edu	37	21	34166724	34166724	+	Silent	SNP	T	T	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	63	7	63	0	0.111111	0	.	.	none	.	C21orf62	26	.	NM_001162495	exon4	c.A9T	p.P3P	GGAAGGTGGTGCC	.	PASS	Atlas-SNP
ADARB1	104	hgsc.bcm.edu	37	21	46595934	46595934	+	Silent	SNP	G	G	A	rs201356458		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	124	16	137	0	0.129032	0	G|0.999;A|0.001	0.001	weak	ADARB1_ENST00000389863,NS,carcinoma,0,4	ADARB1	81	4	NM_001160230	exon4	c.G318A	p.A106A	GCACGCGCCTTTG	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	37	15	63970537	63970537	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	79	10	79	0	0.126582	0	.	.	none	.	HERC1	624	.	NM_003922	exon37	c.G6577A	p.G2193S	GTGTGCCACGCAT	.	PASS	Atlas-SNP
HIST1H2BK	85236	hgsc.bcm.edu	37	6	27114250	27114250	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	81	9	110	0	0.111111	0	.	.	none	.	HIST1H2BK	68	.	NM_080593	exon1	c.C328T	p.H110Y	CGGCGTGCTTGGC	.	PASS	Atlas-SNP
FCRLB	127943	hgsc.bcm.edu	37	1	161695618	161695618	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	56	4	67	0	0.0714286	0	.	.	none	.	FCRLB	35	.	NM_001002901	exon4	c.G315A	p.L105L	TTGGCTGATTCTG	.	PASS	Atlas-SNP
DPY19L1	23333	hgsc.bcm.edu	37	7	35009120	35009120	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	535	29	643	21	0.0542056	0.0326594	.	.	none	DPY19L1,NS,carcinoma,0,2	DPY19L1	56	2	NM_015283	exon9	c.C720T	p.S240S	AATCAAGCTTCCT	.	scavenged	Atlas-SNP
NLRP9	338321	hgsc.bcm.edu	37	19	56244558	56244558	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	84	11	102	0	0.130952	0	.	.	none	NLRP9,NS,carcinoma,0,1	NLRP9	163	1	NM_176820	exon2	c.C639T	p.I213I	GTCTTCGATCTTC	.	PASS	Atlas-SNP
COL4A4	1286	hgsc.bcm.edu	37	2	228009244	228009244	+	Silent	SNP	T	T	C	rs3817617	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	608	8	659	2	0.0131579	0.0030349	T|0.987;C|0.013	0.013	strong	COL4A4,NS,carcinoma,0,1	COL4A4	215	1	NM_000092	exon3	c.A102G	p.Q34Q	TACATATTGTACA	.	scavenged	Atlas-SNP
CHERP	10523	hgsc.bcm.edu	37	19	16640580	16640580	+	Silent	SNP	T	T	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	28	2	42	0	0.0714286	0	.	.	none	CHERP,NS,carcinoma,0,2	CHERP	70	2	NM_006387	exon8	c.A1008G	p.Q336Q	CTGCTGTTGCTGC	.	scavenged	Atlas-SNP
RGPD3	653489	hgsc.bcm.edu	37	2	107049631	107049631	+	Silent	SNP	C	C	T	rs2912696		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	601	12	631	6	0.0199667	0.00950872	.	.	weak	RGPD3_ENST00000304514,bladder,carcinoma,0,6	RGPD3	316	6	NM_001144013	exon16	c.G2316A	p.A772A	TGAATCCGCATTT	.	scavenged	Atlas-SNP
DDX52	11056	hgsc.bcm.edu	37	17	35993354	35993354	+	Silent	SNP	T	T	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	60	9	70	0	0.15	0	.	.	none	.	DDX52	40	.	NM_007010	exon3	c.A381C	p.L127L	GGAAGTTAGTTTA	.	PASS	Atlas-SNP
KRT37	8688	hgsc.bcm.edu	37	17	39580747	39580747	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	71	6	78	0	0.084507	0	.	.	none	.	KRT37	61	.	NM_003770	exon1	c.G29T	p.C10F	AGAGGGCATGAGG	.	PASS	Atlas-SNP
OR10G4	390264	hgsc.bcm.edu	37	11	123886796	123886796	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	184	6	183	4	0.0326087	0.0218579	.	.	none	OR10G4,NS,carcinoma,+1,1	OR10G4	77	1	NM_001004462	exon1	c.A515G	p.Q172R	CCAACCAGATCCA	.	scavenged	Atlas-SNP
ZNF841	284371	hgsc.bcm.edu	37	19	52570006	52570006	+	Silent	SNP	G	G	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	58	2	79	1	0.0344828	0.0126582	.	.	none	ZNF841_ENST00000389534,NS,carcinoma,+1,3	ZNF841	183	3	NM_001136499	exon7	c.C1129A	p.R377R	CACATCGATTACA	.	scavenged	Atlas-SNP
RBM5	10181	hgsc.bcm.edu	37	3	50154752	50154752	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	88	8	101	0	0.0909091	0	.	.	none	.	RBM5	76	.	NM_005778	exon24	c.G2262A	p.M754I	GGCCATGGGCTGG	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092971	1092971	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	43	6	34	2	0.139535	0.0588235	.	.	none	MUC2_ENST00000441003,NS,carcinoma,0,1	MUC2	614	1	NM_002457	exon30	c.C4790T	p.T1597I	CCCCAACACCCAC	.	scavenged	Atlas-SNP
