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
UHRF1BP1	54887	hgsc.bcm.edu	37	6	34803143	34803144	+	Frame_Shift_Ins	INS	-	-	CACA	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	120	18	114	0	0.15	0	.	.	none	.	UHRF1BP1	102	.	NM_017754	exon7	c.742_743insCACA	p.S248fs	.	.	PASS	Atlas-Indel
ERAP1	51752	hgsc.bcm.edu	37	5	96116871	96116871	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	128	31	87	.	0.242	.	.	.	none	.	ERAP1	59	.	NM_001198541	exon17	c.2480delT	p.I827fs	.	.	PASS	Pindel,Atlas-Indel
FAM157A	728262	hgsc.bcm.edu	37	3	197880131	197880139	+	In_Frame_Del	DEL	GCAGCAGCA	GCAGCAGCA	-	rs3061423	alternate_allele	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	GCAGCAGCA	GCAGCAGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	329	38	293	0	0.115502	0	.	.	alt	.	FAM157A	4	.	NM_001145248	exon2	c.209_217del	p.70_73del	.	.	PASS	Atlas-Indel
TNFAIP3	7128	hgsc.bcm.edu	37	6	138198372	138198376	+	Frame_Shift_Del	DEL	CTCAT	CTCAT	-	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	CTCAT	CTCAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	70	33	91	.	0.471	.	.	.	none	.	TNFAIP3	340	.	NM_001270508	exon6	c.964_968del	p.322_323del	.	.	PASS	Pindel,Atlas-Indel
NXPE2	120406	hgsc.bcm.edu	37	11	114576570	114576571	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	256	60	222	.	0.234	.	.	.	none	.	.	.	.	NM_182495	exon5	c.996_997insA	p.L332fs	.	.	PASS	Pindel,Atlas-Indel
IL33	90865	hgsc.bcm.edu	37	9	6254556	6254556	+	Splice_Site	DEL	A	A	-	rs113609242		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	39	11	30	0	0.282051	0	A|1.000;|0.000	.	weak	.	IL33	27	.	NM_033439	exon7	c.612+2A>-	.	.	.	PASS	Atlas-Indel
ATXN2L	11273	hgsc.bcm.edu	37	16	28845868	28845884	+	Frame_Shift_Del	DEL	TCAGCCCCGCCGATGAT	TCAGCCCCGCCGATGAT	-	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	TCAGCCCCGCCGATGAT	TCAGCCCCGCCGATGAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	24	11	34	0	0.458333	0	.	.	none	.	ATXN2L	159	.	NM_148416	exon18	c.2286_2302del	p.762_768del	.	.	PASS	Atlas-Indel
ABCC6	368	hgsc.bcm.edu	37	16	16244433	16244438	+	In_Frame_Del	DEL	ACCGGG	ACCGGG	-	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	ACCGGG	ACCGGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	155	12	192	0	0.0774194	0	.	.	none	.	ABCC6	110	.	NM_001171	exon30	c.4401_4403del	p.1467_1468del	.	.	PASS	Atlas-Indel
MANSC4	100287284	hgsc.bcm.edu	37	12	27919655	27919656	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	152	28	189	0	0.184211	0	.	.	none	.	MANSC4	9	.	NM_001146221	exon2	c.307_308del	p.103_103del	.	.	PASS	Atlas-Indel
MANSC4	100287284	hgsc.bcm.edu	37	12	27919648	27919652	+	Frame_Shift_Del	DEL	CTCTC	CTCTC	-	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	CTCTC	CTCTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	162	28	184	0	0.17284	0	.	.	none	.	MANSC4	9	.	NM_001146221	exon2	c.311_315del	p.104_105del	.	.	PASS	Atlas-Indel
TENM4	26011	hgsc.bcm.edu	37	11	78437206	78437208	+	In_Frame_Del	DEL	TGT	TGT	-	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	255	39	237	.	0.153	.	.	.	none	.	.	.	.	NM_001098816	exon23	c.3467_3469del	p.1156_1157del	.	.	PASS	Pindel,Atlas-Indel
CIITA	4261	hgsc.bcm.edu	37	16	11010310	11010310	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	46	11	76	.	0.239	.	.	.	none	.	CIITA	92	.	NM_000246	exon15	c.3055delA	p.T1019fs	.	.	PASS	Pindel,Atlas-Indel
B2M	567	hgsc.bcm.edu	37	15	45003766	45003781	+	Frame_Shift_Del	DEL	GCTGTGCTCGCGCTAC	GCTGTGCTCGCGCTAC	-	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	GCTGTGCTCGCGCTAC	GCTGTGCTCGCGCTAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	68	25	93	.	0.368	.	.	.	none	B2M,NS,lymphoid_neoplasm,+1,1	B2M	99	1	NM_004048	exon1	c.21_36del	p.7_12del	.	.	PASS	Pindel,Atlas-Indel
SLC35F5	80255	hgsc.bcm.edu	37	2	114500277	114500277	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	76	15	44	.	0.197	.	.	.	none	SLC35F5,colon,carcinoma,+1,1	SLC35F5	60	1	NM_025181	exon7	c.743delG	p.C248fs	.	.	PASS	Pindel
CBWD3	445571	hgsc.bcm.edu	37	9	70900911	70900912	+	Frame_Shift_Ins	INS	-	-	A	rs200498038	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	128	35	104	.	0.273	.	.	.	weak	.	CBWD3	10	.	NM_201453	exon11	c.771_772insA	p.Q257fs	.	.	PASS	Pindel