RIMS2	9699	hgsc.bcm.edu	37	8	105263836	105263836	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	100	12	105	0	0.12	0	.	.	none	RIMS2_ENST00000507740,NS,carcinoma,-2,4	RIMS2	1357	4	NM_001100117	exon24	c.G3838A	p.V1280I	ATCATCGTCTGGG	.	PASS	Atlas-SNP
KIAA1549	57670	hgsc.bcm.edu	37	7	138603173	138603173	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	91	9	82	0	0.0989011	0	.	.	none	.	KIAA1549	314	.	NM_020910	exon2	c.C1199T	p.P400L	GGACCGGGGAGGG	.	PASS	Atlas-SNP
DTX1	1840	hgsc.bcm.edu	37	12	113496044	113496044	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	111	9	153	0	0.0810811	0	.	.	none	DTX1,NS,lymphoid_neoplasm,0,1	DTX1	83	1	NM_004416	exon1	c.G47A	p.G16D	GTCTGGGCTTCCC	.	PASS	Atlas-SNP
TNFRSF14	8764	hgsc.bcm.edu	37	1	2494626	2494626	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	65	13	60	0	0.2	0	.	.	none	.	TNFRSF14	89	.	NM_003820	exon8	c.G766C	p.E256Q	GTCATTGAGGCCC	.	PASS	Atlas-SNP
TAS2R16	50833	hgsc.bcm.edu	37	7	122634960	122634960	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	102	8	123	0	0.0784314	0	.	.	none	.	TAS2R16	57	.	NM_016945	exon1	c.A729G	p.I243M	GATGAGTATGGTT	.	PASS	Atlas-SNP
CPEB1	64506	hgsc.bcm.edu	37	15	83218322	83218322	+	Silent	SNP	G	G	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	85	2	110	0	0.0235294	0	.	.	none	CPEB1,colon,carcinoma,0,1	CPEB1	114	1	NM_030594	exon9	c.C1287A	p.V429V	AGCACCGACAAAC	.	scavenged	Atlas-SNP
TMPRSS13	84000	hgsc.bcm.edu	37	11	117789317	117789317	+	Silent	SNP	T	T	C	rs201369736		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	56	4	57	1	0.0714286	0.0175439	.	.	weak	TMPRSS13,caecum,carcinoma,0,1	TMPRSS13	75	1	NM_001206790	exon2	c.A258G	p.P86P	CCGGGCTGGAGAT	.	scavenged	Atlas-SNP
BTG2	7832	hgsc.bcm.edu	37	1	203276375	203276375	+	Silent	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	57	11	52	0	0.192982	0	.	.	none	.	BTG2	16	.	NM_006763	exon2	c.C286T	p.L96L	CAGCTGCTGCCCA	.	PASS	Atlas-SNP
MAML3	55534	hgsc.bcm.edu	37	4	140811123	140811123	+	Silent	SNP	T	T	C	rs62344939		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	44	5	34	0	0.113636	0	.	.	weak	MAML3_ENST00000509479,colon,carcinoma,0,2	MAML3	192	2	NM_018717	exon2	c.A1467G	p.Q489Q	CTGCTGTTGCTGT	.	scavenged	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1016849	1016849	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	405	18	557	24	0.0444444	0.043088	.	.	none	MUC6_ENST00000421673,NS,carcinoma,0,2	MUC6	408	2	NM_005961	exon31	c.G5952C	p.M1984I	TGCAGTCATAGGA	.	scavenged	Atlas-SNP
CLCN6	1185	hgsc.bcm.edu	37	1	11879572	11879572	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	98	7	96	1	0.0714286	0.0104167	.	.	none	CLCN6,NS,carcinoma,-1,1	CLCN6	77	1	NM_001286	exon5	c.C307T	p.R103X	TTTGTGCGACTCT	.	scavenged	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151962134	151962134	+	Nonsense_Mutation	SNP	G	G	T	rs146238849		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	140	5	138	1	0.0357143	0.00724638	.	.	weak	MLL3_ENST00000355193,NS,malignant_melanoma,0,2	MLL3	1564	2	NM_170606	exon8	c.C1173A	p.C391X	GTTCTGGCACACT	.	scavenged	Atlas-SNP
BAZ1A	11177	hgsc.bcm.edu	37	14	35231204	35231204	+	Silent	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	140	12	106	0	0.0857143	0	.	.	none	.	BAZ1A	128	.	NM_013448	exon24	c.T4002C	p.R1334R	AGTAGAACGACTG	.	PASS	Atlas-SNP
CXCL3	2921	hgsc.bcm.edu	37	4	74904067	74904067	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	155	14	187	0	0.0903226	0	.	.	none	.	CXCL3	9	.	NM_002090	exon2	c.A164G	p.K55R	ATGTTCTTGAGGT	.	PASS	Atlas-SNP
ARAP1	116985	hgsc.bcm.edu	37	11	72397100	72397100	+	Missense_Mutation	SNP	G	G	T	rs371806185	alternate_allele	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	127	3	183	1	0.023622	0.00546448	.	.	alt	ARAP1_ENST00000393609,colon,carcinoma,0,4	ARAP1	168	4	NM_001040118	exon34	c.C4322A	p.A1441E	GGGTCCGCGGTGA	.	scavenged	Atlas-SNP