PI4KAP2	375133	hgsc.bcm.edu	37	22	21841122	21841126	+	RNA	DEL	TCTTA	TCTTA	-	rs200598591	by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	TCTTA	TCTTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	111	76	109	.	0.685	.	TCTTA|0.738;-|0.262	0.262	strong	.	PI4KAP2	11	.	.	.	.	.	.	.	PASS	Pindel
CBWD6	644019	hgsc.bcm.edu	37	9	69218548	69218549	+	Frame_Shift_Ins	INS	-	-	T	rs56296569		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	156	35	141	.	0.224	.	.	.	weak	.	CBWD6	19	.	NM_001085457	exon11	c.778_779insA	p.L260fs	.	.	PASS	Pindel
AQP12A	375318	hgsc.bcm.edu	37	2	241631786	241631786	+	Frame_Shift_Del	DEL	G	G	-	rs369196482		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	54	13	117	.	0.241	.	.	.	weak	.	AQP12A	32	.	NM_198998	exon2	c.418delA	p.S140fs	.	.	PASS	Pindel
MANSC4	100287284	hgsc.bcm.edu	37	12	27919649	27919656	+	Frame_Shift_Del	DEL	TCTCCAGT	TCTCCAGT	-	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	TCTCCAGT	TCTCCAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	164	35	187	.	0.213	.	.	.	none	.	MANSC4	9	.	NM_001146221	exon2	c.307_314del	p.103_105del	.	.	PASS	Pindel
HOXA11	3207	hgsc.bcm.edu	37	7	27222462	27222462	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	60	17	86	.	0.283	.	.	.	none	.	HOXA11	29	.	NM_005523	exon2	c.896delT	p.I299fs	.	.	PASS	Pindel
C15orf40	123207	hgsc.bcm.edu	37	15	83677271	83677271	+	Frame_Shift_Del	DEL	A	A	-	rs373204607		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	34	12	18	.	0.353	.	.	.	weak	.	C15orf40	18	.	NM_001160113	exon3	c.396delG	p.L132fs	.	.	PASS	Pindel
MFSD6	54842	hgsc.bcm.edu	37	2	191300956	191300956	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	148	3	105	0	0.0202703	0	.	.	none	MFSD6,NS,carcinoma,+2,1	MFSD6	58	1	NM_017694	exon3	c.T201C	p.D67D	CAACGATCTTCTA	.	scavenged	Atlas-SNP
SOX6	55553	hgsc.bcm.edu	37	11	16010543	16010543	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	185	2	138	0	0.0108108	0	.	.	none	SOX6_ENST00000527619,NS,carcinoma,0,2	SOX6	149	2	NM_001145819	exon14	c.G2005A	p.G669R	ACTCACCTAAGAT	.	scavenged	Atlas-SNP
CYP11B1	1584	hgsc.bcm.edu	37	8	143958291	143958291	+	Silent	SNP	C	C	T	rs6419	byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	157	24	144	15	0.152866	0.104167	C|0.025;T|0.975	0.975	strong	CYP11B1,right_lower_lobe,carcinoma,0,1	CYP11B1	128	1	NM_000497	exon4	c.G606A	p.L202L	AAGAGCCAAGTTG	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511051	195511051	+	Missense_Mutation	SNP	C	C	A	rs74867514	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	417	21	411	13	0.0503597	0.0316302	C|0.500;A|0.500	0.500	weak	MUC4_ENST00000463781,NS,carcinoma,+1,5	MUC4	1505	5	NM_018406	exon2	c.G7400T	p.G2467V	TCGGTGCCAGGAA	.	scavenged	Atlas-SNP
SGCE	8910	hgsc.bcm.edu	37	7	94218023	94218023	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	94	4	68	0	0.0425532	0	.	.	none	.	SGCE	68	.	NM_001099401	exon11	c.G1350A	p.Q450Q	GGGAATCTGAGTC	.	PASS	Atlas-SNP
EYS	346007	hgsc.bcm.edu	37	6	65300359	65300359	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	168	46	163	0	0.27381	0	.	.	none	.	EYS	527	.	NM_001142800	exon26	c.G5401C	p.A1801P	AAAGTGCTGGAGT	.	PASS	Atlas-SNP
ZNF821	55565	hgsc.bcm.edu	37	16	71894070	71894070	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	178	2	186	0	0.011236	0	.	.	none	ZNF821,NS,carcinoma,+1,1	ZNF821	25	1	NM_001201553	exon7	c.C1090T	p.R364X	GAGCTCGCAACAT	.	scavenged	Atlas-SNP
TMEM202	338949	hgsc.bcm.edu	37	15	72700069	72700069	+	Silent	SNP	G	G	A	rs35916586	bycluster;byfrequency;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	141	4	143	0	0.0283688	0	G|0.984;A|0.016	0.016	strong	TMEM202,NS,malignant_melanoma,+1,2	TMEM202	40	2	NM_001080462	exon5	c.G657A	p.S219S	CAGATCGCCTGCC	.	scavenged	Atlas-SNP
DLG4	1742	hgsc.bcm.edu	37	17	7096397	7096397	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	174	2	143	0	0.0114943	0	.	.	none	DLG4_ENST00000302955,caecum,carcinoma,0,2	DLG4	110	2	NM_001365	exon19	c.G1862T	p.R621L	TAATCCCGGCCAT	.	scavenged	Atlas-SNP
STX18	53407	hgsc.bcm.edu	37	4	4426931	4426931	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	146	2	186	0	0.0136986	0	.	.	none	STX18,rectum,carcinoma,0,1	STX18	16	1	NM_016930	exon8	c.C721T	p.R241X	TTAGTCGCTGATT	.	scavenged	Atlas-SNP
EXTL1	2134	hgsc.bcm.edu	37	1	26349716	26349716	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	127	2	159	0	0.015748	0	.	.	none	EXTL1,NS,carcinoma,0,1	EXTL1	61	1	NM_004455	exon1	c.C579T	p.G193G	GCCCGGCTTTGAT	.	scavenged	Atlas-SNP