PIK3C2G	5288	hgsc.bcm.edu	37	12	18691191	18691191	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	110	15	109	1	0.136364	0.00917431	.	.	none	PIK3C2G_ENST00000433979,colon,carcinoma,0,2	PIK3C2G	315	2	NM_004570	exon24	c.G3302A	p.R1101H	GCTGTCGTGCTTA	.	scavenged	Atlas-SNP
GP9	2815	hgsc.bcm.edu	37	3	128780664	128780664	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	75	19	75	1	0.253333	0.0133333	.	.	none	GP9,colon,carcinoma,-1,1	GP9	10	1	NM_000174	exon3	c.G82A	p.A28T	TGCCGCGCCCTGG	.	scavenged	Atlas-SNP
COL4A5	1287	hgsc.bcm.edu	37	X	107923951	107923951	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	102	22	109	0	0.215686	0	.	.	none	.	COL4A5	262	.	NM_000495	exon43	c.C3967A	p.P1323T	GGAGATCCTGGTC	.	PASS	Atlas-SNP
SPEN	23013	hgsc.bcm.edu	37	1	16235856	16235856	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	96	23	117	0	0.239583	0	.	.	none	SPEN,NS,carcinoma,0,2	SPEN	374	2	NM_015001	exon4	c.C922T	p.R308X	CCAGCTCGATCAG	.	PASS	Atlas-SNP
DSEL	92126	hgsc.bcm.edu	37	18	65180409	65180409	+	Silent	SNP	G	G	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	113	11	121	0	0.0973451	0	.	.	none	.	DSEL	196	.	NM_032160	exon2	c.C1467A	p.P489P	TCCATTGGGGGCA	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32557461	32557461	+	Missense_Mutation	SNP	A	A	G	rs35053532	bycluster;byfrequency	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	99	4	103	0	0.040404	0	A|0.986;G|0.013	0.013	strong	HLA-DRB1,NS,carcinoma,0,1	HLA-DRB1	41	1	NM_002124	exon1	c.T59C	p.M20T	AGCACCATCAGTG	.	scavenged	Atlas-SNP
SPATA31C1	441452	hgsc.bcm.edu	37	9	90534206	90534206	+	Missense_Mutation	SNP	T	T	C	rs2481989	bycluster	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	195	17	225	0	0.0871795	0	.	.	weak	.	.	.	.	NM_001145124	exon2	c.T226C	p.C76R	TCCCAGTGTCCAA	.	PASS	Atlas-SNP
POTEG	404785	hgsc.bcm.edu	37	14	19553571	19553571	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	541	13	681	3	0.0240296	0.00440529	.	.	none	POTEG,NS,carcinoma,0,1	POTEG	118	1	NM_001005356	exon1	c.C155A	p.S52Y	ACGATTCTGCTAT	.	scavenged	Atlas-SNP
FRG2B	441581	hgsc.bcm.edu	37	10	135438933	135438933	+	Silent	SNP	C	C	T	rs200793608		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	223	5	289	1	0.0224215	0.00346021	C|0.996;T|0.004	0.004	weak	FRG2B,colon,carcinoma,-1,1	FRG2B	47	1	NM_001080998	exon4	c.G507A	p.P169P	AATTGACGGTGTT	.	scavenged	Atlas-SNP
ZDHHC17	23390	hgsc.bcm.edu	37	12	77242136	77242136	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	90	4	104	0	0.0444444	0	.	.	none	.	ZDHHC17	45	.	NM_015336	exon15	c.G1631T	p.W544L	TCATGTGGGTGGC	.	PASS	Atlas-SNP
UPF3A	65110	hgsc.bcm.edu	37	13	115047496	115047496	+	Missense_Mutation	SNP	G	G	C	rs76186578	bycluster	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	23	7	34	2	0.304348	0.0588235	.	.	weak	UPF3A,extremity,malignant_melanoma,0,3	UPF3A	47	3	NM_080687	exon2	c.G208C	p.V70L	CCGCAGGTGGTCA	.	scavenged	Atlas-SNP
FOXD4L1	200350	hgsc.bcm.edu	37	2	114257354	114257354	+	Missense_Mutation	SNP	A	A	G	rs202243377		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	92	6	92	2	0.0652174	0.0217391	A|0.999;G|0.001	0.001	weak	FOXD4L1,NS,carcinoma,0,1	FOXD4L1	48	1	NM_012184	exon1	c.A521G	p.H174R	CGGGCCACCCAGG	.	scavenged	Atlas-SNP
TUBB8	347688	hgsc.bcm.edu	37	10	95167	95167	+	Silent	SNP	G	G	A	rs202227666	byfrequency	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	108	4	99	4	0.037037	0.040404	G|0.980;A|0.019	0.019	strong	TUBB8,colon,carcinoma,-2,2	TUBB8	62	2	NM_177987	exon1	c.C12T	p.I4I	GAGCACGATCTCC	.	scavenged	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248525639	248525639	+	Missense_Mutation	SNP	A	A	C	rs76878172	alternate_allele	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	311	12	321	4	0.0385852	0.0124611	.	.	alt	OR2T4,brain,glioma,0,1	OR2T4	126	1	NM_001004696	exon1	c.A757C	p.I253L	TTACTCATCCTCC	.	scavenged	Atlas-SNP