PLXNB3	5365	hgsc.bcm.edu	37	X	153037066	153037066	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	79	17	151	0	0.21519	0	.	.	none	.	PLXNB3	208	.	NM_001163257	exon15	c.C2542T	p.P848S	TGCCCGCCGGGGG	.	PASS	Atlas-SNP
JAK3	3718	hgsc.bcm.edu	37	19	17948006	17948006	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	133	68	114	0	0.511278	0	.	.	none	JAK3,NS,lymphoid_neoplasm,0,5	JAK3	341	5	NM_000215	exon13	c.C1718T	p.A573V	AAGCTCGCTGCTT	.	PASS	Atlas-SNP
CHST5	23563	hgsc.bcm.edu	37	16	75563962	75563962	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	90	2	127	0	0.0222222	0	.	.	none	CHST5,colon,carcinoma,-1,2	CHST5	47	2	NM_024533	exon3	c.G321A	p.A107A	CGTTGCCGCGCTG	.	scavenged	Atlas-SNP
THADA	63892	hgsc.bcm.edu	37	2	43779431	43779431	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	191	2	146	0	0.0104712	0	.	.	none	THADA,NS,carcinoma,0,1	THADA	131	1	NM_001083953	exon18	c.G2722A	p.E908K	AATTTTCAGCCTG	.	scavenged	Atlas-SNP
DYSF	8291	hgsc.bcm.edu	37	2	71748030	71748030	+	Missense_Mutation	SNP	C	C	T	rs115279465	bycluster;byfrequency;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	213	74	207	0	0.347418	0	C|0.995;T|0.005	0.005	strong	DYSF_ENST00000410020,bladder,carcinoma,-1,2	DYSF	536	2	NM_001130982	exon12	c.C1145T	p.A382V	ACGAAGCGCCTGT	.	PASS	Atlas-SNP
OR8B3	390271	hgsc.bcm.edu	37	11	124266927	124266927	+	Silent	SNP	A	A	G	rs142812088		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	386	16	309	16	0.0414508	0.0517799	A|1.000;G|0.000	0.000	weak	OR8B3,NS,carcinoma,0,1	OR8B3	36	1	NM_001005467	exon1	c.T321C	p.F107F	GATGACAAAAAAG	.	scavenged	Atlas-SNP
USP17L2	377630	hgsc.bcm.edu	37	8	11994795	11994795	+	Missense_Mutation	SNP	G	G	A	rs201012791	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	362	96	293	0	0.265193	0	.	.	weak	.	USP17L2	47	.	NM_201402	exon1	c.C1475T	p.T492M	CGGGTCGTCGAAG	.	PASS	Atlas-SNP
RBMXL1	494115	hgsc.bcm.edu	37	1	89448812	89448812	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	342	16	280	3	0.0467836	0.0107143	.	.	none	CCBL2,NS,carcinoma,0,3	.	.	3	NM_001162536	exon3	c.A698C	p.D233A	GCATAATCTCTTG	.	scavenged	Atlas-SNP
ZNF502	91392	hgsc.bcm.edu	37	3	44762425	44762425	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	96	21	87	0	0.21875	0	.	.	none	.	ZNF502	58	.	NM_001134440	exon4	c.G116C	p.G39A	CATCAGGGATAGT	.	PASS	Atlas-SNP
NLRP2	55655	hgsc.bcm.edu	37	19	55494703	55494703	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	155	3	111	0	0.0193548	0	.	.	none	NLRP2_ENST00000543010,colon,carcinoma,0,1	NLRP2	161	1	NM_017852	exon6	c.G1637A	p.R546K	GACTCAGGAACCC	.	scavenged	Atlas-SNP
TBC1D12	23232	hgsc.bcm.edu	37	10	96259982	96259982	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	75	3	99	0	0.04	0	.	.	none	TBC1D12,NS,carcinoma,-1,1	TBC1D12	51	1	NM_015188	exon6	c.A1417G	p.S473G	AGGCGTAGTACAA	.	scavenged	Atlas-SNP
DPYSL5	56896	hgsc.bcm.edu	37	2	27147877	27147877	+	Silent	SNP	C	C	T	rs147434661		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	105	34	71	0	0.32381	0	C|1.000;T|0.000	0.000	weak	.	DPYSL5	69	.	NM_001253724	exon3	c.C384T	p.Y128Y	TGATTACGCCCTC	.	PASS	Atlas-SNP
C4BPA	722	hgsc.bcm.edu	37	1	207300202	207300202	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	288	3	274	0	0.0104167	0	.	.	none	C4BPA,NS,carcinoma,0,1	C4BPA	70	1	NM_000715	exon7	c.A851G	p.D284G	ATGCTGATAGCAA	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9088930	9088930	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	181	2	159	0	0.0110497	0	.	.	none	MUC16,larynx,carcinoma,+1,1	MUC16	4315	1	NM_024690	exon1	c.C2885T	p.P962L	CTTTGGGGTGCAG	.	scavenged	Atlas-SNP
NAP1L3	4675	hgsc.bcm.edu	37	X	92928124	92928124	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	63	10	56	0	0.15873	0	.	.	none	.	NAP1L3	81	.	NM_004538	exon1	c.C180A	p.S60R	GCTGCTGCTGCCG	.	PASS	Atlas-SNP
CNOT2	4848	hgsc.bcm.edu	37	12	70724236	70724236	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	210	3	180	0	0.0142857	0	.	.	none	CNOT2,NS,carcinoma,-2,1	CNOT2	53	1	NM_001199302	exon7	c.T556C	p.F186L	CAGCCTTTTACTG	.	scavenged	Atlas-SNP
RSL1D1	26156	hgsc.bcm.edu	37	16	11944196	11944196	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	101	5	89	0	0.049505	0	.	.	none	.	RSL1D1	40	.	NM_015659	exon2	c.A185G	p.E62G	AAACTTTCATTCT	.	PASS	Atlas-SNP