HOMEZ	57594	hgsc.bcm.edu	37	14	23744829	23744829	+	Silent	SNP	C	C	T	rs79723196	bycluster	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	31	4	22	0	0.129032	0	.	.	weak	.	HOMEZ	80	.	NM_020834	exon2	c.G1608A	p.E536E	ATCTTCCTCCTCC	.	PASS	Atlas-SNP
EBF1	1879	hgsc.bcm.edu	37	5	158267047	158267047	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	127	21	123	0	0.165354	0	.	.	none	EBF1,colon,carcinoma,-1,1	EBF1	110	1	NM_024007	exon7	c.G626T	p.R209L	AATCTCCGCATGT	.	PASS	Atlas-SNP
CCDC170	80129	hgsc.bcm.edu	37	6	151914338	151914338	+	Nonsense_Mutation	SNP	C	C	T	rs201819308	bycluster;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	62	8	87	0	0.129032	0	C|1.000;T|0.000	0.000	strong	.	.	.	.	NM_025059	exon8	c.C1390T	p.R464X	TTAGCTCGAACAG	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911239	29911239	+	Silent	SNP	T	T	C	rs9260155	bycluster;byfrequency;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	81	14	109	11	0.17284	0.100917	C|0.290;T|0.710	0.290	strong	HLA-A,mouth,carcinoma,-1,1	HLA-A	89	1	NM_001242758	exon3	c.T538C	p.L180L	GAGCAGTTGAGAG	.	scavenged	Atlas-SNP
BAZ2A	11176	hgsc.bcm.edu	37	12	56992706	56992706	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	35	5	39	0	0.142857	0	.	.	none	.	BAZ2A	263	.	NM_013449	exon28	c.T5498G	p.I1833S	TTGATGATGCGCC	.	PASS	Atlas-SNP
IQCJ	654502	hgsc.bcm.edu	37	3	158980510	158980510	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	109	9	134	0	0.0825688	0	.	.	none	.	IQCJ	28	.	NM_001042706	exon4	c.C329A	p.T110K	ACTTGACATTCAA	.	PASS	Atlas-SNP
SLC25A31	83447	hgsc.bcm.edu	37	4	128651717	128651717	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	132	5	119	0	0.0378788	0	.	.	none	SLC25A31,NS,neuroblastoma,0,2	SLC25A31	42	2	NM_031291	exon1	c.C17T	p.A6V	AGCCTGCGAAAAA	.	scavenged	Atlas-SNP
DND1	373863	hgsc.bcm.edu	37	5	140050894	140050894	+	Missense_Mutation	SNP	G	G	C	rs201638404	byfrequency	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	228	10	323	7	0.0438596	0.0216718	G|0.979;C|0.021	0.021	strong	DND1,NS,carcinoma,-1,1	DND1	15	1	NM_194249	exon4	c.C1046G	p.T349S	ACCATGGTACCTG	.	scavenged	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17085452	17085452	+	Silent	SNP	A	A	G	rs3981980		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	189	4	240	5	0.021164	0.0208333	A|1.000;|0.000	.	weak	Q13209_HUMAN,NS,carcinoma,0,1	.	.	1	NM_001271733	exon10	c.T1239C	p.F413F	GGGAGCAAAATCG	.	scavenged	Atlas-SNP
FAM153B	202134	hgsc.bcm.edu	37	5	175528119	175528119	+	Missense_Mutation	SNP	T	T	C	rs2006825		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	369	7	431	3	0.0189702	0.00696056	T|0.500;C|0.500	0.500	weak	FAM153B,NS,carcinoma,0,4	FAM153B	28	4	NM_001265615	exon10	c.T401C	p.M134T	TTCACATGGTAAA	.	scavenged	Atlas-SNP
OR1L4	254973	hgsc.bcm.edu	37	9	125486717	125486717	+	Missense_Mutation	SNP	G	G	A	rs76170289	bycluster	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	76	11	94	4	0.144737	0.0425532	.	.	weak	OR1L4,right_upper_lobe,carcinoma,-1,1	OR1L4	38	1	NM_001005235	exon1	c.G449A	p.C150Y	GTTCTTGCAGCAT	.	scavenged	Atlas-SNP
ANKRD30B	374860	hgsc.bcm.edu	37	18	14848821	14848821	+	Silent	SNP	G	G	A	rs71323607		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	461	5	440	3	0.010846	0.00681818	G|0.500;A|0.500	0.500	weak	ANKRD30B_ENST00000358984,NS,carcinoma,+1,1	ANKRD30B	237	1	NM_001145029	exon34	c.G2931A	p.T977T	ACAAACGAAAAAT	.	scavenged	Atlas-SNP
UPK3BL	100134938	hgsc.bcm.edu	37	7	102279601	102279601	+	Silent	SNP	G	G	T	rs79054498		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	569	10	720	11	0.0175747	0.0152778	G|0.500;T|0.500	0.500	weak	UPK3BL,NS,carcinoma,0,2	UPK3BL	6	2	NM_001114403	exon4	c.C531A	p.T177T	CCACTTGGTTTCA	.	scavenged	Atlas-SNP
PRMT2	3275	hgsc.bcm.edu	37	21	48069615	48069615	+	Silent	SNP	C	C	T	rs111614078	bycluster;byfrequency	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	164	22	128	0	0.134146	0	C|1.000;T|0.000	0.000	strong	.	PRMT2	48	.	NM_001242864	exon6	c.C618T	p.D206D	GGTGGACGTGCTG	.	PASS	Atlas-SNP