SLC45A1	50651	hgsc.bcm.edu	37	1	8390740	8390740	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	59	17	125	0	0.288136	0	.	.	none	.	SLC45A1	85	.	NM_001080397	exon4	c.C1187T	p.P396L	GCGTCCCCAGGCC	.	PASS	Atlas-SNP
FAM46B	115572	hgsc.bcm.edu	37	1	27333242	27333242	+	Silent	SNP	G	G	A	rs142664149	bycluster;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	123	3	118	0	0.0243902	0	G|1.000;A|0.000	0.000	strong	FAM46B,NS,carcinoma,0,1	FAM46B	44	1	NM_052943	exon2	c.C471T	p.A157A	CACACCGGCCGGC	.	scavenged	Atlas-SNP
MYO7A	4647	hgsc.bcm.edu	37	11	76871271	76871271	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	57	2	42	0	0.0350877	0	.	.	none	MYO7A,NS,carcinoma,0,1	MYO7A	164	1	NM_001127179	exon11	c.G1143A	p.T381T	GGAGACGGTGTCC	.	scavenged	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72830109	72830109	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	198	4	157	0	0.020202	0	.	.	none	ZFHX3,NS,carcinoma,0,1	ZFHX3	404	1	NM_006885	exon9	c.C6472T	p.R2158X	AGACTCGGAGCTG	.	scavenged	Atlas-SNP
SHROOM1	134549	hgsc.bcm.edu	37	5	132159799	132159799	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	221	39	156	0	0.176471	0	.	.	none	.	SHROOM1	35	.	NM_133456	exon4	c.C1554T	p.P518P	GTGAGAGGGACCT	.	PASS	Atlas-SNP
MFAP3L	9848	hgsc.bcm.edu	37	4	170913142	170913142	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	250	4	242	0	0.016	0	.	.	none	MFAP3L,caecum,carcinoma,0,1	MFAP3L	59	1	NM_021647	exon3	c.A617G	p.K206R	ATGCGCTTGGCGA	.	scavenged	Atlas-SNP
LOXL2	4017	hgsc.bcm.edu	37	8	23167305	23167305	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	162	3	195	0	0.0185185	0	.	.	none	LOXL2,NS,malignant_melanoma,+2,2	LOXL2	97	2	NM_002318	exon10	c.C1756T	p.Q586X	CGGTCTGCGCGGC	.	scavenged	Atlas-SNP
MGAT1	4245	hgsc.bcm.edu	37	5	180218805	180218805	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	119	2	91	0	0.0168067	0	.	.	none	MGAT1,colon,carcinoma,-1,1	MGAT1	48	1	NM_001114617	exon3	c.G1167A	p.T389T	CCTGCCCGTATAC	.	scavenged	Atlas-SNP
ACTB	60	hgsc.bcm.edu	37	7	5568917	5568917	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	108	24	119	0	0.222222	0	.	.	none	.	ACTB	45	.	NM_001101	exon3	c.G238A	p.D80N	TGTCGTCCCAGTT	.	PASS	Atlas-SNP
DIS3L	115752	hgsc.bcm.edu	37	15	66621332	66621332	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	94	4	91	0	0.0425532	0	.	.	none	.	DIS3L	175	.	NM_001143688	exon13	c.T2226C	p.S742S	TGATTCTCTGGAT	.	PASS	Atlas-SNP
RIMS2	9699	hgsc.bcm.edu	37	8	104513283	104513283	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	197	68	198	0	0.345178	0	.	.	none	.	RIMS2	1357	.	NM_001100117	exon1	c.G169C	p.V57L	CAGTCCGTGCTCA	.	PASS	Atlas-SNP
RNMTL1	55178	hgsc.bcm.edu	37	17	685705	685705	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	35	21	40	0	0.6	0	.	.	none	.	RNMTL1	25	.	NM_018146	exon1	c.G87A	p.W29X	GCGCTGGGTCCGG	.	PASS	Atlas-SNP
TMEM229A	730130	hgsc.bcm.edu	37	7	123672815	123672815	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	60	36	64	0	0.6	0	.	.	none	.	TMEM229A	31	.	NM_001136002	exon1	c.G243A	p.P81P	CAGGTCCGGGCTG	.	PASS	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190873335	190873335	+	Missense_Mutation	SNP	C	C	T	rs191989708	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	116	11	112	6	0.0948276	0.0535714	.	.	weak	FRG1,trunk,malignant_melanoma,0,1	FRG1	76	1	NM_004477	exon3	c.C152T	p.T51I	CAGTAACAAACTT	.	scavenged	Atlas-SNP
PPIB	5479	hgsc.bcm.edu	37	15	64455114	64455114	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	162	27	172	0	0.166667	0	.	.	none	.	PPIB	20	.	NM_000942	exon1	c.C72T	p.F24F	CAGCAGGAAGAAG	.	PASS	Atlas-SNP
TYW1	55253	hgsc.bcm.edu	37	7	66548448	66548448	+	Missense_Mutation	SNP	C	C	T	rs72608580		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	146	3	149	1	0.0205479	0.00671141	.	.	weak	TYW1,NS,carcinoma,-2,1	TYW1	71	1	NM_018264	exon11	c.C1306T	p.R436W	GAGTGGCGGTGGA	.	scavenged	Atlas-SNP
ALKBH1	8846	hgsc.bcm.edu	37	14	78174250	78174250	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	93	4	81	0	0.0430108	0	.	.	none	.	ALKBH1	30	.	NM_006020	exon1	c.G98A	p.S33N	GGCCGGCTCTGAC	.	PASS	Atlas-SNP
PCDHB4	56131	hgsc.bcm.edu	37	5	140503155	140503155	+	Silent	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	173	4	315	2	0.0231214	0.00634921	.	.	none	PCDHB4,caecum,carcinoma,+1,1	PCDHB4	177	1	NM_018938	exon1	c.G1575T	p.A525A	GCAGGCGTTCGAG	.	scavenged	Atlas-SNP