NRXN1	9378	hgsc.bcm.edu	37	2	51254998	51254998	+	Silent	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	53	8	50	0	0.150943	0	.	.	none	.	NRXN1	1118	.	NM_004801	exon2	c.G414A	p.V138V	GACCTCCACCCAC	.	PASS	Atlas-SNP
EPHB6	2051	hgsc.bcm.edu	37	7	142564346	142564346	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	57	6	55	0	0.105263	0	.	.	none	EPHB6,NS,carcinoma,0,1	EPHB6	168	1	NM_004445	exon10	c.C1570T	p.R524C	CAGCTCCGCTACT	.	scavenged	Atlas-SNP
SLC37A3	84255	hgsc.bcm.edu	37	7	140055490	140055490	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	48	6	50	0	0.125	0	.	.	none	.	SLC37A3	80	.	NM_207113	exon7	c.C596A	p.S199Y	AGAACAGAAGAAG	.	PASS	Atlas-SNP
CHEK2	11200	hgsc.bcm.edu	37	22	29091841	29091841	+	Silent	SNP	G	G	A	rs79357544		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	219	5	224	2	0.0228311	0.00892857	.	.	weak	CHEK2,bladder,carcinoma,0,38	CHEK2	438	38	NM_001005735	exon12	c.C1245T	p.S415S	AATCTTGGAGTGC	.	scavenged	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	37	2	231861056	231861056	+	Silent	SNP	A	A	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	88	13	107	3	0.147727	0.0280374	.	.	none	SPATA3,rectum,carcinoma,0,1	SPATA3	52	1	NM_139073	exon1	c.A108C	p.T36T	ATCCACACCACAG	.	scavenged	Atlas-SNP
ANGPT4	51378	hgsc.bcm.edu	37	20	865839	865839	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	65	9	88	0	0.138462	0	.	.	none	.	ANGPT4	77	.	NM_015985	exon4	c.C717T	p.R239R	CAGGCCGCGCTCG	.	PASS	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	37	16	71004449	71004449	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	51	5	51	0	0.0980392	0	.	.	none	LOC652153,NS,carcinoma,0,1	HYDIN	788	1	NM_001270974	exon36	c.G5593T	p.D1865Y	GCTGATCAAATTC	.	scavenged	Atlas-SNP
NUP214	8021	hgsc.bcm.edu	37	9	134073744	134073744	+	Silent	SNP	G	G	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	65	2	87	0	0.0307692	0	.	.	none	NUP214,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,1	NUP214	166	1	NM_005085	exon29	c.G4863T	p.T1621T	CACCACGTCCATT	.	scavenged	Atlas-SNP
COPS4	51138	hgsc.bcm.edu	37	4	83996453	83996453	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	65	2	65	0	0.0307692	0	.	.	none	COPS4,bladder,carcinoma,+1,2	COPS4	31	2	NM_001258006	exon9	c.G1006T	p.E336X	TAGCACGAGAAGC	.	scavenged	Atlas-SNP
MST1	4485	hgsc.bcm.edu	37	3	49725184	49725184	+	Missense_Mutation	SNP	G	G	A	rs191996618	bycluster	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	85	3	110	3	0.0352941	0.0272727	.	.	weak	MST1,trunk,malignant_melanoma,0,1	MST1	84	1	NM_020998	exon2	c.C241T	p.R81W	CTCACCGGCAGTC	.	scavenged	Atlas-SNP
INTS3	65123	hgsc.bcm.edu	37	1	153719499	153719499	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	87	11	87	0	0.126437	0	.	.	none	INTS3,NS,carcinoma,0,1	INTS3	83	1	NM_023015	exon4	c.A385G	p.I129V	AACCAGATACTTA	.	PASS	Atlas-SNP
NOTCH2	4853	hgsc.bcm.edu	37	1	120458147	120458147	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	53	17	64	1	0.320755	0.015625	.	.	none	NOTCH2,NS,lymphoid_neoplasm,0,26	NOTCH2	348	26	NM_024408	exon34	c.C7198T	p.R2400X	GTGTTCGCTCAGC	.	scavenged	Atlas-SNP
TPRX1	284355	hgsc.bcm.edu	37	19	48305555	48305555	+	Missense_Mutation	SNP	G	G	A	rs147380237	bycluster;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	20	4	32	5	0.2	0.15625	G|0.989;A|0.011	0.011	strong	TPRX1,colon,carcinoma,+1,1	TPRX1	46	1	NM_198479	exon2	c.C713T	p.P238L	GGGATCGGGCCTG	.	scavenged	Atlas-SNP
ARAP1	116985	hgsc.bcm.edu	37	11	72408662	72408662	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	87	7	75	0	0.0804598	0	.	.	none	.	ARAP1	168	.	NM_001040118	exon20	c.G2770A	p.V924M	CCAGCACCAGCAC	.	PASS	Atlas-SNP
ZNF324	25799	hgsc.bcm.edu	37	19	58983107	58983107	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	77	9	105	0	0.116883	0	.	.	none	.	ZNF324	46	.	NM_014347	exon4	c.G1248A	p.Q416Q	GCACCAGCGCGTG	.	PASS	Atlas-SNP
CES1	1066	hgsc.bcm.edu	37	16	55862883	55862883	+	Missense_Mutation	SNP	C	C	A	rs3826190	bycluster;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	20	7	38	3	0.35	0.0789474	C|0.632;A|0.368	0.368	strong	CES1_ENST00000360526,NS,carcinoma,0,1	CES1	78	1	NM_001025195	exon2	c.G56T	p.G19V	GGATGCCCTGCTG	.	scavenged	Atlas-SNP
FAM72A	729533	hgsc.bcm.edu	37	1	206145504	206145504	+	Missense_Mutation	SNP	T	T	C	rs55683315	bycluster	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	673	14	702	6	0.0208024	0.00854701	.	.	weak	FAM72A,NS,carcinoma,0,1	FAM72A	9	1	NM_001123168	exon3	c.T281C	p.L94P	GTCTTCTTTCCTG	.	scavenged	Atlas-SNP
THSD7A	221981	hgsc.bcm.edu	37	7	11676123	11676123	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	53	7	40	0	0.132075	0	.	.	none	.	THSD7A	219	.	NM_015204	exon2	c.G656A	p.R219H	ACATGACGCGTCC	.	PASS	Atlas-SNP
TMEM106B	54664	hgsc.bcm.edu	37	7	12269417	12269417	+	Missense_Mutation	SNP	C	C	G	rs3173615	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	494	6	519	3	0.0121457	0.00578035	C|0.481;G|0.519	0.519	strong	TMEM106B,NS,adenoma,0,1	TMEM106B	34	1	NM_001134232	exon5	c.C554G	p.T185S	ACATAACCATTAT	.	scavenged	Atlas-SNP
KCTD3	51133	hgsc.bcm.edu	37	1	215759865	215759865	+	Silent	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	98	8	123	0	0.0816327	0	.	.	none	.	KCTD3	101	.	NM_016121	exon9	c.A654G	p.Q218Q	GCAGCAAGTGTTT	.	PASS	Atlas-SNP
LRIG2	9860	hgsc.bcm.edu	37	1	113655236	113655236	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	70	3	115	1	0.0428571	0.00869565	.	.	none	LRIG2,NS,lymphoid_neoplasm,0,1	LRIG2	67	1	NM_014813	exon14	c.C1934T	p.A645V	TTCCTGCGGCTCG	.	scavenged	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	37	2	231861057	231861057	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	89	12	108	2	0.134831	0.0185185	.	.	none	SPATA3,NS,carcinoma,-2,4	SPATA3	52	4	NM_139073	exon1	c.C109T	p.P37S	TCCACACCACAGC	.	scavenged	Atlas-SNP
AHCYL2	23382	hgsc.bcm.edu	37	7	129064932	129064932	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	66	14	48	0	0.212121	0	.	.	none	.	AHCYL2	79	.	NM_015328	exon15	c.C1658T	p.A553V	ACAATGCTCCTGA	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49427102	49427102	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	41	7	43	0	0.170732	0	.	.	none	.	MLL2	1173	.	NM_003482	exon39	c.C11386T	p.Q3796X	GCCCCTGGGGTGG	.	PASS	Atlas-SNP
IFT80	57560	hgsc.bcm.edu	37	3	159998476	159998476	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	119	12	127	0	0.10084	0	.	.	none	IFT80,colon,carcinoma,0,1	IFT80	68	1	NM_020800	exon15	c.C1643T	p.T548I	TATAATGTTTTAG	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151962168	151962168	+	Missense_Mutation	SNP	C	C	A	rs78352960		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	194	10	208	2	0.0515464	0.00961538	C|0.500;A|0.500	0.500	weak	MLL3_ENST00000355193,extremity,malignant_melanoma,0,6	MLL3	1564	6	NM_170606	exon8	c.G1139T	p.R380L	CCTGCACGTTTTA	.	scavenged	Atlas-SNP
TMPRSS13	84000	hgsc.bcm.edu	37	11	117789345	117789345	+	Missense_Mutation	SNP	G	G	C	rs61900347	bycluster;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	52	7	76	0	0.134615	0	G|0.899;C|0.101	0.101	strong	TMPRSS13_ENST00000445164,NS,carcinoma,0,2	TMPRSS13	75	2	NM_001206790	exon2	c.C230G	p.A77G	GCCTGGGCTGGAG	.	PASS	Atlas-SNP
NUP210	23225	hgsc.bcm.edu	37	3	13427859	13427859	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	64	10	87	0	0.15625	0	.	.	none	.	NUP210	182	.	NM_024923	exon6	c.C733T	p.L245L	GGTTCAGAAGGAT	.	PASS	Atlas-SNP
COPRS	55352	hgsc.bcm.edu	37	17	30179882	30179882	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	84	16	94	2	0.190476	0.0212766	.	.	none	C17orf79,colon,carcinoma,+1,1	.	.	1	NM_018405	exon3	c.T334G	p.F112V	CATTAAAAAGATC	.	scavenged	Atlas-SNP