SH3BP1	23616	hgsc.bcm.edu	37	22	38035817	38035817	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	61	7	75	0	0.114754	0	.	.	none	.	SH3BP1	41	.	NM_018957	exon1	c.G23A	p.R8H	TGCACCGCATGCG	.	PASS	Atlas-SNP
CCDC175	729665	hgsc.bcm.edu	37	14	60004844	60004844	+	Missense_Mutation	SNP	C	C	T	rs4261431	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	4	4	0	0	1	.	C|0.414;N|0.000	.	strong	.	.	.	.	NM_001164399	exon13	c.G1520A	p.G507E	ACAAATCCACTGA	.	PASS	Atlas-SNP
SALL4	57167	hgsc.bcm.edu	37	20	50407072	50407072	+	Silent	SNP	G	G	A	rs149008635	bycluster;byfrequency;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	147	2	96	0	0.0136054	0	G|0.999;A|0.001	0.001	strong	SALL4,bladder,carcinoma,-1,1	SALL4	168	1	NM_020436	exon2	c.C1950T	p.G650G	CTGACCGCCCATG	.	scavenged	Atlas-SNP
ZNF189	7743	hgsc.bcm.edu	37	9	104170651	104170651	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	132	55	106	0	0.416667	0	.	.	none	.	ZNF189	79	.	NM_003452	exon3	c.G601A	p.E201K	ACTGGGGAAAGGC	.	PASS	Atlas-SNP
HOXC8	3224	hgsc.bcm.edu	37	12	54403503	54403503	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	174	3	189	0	0.0172414	0	.	.	none	HOXC8,NS,carcinoma,0,1	HOXC8	15	1	NM_022658	exon1	c.C435T	p.H145H	ACCCCACGGTGAG	.	scavenged	Atlas-SNP
FAM107B	83641	hgsc.bcm.edu	37	10	14816655	14816655	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	152	44	103	0	0.289474	0	.	.	none	.	FAM107B	43	.	NM_031453	exon1	c.C8T	p.T3M	TTCCACGTGGACA	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103383853	103383853	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	158	2	149	0	0.0126582	0	.	.	none	C13orf40,NS,carcinoma,-2,1	.	.	1	NM_001146197	exon4	c.A19194G	p.K6398K	CTGCGTTTTGGGA	.	scavenged	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151896386	151896386	+	Silent	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	181	3	172	0	0.0165746	0	.	.	none	MLL3_ENST00000355193,NS,carcinoma,-2,2	MLL3	1564	2	NM_170606	exon27	c.T4251C	p.A1417A	TGTTGGAGCCGAG	.	scavenged	Atlas-SNP
RECQL4	9401	hgsc.bcm.edu	37	8	145738768	145738768	+	Splice_Site	SNP	G	G	C	rs199605511	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	34	7	102	0	0.205882	0	.	.	weak	.	RECQL4	75	.	NM_004260	exon15	c.2296+1C>G	.	CCACCCGGCAACT	.	PASS	Atlas-SNP
VPS13D	55187	hgsc.bcm.edu	37	1	12333079	12333079	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	153	3	152	0	0.0196078	0	.	.	none	VPS13D,right_upper_lobe,carcinoma,0,1	VPS13D	316	1	NM_015378	exon18	c.C2123T	p.T708I	GATGGACCGTGCG	.	scavenged	Atlas-SNP
CRCT1	54544	hgsc.bcm.edu	37	1	152488146	152488146	+	Missense_Mutation	SNP	G	G	A	rs16834168	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	8	5	6	0	0.625	0	G|0.916;A|0.084	0.084	strong	.	CRCT1	6	.	NM_019060	exon2	c.G287A	p.C96Y	GATGCTGCTCCGG	.	PASS	Atlas-SNP
TUBB8	347688	hgsc.bcm.edu	37	10	94004	94004	+	Missense_Mutation	SNP	C	C	T	rs145405488	bycluster;byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	298	3	300	0	0.0100671	0	C|0.991;T|0.009	0.009	strong	TUBB8,colon,carcinoma,+2,2	TUBB8	62	2	NM_177987	exon4	c.G328A	p.A110T	GCTCCGCGCCTTC	.	scavenged	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38119859	38119859	+	Silent	SNP	C	C	T	rs66505048	bycluster;byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	233	3	215	2	0.0128755	0.00930233	C|0.500;T|0.500	0.500	strong	TRIOBP_ENST00000344404,NS,carcinoma,0,8	TRIOBP	262	8	NM_001039141	exon7	c.C1296T	p.C432C	ATCCTGCGCCCAG	.	scavenged	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29885564	29885564	+	Silent	SNP	A	A	G	rs202065964	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	66	11	65	0	0.166667	0	.	.	weak	NEFH,rectum,carcinoma,0,1	NEFH	178	1	NM_021076	exon4	c.A1935G	p.E645E	GGAGGAAGCAAAG	.	PASS	Atlas-SNP
DND1	373863	hgsc.bcm.edu	37	5	140052331	140052331	+	Silent	SNP	G	G	T	rs200268202	byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	8	5	14	0	0.625	0	G|0.952;T|0.047	0.047	strong	DND1,NS,carcinoma,0,1	DND1	15	1	NM_194249	exon3	c.C303A	p.A101A	GGCATAGGCGAAG	.	scavenged	Atlas-SNP
KDM4E	390245	hgsc.bcm.edu	37	11	94759726	94759726	+	Silent	SNP	C	C	T	rs76354273	bycluster;byfrequency;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	12	6	6	0	0.5	0	C|0.947;T|0.053	0.053	strong	.	KDM4E	60	.	NM_001161630	exon1	c.C1005T	p.H335H	GAAACACAGGCAA	.	PASS	Atlas-SNP