KRTAP4-11	653240	hgsc.bcm.edu	37	17	39274291	39274291	+	Missense_Mutation	SNP	T	T	C	rs200214744	bycluster	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	36	11	35	3	0.305556	0.0857143	.	.	weak	KRTAP4-11,NS,carcinoma,0,12	KRTAP4-11	94	12	NM_033059	exon1	c.A277G	p.M93V	AGCACATAGACTG	.	scavenged	Atlas-SNP
DUSP2	1844	hgsc.bcm.edu	37	2	96810531	96810531	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	51	6	84	0	0.117647	0	.	.	none	.	DUSP2	20	.	NM_004418	exon2	c.G479A	p.R160H	TCGGAGCGGCTGG	.	PASS	Atlas-SNP
AURKB	9212	hgsc.bcm.edu	37	17	8108196	8108196	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	42	6	40	0	0.142857	0	.	.	none	.	AURKB	47	.	NM_004217	exon9	c.T1028C	p.V343A	CAGGCGACAGATT	.	PASS	Atlas-SNP
PISD	23761	hgsc.bcm.edu	37	22	32015667	32015667	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	90	13	91	0	0.144444	0	.	.	none	.	PISD	53	.	NM_014338	exon9	c.C1059T	p.P353P	GTCCTTGGGGGCC	.	PASS	Atlas-SNP
FRG2B	441581	hgsc.bcm.edu	37	10	135439077	135439077	+	Silent	SNP	T	T	C	rs34204891	bycluster;alternate_allele	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	138	7	167	5	0.0507246	0.0299401	C|0.500;A|0.500	0.500	alt	FRG2B,NS,carcinoma,0,1	FRG2B	47	1	NM_001080998	exon4	c.A363G	p.S121S	ATTCAATGACAAG	.	scavenged	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093094	1093094	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	31	8	32	5	0.258065	0.15625	.	.	none	MUC2_ENST00000441003,NS,carcinoma,0,8	MUC2	614	8	NM_002457	exon30	c.T4913G	p.V1638G	CTACGGTGACCCC	.	scavenged	Atlas-SNP
MTMR11	10903	hgsc.bcm.edu	37	1	149906097	149906097	+	Missense_Mutation	SNP	C	C	T	rs143590446	bycluster;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	52	11	48	0	0.211538	0	C|1.000;T|0.000	0.000	strong	.	MTMR11	136	.	NM_001145862	exon7	c.G670A	p.D224N	CTACGTCGAACCT	.	PASS	Atlas-SNP
CBLB	868	hgsc.bcm.edu	37	3	105495385	105495385	+	Nonsense_Mutation	SNP	G	G	A	rs369966206		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	64	12	90	0	0.1875	0	.	.	weak	CBLB,NS,carcinoma,+1,3	CBLB	118	3	NM_170662	exon4	c.C421T	p.R141X	GATTTCGTCTGTA	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1388726	1388726	+	Missense_Mutation	SNP	T	T	C	rs199689156	byfrequency	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	18	7	34	4	0.388889	0.117647	T|0.980;C|0.020	0.020	strong	CRIPAK,colon,carcinoma,0,4	CRIPAK	185	4	NM_175918	exon1	c.T427C	p.C143R	TGCCCATGCGGAG	.	scavenged	Atlas-SNP
TMPRSS13	84000	hgsc.bcm.edu	37	11	117789327	117789327	+	Missense_Mutation	SNP	T	T	C	rs61900346	bycluster;byfrequency;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	63	8	55	1	0.126984	0.0181818	T|0.814;C|0.186	0.186	strong	TMPRSS13_ENST00000445164,NS,carcinoma,0,4	TMPRSS13	75	4	NM_001206790	exon2	c.A248G	p.Q83R	GATGCCTGGGCTG	.	scavenged	Atlas-SNP
TUBB8	347688	hgsc.bcm.edu	37	10	95169	95169	+	Missense_Mutation	SNP	T	T	G	rs199817418	byfrequency	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	108	4	100	4	0.037037	0.04	T|0.980;G|0.020	0.020	strong	TUBB8,colon,carcinoma,0,2	TUBB8	62	2	NM_177987	exon1	c.A10C	p.I4L	GCACGATCTCCCT	.	scavenged	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	37	2	231861059	231861059	+	Silent	SNP	A	A	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	89	13	103	4	0.146067	0.038835	.	.	none	SPATA3,NS,carcinoma,0,4	SPATA3	52	4	NM_139073	exon1	c.A111T	p.P37P	CACACCACAGCAG	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152278749	152278749	+	Silent	SNP	T	T	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	110	11	110	0	0.1	0	.	.	none	.	FLG	900	.	NM_002016	exon3	c.A8613C	p.S2871S	TGCCTGTGAGTGT	.	PASS	Atlas-SNP
KRTAP4-6	81871	hgsc.bcm.edu	37	17	39296423	39296423	+	Missense_Mutation	SNP	C	C	T	rs349790	bycluster;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	54	4	43	2	0.0740741	0.0465116	C|0.988;T|0.012	0.012	strong	KRTAP4-6,NS,carcinoma,0,2	KRTAP4-6	46	2	NM_030976	exon1	c.G317A	p.R106H	CTGGGACGGCAGC	.	scavenged	Atlas-SNP