FBXL6	26233	hgsc.bcm.edu	37	8	145579964	145579964	+	Silent	SNP	A	A	G	rs75159950	bycluster;byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	78	8	61	2	0.102564	0.0327869	A|0.928;G|0.072	0.072	strong	FBXL6,colon,carcinoma,0,1	FBXL6	26	1	NM_012162	exon7	c.T1221C	p.C407C	ACCCCGACATGGC	.	scavenged	Atlas-SNP
RIMBP3	85376	hgsc.bcm.edu	37	22	20457383	20457383	+	Missense_Mutation	SNP	G	G	T	rs2242314	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	62	62	51	51	1	1	G|0.500;T|0.500	0.500	weak	RIMBP3,NS,carcinoma,0,1	RIMBP3	42	1	NM_015672	exon1	c.C3919A	p.P1307T	CCCCAGGCTGGTC	.	scavenged	Atlas-SNP
SP8	221833	hgsc.bcm.edu	37	7	20824614	20824614	+	Silent	SNP	C	C	T	rs34908430	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	9	5	4	0	0.555556	0	C|0.738;T|0.262	0.262	strong	.	SP8	43	.	NM_182700	exon2	c.G822A	p.S274S	CAGGCCCGAGTAA	.	PASS	Atlas-SNP
PGR	5241	hgsc.bcm.edu	37	11	100922186	100922186	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	199	71	195	0	0.356784	0	.	.	none	.	PGR	115	.	NM_000926	exon5	c.C2326A	p.L776M	AATACAGCATCTG	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150922656	150922656	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	149	3	91	0	0.0201342	0	.	.	none	FAT2,NS,carcinoma,+1,1	FAT2	465	1	NM_001447	exon9	c.C8032T	p.R2678X	GAAGTCGTACTGG	.	scavenged	Atlas-SNP
SLFN11	91607	hgsc.bcm.edu	37	17	33689860	33689860	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	398	4	321	0	0.0100503	0	.	.	none	SLFN11,right_upper_lobe,carcinoma,0,1	SLFN11	112	1	NM_152270	exon2	c.G967A	p.A323T	ACACTGCACAGCA	.	scavenged	Atlas-SNP
DHRS7B	25979	hgsc.bcm.edu	37	17	21092024	21092024	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	94	41	85	0	0.43617	0	.	.	none	.	DHRS7B	27	.	NM_015510	exon6	c.A620G	p.Y207C	GTGTAGATGCAGC	.	PASS	Atlas-SNP
KIF16B	55614	hgsc.bcm.edu	37	20	16360313	16360313	+	Silent	SNP	G	G	A	rs374151470	alternate_allele	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	202	73	147	0	0.361386	0	.	.	alt	.	KIF16B	305	.	NM_001199865	exon19	c.C2334T	p.L778L	CCGCAGGAGCTGG	.	PASS	Atlas-SNP
CD200	4345	hgsc.bcm.edu	37	3	112059764	112059764	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	94	24	127	0	0.255319	0	.	.	none	.	CD200	33	.	NM_001004196	exon3	c.T103G	p.F35V	ATGCCCTTCTCTC	.	PASS	Atlas-SNP
NRXN3	9369	hgsc.bcm.edu	37	14	79933659	79933659	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	127	2	161	0	0.015748	0	.	.	none	NRXN3_ENST00000428277,NS,carcinoma,0,2	NRXN3	342	2	NM_004796	exon13	c.G2239A	p.V747M	CTTGCCGTGGGCT	.	scavenged	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4512945	4512945	+	Missense_Mutation	SNP	C	C	T	rs75031432	bycluster;byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	348	6	376	3	0.0172414	0.00797872	C|0.826;T|0.174	0.174	strong	PLIN4_ENST00000301286,NS,carcinoma,0,2	PLIN4	191	2	NM_001080400	exon3	c.G985A	p.G329S	TGGCACCAGTCAC	.	scavenged	Atlas-SNP
RBM20	282996	hgsc.bcm.edu	37	10	112572301	112572301	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	54	16	65	0	0.296296	0	.	.	none	.	RBM20	50	.	NM_001134363	exon9	c.C2146T	p.R716W	CACCCCCGGCAAC	.	PASS	Atlas-SNP
ACSS3	79611	hgsc.bcm.edu	37	12	81472143	81472143	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	56	20	49	0	0.357143	0	.	.	none	.	ACSS3	118	.	NM_024560	exon1	c.G244A	p.E82K	GCTGCCGAGCAGA	.	PASS	Atlas-SNP
NLRP2	55655	hgsc.bcm.edu	37	19	55494691	55494691	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	153	5	110	0	0.0326797	0	.	.	none	NLRP2_ENST00000543010,colon,carcinoma,0,1	NLRP2	161	1	NM_017852	exon6	c.T1625A	p.V542E	CCGGAGTAGAAAG	.	scavenged	Atlas-SNP
PLCB4	5332	hgsc.bcm.edu	37	20	9374297	9374297	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	58	10	32	0	0.172414	0	.	.	none	.	PLCB4	204	.	NM_182797	exon16	c.C1386T	p.N462N	AAAAAACAAGCGG	.	PASS	Atlas-SNP
NPAT	4863	hgsc.bcm.edu	37	11	108044441	108044441	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	381	54	331	0	0.141732	0	.	.	none	.	NPAT	124	.	NM_002519	exon13	c.C1270T	p.Q424X	TTTTCTGTATGCT	.	PASS	Atlas-SNP
ATG3	64422	hgsc.bcm.edu	37	3	112255439	112255439	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	170	2	133	1	0.0117647	0.0075188	.	.	none	ATG3,NS,carcinoma,+1,1	ATG3	23	1	NM_022488	exon10	c.C677T	p.P226L	GTTAAAGGCTGCC	.	scavenged	Atlas-SNP
HIST1H2BB	3018	hgsc.bcm.edu	37	6	26043725	26043725	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	218	3	203	0	0.0137615	0	.	.	none	HIST1H2BB,NS,carcinoma,0,1	HIST1H2BB	20	1	NM_021062	exon1	c.G161A	p.G54D	GAGATGCCGGTGT	.	scavenged	Atlas-SNP
C19orf45	374877	hgsc.bcm.edu	37	19	7573099	7573099	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	139	2	153	0	0.0143885	0	.	.	none	C19orf45,NS,carcinoma,+1,1	C19orf45	36	1	NM_198534	exon9	c.A1301G	p.Y434C	GCAAGTACAGCCA	.	scavenged	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144993567	144993567	+	Silent	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	37	2	52	0	0.0540541	0	.	.	none	PLEC_ENST00000436759,bladder,carcinoma,-2,6	PLEC	1144	6	NM_201380	exon32	c.C10833A	p.I3611I	GTCGATGATGCCG	.	scavenged	Atlas-SNP
C14orf37	145407	hgsc.bcm.edu	37	14	58605920	58605920	+	Missense_Mutation	SNP	C	C	T	rs373177726		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	322	5	338	1	0.015528	0.00295858	.	.	weak	C14orf37,NS,carcinoma,0,1	C14orf37	87	1	NM_001001872	exon2	c.G157A	p.D53N	GGTCATCGGTGTT	.	scavenged	Atlas-SNP
TLK1	9874	hgsc.bcm.edu	37	2	171902832	171902832	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	276	5	273	1	0.0181159	0.003663	.	.	none	TLK1_ENST00000431350,NS,carcinoma,+1,2	TLK1	134	2	NM_012290	exon11	c.A1021G	p.R341G	TTTGCCTTTCAAT	.	scavenged	Atlas-SNP
NBEA	26960	hgsc.bcm.edu	37	13	35691562	35691562	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	120	22	109	0	0.183333	0	.	.	none	.	NBEA	340	.	NM_015678	exon14	c.C2014T	p.P672S	CCCCGGCCATCAC	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158617450	158617450	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	138	3	146	0	0.0217391	0	.	.	none	SPTA1,NS,carcinoma,+2,1	SPTA1	720	1	NM_003126	exon27	c.G3775A	p.D1259N	GCAGGTCCTCAGT	.	scavenged	Atlas-SNP
GJD2	57369	hgsc.bcm.edu	37	15	35045017	35045017	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	145	2	152	0	0.0137931	0	.	.	none	GJD2,NS,malignant_melanoma,0,2	GJD2	49	2	NM_020660	exon2	c.G628A	p.E210K	CAATTTCCAGGGC	.	scavenged	Atlas-SNP
RIMKLB	57494	hgsc.bcm.edu	37	12	8926159	8926159	+	Missense_Mutation	SNP	C	C	T	rs201378504	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	182	2	121	0	0.010989	0	C|0.999;T|0.001	0.001	weak	RIMKLB,colon,carcinoma,0,1	RIMKLB	47	1	NM_020734	exon7	c.C940T	p.R314W	CTCACCCGGCGTA	.	scavenged	Atlas-SNP
LGI1	9211	hgsc.bcm.edu	37	10	95552602	95552602	+	Silent	SNP	C	C	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	134	61	100	0	0.455224	0	.	.	none	.	LGI1	69	.	NM_005097	exon6	c.C606A	p.G202G	CGAAGGCCCCCCA	.	PASS	Atlas-SNP
OXSR1	9943	hgsc.bcm.edu	37	3	38291481	38291481	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	166	2	169	0	0.0120482	0	.	.	none	OXSR1_ENST00000311806,colon,carcinoma,+2,1	OXSR1	74	1	NM_005109	exon15	c.T1347C	p.D449D	AAATGATATTCGA	.	scavenged	Atlas-SNP
HNRNPCL1	343069	hgsc.bcm.edu	37	1	12907708	12907708	+	Silent	SNP	A	A	G	rs4026149	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	298	17	330	17	0.057047	0.0515152	A|0.667;G|0.333	0.333	strong	HNRNPCL1,NS,carcinoma,-1,1	HNRNPCL1	68	1	NM_001013631	exon2	c.T435C	p.R145R	ACGTTGACGTTTC	.	scavenged	Atlas-SNP
IGSF3	3321	hgsc.bcm.edu	37	1	117158745	117158745	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	397	24	461	20	0.0604534	0.0433839	.	.	none	IGSF3,extremity,malignant_melanoma,0,1	IGSF3	294	1	NM_001542	exon3	c.T378G	p.D126E	TTGCTTATCAGTG	.	scavenged	Atlas-SNP
OR52E2	119678	hgsc.bcm.edu	37	11	5080687	5080687	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	216	4	188	0	0.0185185	0	.	.	none	OR52E2,NS,carcinoma,-1,1	OR52E2	63	1	NM_001005164	exon1	c.A171G	p.L57L	CTGGTGTAGGCTG	.	scavenged	Atlas-SNP
SCML4	256380	hgsc.bcm.edu	37	6	108070921	108070921	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	106	42	101	0	0.396226	0	.	.	none	.	SCML4	65	.	NM_198081	exon3	c.G253A	p.V85I	TGGGGACCGTGGC	.	PASS	Atlas-SNP
RAX	30062	hgsc.bcm.edu	37	18	56940307	56940307	+	Missense_Mutation	SNP	G	G	T	rs2271733	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	5	3	1	1	0.6	1	G|0.801;T|0.199	0.199	strong	RAX,NS,carcinoma,0,1	RAX	19	1	NM_013435	exon1	c.C132A	p.D44E	CCCGTCGTCCTTG	.	scavenged	Atlas-SNP
ACACA	31	hgsc.bcm.edu	37	17	35598929	35598929	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	188	3	133	0	0.0159574	0	.	.	none	ACACA_ENST00000353139,NS,carcinoma,+1,2	ACACA	395	2	NM_198834	exon23	c.G2972A	p.R991Q	GATTTCCGGTTCA	.	scavenged	Atlas-SNP