GOLGA6L6	727832	hgsc.bcm.edu	37	15	20740191	20740191	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	81	5	94	0	0.0617284	0	.	.	none	GOLGA6L6,NS,carcinoma,-1,2	GOLGA6L6	37	2	NM_001145004	exon8	c.G1559T	p.R520L	TGCTCCCGTATCT	.	scavenged	Atlas-SNP
CLCN3	1182	hgsc.bcm.edu	37	4	170616831	170616831	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	55	8	72	0	0.145455	0	.	.	none	.	CLCN3	85	.	NM_001829	exon8	c.T1005G	p.F335L	TCTTTTTAGCCTG	.	PASS	Atlas-SNP
KDM2B	84678	hgsc.bcm.edu	37	12	121882313	121882313	+	Silent	SNP	G	G	A	rs34911648	bycluster;byfrequency;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	52	11	58	0	0.211538	0	G|0.990;A|0.010	0.010	strong	.	KDM2B	218	.	NM_032590	exon15	c.C2130T	p.N710N	CTCGTCGTTGACC	.	PASS	Atlas-SNP
NF1	4763	hgsc.bcm.edu	37	17	29528446	29528446	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	312	30	276	0	0.0961538	0	.	.	none	.	NF1	1586	.	NM_001128147	exon11	c.T1203A	p.N401K	TCAGAATTCACCT	.	PASS	Atlas-SNP
SIRT4	23409	hgsc.bcm.edu	37	12	120750455	120750455	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	70	9	94	0	0.128571	0	.	.	none	SIRT4,colon,carcinoma,0,1	SIRT4	29	1	NM_012240	exon3	c.G694A	p.V232I	GATGTCGTTTTCT	.	PASS	Atlas-SNP
TMEM130	222865	hgsc.bcm.edu	37	7	98449156	98449156	+	Silent	SNP	C	C	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	46	5	66	2	0.108696	0.030303	.	.	none	TMEM130,NS,carcinoma,0,1	TMEM130	54	1	NM_152913	exon6	c.G894C	p.A298A	GTTGTACGCTGTG	.	scavenged	Atlas-SNP
ZNF568	374900	hgsc.bcm.edu	37	19	37488197	37488197	+	Missense_Mutation	SNP	G	G	A	rs1345748	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	7	5	2	0	0.714286	0	G|0.530;A|0.469	0.469	strong	.	ZNF568	106	.	NM_001204838	exon10	c.G1604A	p.C535Y	AACCCTGTAAGTG	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	7049165	7049165	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	113	14	123	0	0.123894	0	.	.	none	.	LAMA1	458	.	NM_005559	exon5	c.G680A	p.R227H	TGCAAGCGAAGGC	.	PASS	Atlas-SNP
LILRA2	11027	hgsc.bcm.edu	37	19	55086872	55086872	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	169	4	215	4	0.0236686	0.0186047	.	.	none	LILRA2,NS,carcinoma,-1,1	LILRA2	99	1	NM_001130917	exon5	c.T805C	p.W269R	CCTGGTTGGCAGC	.	scavenged	Atlas-SNP
TPTE2	93492	hgsc.bcm.edu	37	13	20056679	20056679	+	Missense_Mutation	SNP	T	T	G	rs200244531		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	517	8	560	8	0.0154739	0.0142857	.	.	weak	TPTE2_ENST00000400230,NS,carcinoma,0,1	TPTE2	225	1	NM_199254	exon5	c.A128C	p.E43A	AGTCGTTCTAACA	.	scavenged	Atlas-SNP
LPHN1	22859	hgsc.bcm.edu	37	19	14266282	14266282	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	88	17	101	0	0.193182	0	.	.	none	.	LPHN1	107	.	NM_001008701	exon19	c.C3198T	p.F1066F	GAGGCCGAAAGCC	.	PASS	Atlas-SNP
SBF1	6305	hgsc.bcm.edu	37	22	50887015	50887015	+	Missense_Mutation	SNP	C	C	T	rs367954544		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	33	4	18	0	0.121212	0	.	.	weak	.	SBF1	211	.	NM_002972	exon37	c.G5108A	p.R1703Q	TTCACCCGGTCCC	.	PASS	Atlas-SNP
ZNF589	51385	hgsc.bcm.edu	37	3	48309736	48309736	+	Silent	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	82	2	88	0	0.0243902	0	.	.	none	ZNF589,NS,carcinoma,+2,1	ZNF589	20	1	NM_016089	exon4	c.A555G	p.L185L	AATATTAGAGATA	.	scavenged	Atlas-SNP
FOLH1	2346	hgsc.bcm.edu	37	11	49186274	49186274	+	Missense_Mutation	SNP	G	G	A	rs61886492	bycluster;byfrequency;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	580	18	622	15	0.0310345	0.0241158	G|0.962;A|0.038	0.038	strong	FOLH1,parietal_lobe,glioma,0,1	FOLH1	141	1	NM_004476	exon13	c.C1423T	p.H475Y	GGTTGTGTACCAA	.	scavenged	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166119	41166119	+	Missense_Mutation	SNP	T	T	C	rs76984414	bycluster	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	53	3	63	1	0.0566038	0.015873	.	.	weak	TREML2,colon,carcinoma,0,2	TREML2	41	2	NM_024807	exon2	c.A104G	p.E35G	AGAGTCTCCCCTT	.	scavenged	Atlas-SNP