IFT122	55764	hgsc.bcm.edu	37	3	129185836	129185836	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	83	2	72	0	0.0240964	0	.	.	none	IFT122,caecum,carcinoma,-2,1	IFT122	117	1	NM_052985	exon9	c.T820C	p.Y274H	GCAGTGTACAGTA	.	scavenged	Atlas-SNP
AFG3L2	10939	hgsc.bcm.edu	37	18	12356754	12356754	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	97	4	92	0	0.0412371	0	.	.	none	.	AFG3L2	60	.	NM_006796	exon9	c.C1103T	p.P368L	ATGAAGGGGACAT	.	PASS	Atlas-SNP
ZNF205	7755	hgsc.bcm.edu	37	16	3168942	3168942	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	173	2	215	0	0.0115607	0	.	.	none	ZNF205,NS,carcinoma,-1,1	ZNF205	42	1	NM_003456	exon6	c.C521T	p.A174V	CTCAAGCGCACGG	.	scavenged	Atlas-SNP
PIGW	284098	hgsc.bcm.edu	37	17	34894125	34894125	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	57	25	51	0	0.438596	0	.	.	none	.	PIGW	50	.	NM_178517	exon2	c.A1175G	p.D392G	TGGGTGATATAAT	.	PASS	Atlas-SNP
OR8K5	219453	hgsc.bcm.edu	37	11	55927379	55927379	+	Nonsense_Mutation	SNP	G	G	A	rs199580379	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	80	4	103	0	0.05	0	.	.	weak	.	OR8K5	82	.	NM_001004058	exon1	c.C415T	p.R139X	ACAGTCGCTGAGA	.	PASS	Atlas-SNP
ZBBX	79740	hgsc.bcm.edu	37	3	167039925	167039925	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	172	4	172	0	0.0232558	0	.	.	none	ZBBX_ENST00000455345,caecum,carcinoma,-2,2	ZBBX	299	2	NM_024687	exon12	c.A963G	p.L321L	AAGCCATAATTTT	.	scavenged	Atlas-SNP
CSGALNACT2	55454	hgsc.bcm.edu	37	10	43659372	43659372	+	Nonsense_Mutation	SNP	C	C	T	rs76607193	bycluster;byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	201	5	181	1	0.0248756	0.00552486	C|0.997;T|0.003	0.003	strong	CSGALNACT2,trunk,malignant_melanoma,0,1	CSGALNACT2	67	1	NM_018590	exon5	c.C1039T	p.R347X	CGTGGACGAGGAC	.	scavenged	Atlas-SNP
MUM1L1	139221	hgsc.bcm.edu	37	X	105449437	105449437	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	261	136	256	0	0.521073	0	.	.	none	.	MUM1L1	166	.	NM_152423	exon5	c.G12A	p.E4E	GTCTGAGTATGTC	.	PASS	Atlas-SNP
C12orf44	60673	hgsc.bcm.edu	37	12	52467630	52467630	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	151	2	117	0	0.013245	0	.	.	none	C12orf44,caecum,carcinoma,0,1	C12orf44	14	1	NM_001098673	exon3	c.C196T	p.R66C	TATGTGCGTGTCT	.	scavenged	Atlas-SNP
TRIM64C	646754	hgsc.bcm.edu	37	11	49075660	49075660	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	505	136	506	0	0.269307	0	.	.	none	.	TRIM64C	18	.	NM_001206631	exon6	c.T959C	p.M320T	GGATCCATGGGTG	.	PASS	Atlas-SNP
CARD10	29775	hgsc.bcm.edu	37	22	37912258	37912258	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	33	2	36	0	0.0606061	0	.	.	none	CARD10,NS,carcinoma,+1,1	CARD10	55	1	NM_014550	exon3	c.C421T	p.R141X	GCCGTCGCACCTC	.	scavenged	Atlas-SNP
FOXD4	2298	hgsc.bcm.edu	37	9	117789	117789	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	227	3	263	1	0.0132159	0.00380228	.	.	none	FOXD4,NS,carcinoma,0,1	FOXD4	75	1	NM_207305	exon1	c.G331A	p.A111T	TGAGCGCGATGTA	.	scavenged	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225332227	225332227	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	111	20	96	0	0.18018	0	.	.	none	.	DNAH14	300	.	NM_001373	exon28	c.G4586A	p.R1529Q	CAGACCGATGCTG	.	PASS	Atlas-SNP
RAVER1	125950	hgsc.bcm.edu	37	19	10428229	10428229	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	67	4	89	0	0.0597015	0	.	.	none	.	RAVER1	67	.	NM_133452	exon13	c.G2172A	p.S724S	CTCGGGCGAGGGC	.	PASS	Atlas-SNP
PRG4	10216	hgsc.bcm.edu	37	1	186276961	186276961	+	Missense_Mutation	SNP	A	A	C	rs145338869	bycluster;byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	164	7	141	3	0.0426829	0.0212766	A|0.996;C|0.004	0.004	strong	PRG4,NS,malignant_melanoma,0,1	PRG4	259	1	NM_005807	exon7	c.A2110C	p.T704P	AAGGAGACTGCTC	.	scavenged	Atlas-SNP
PBDC1	51260	hgsc.bcm.edu	37	X	75395309	75395309	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	99	28	100	0	0.282828	0	.	.	none	.	.	.	.	NM_016500	exon4	c.T158C	p.L53P	CGCAGCTGATTTC	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88800422	88800422	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	73	38	90	0	0.520548	0	.	.	none	.	PIEZO1	79	.	NM_001142864	exon17	c.C2221T	p.Q741X	CCTGCTGCTCCTC	.	PASS	Atlas-SNP
HBS1L	10767	hgsc.bcm.edu	37	6	135358694	135358694	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	92	38	117	0	0.413043	0	.	.	none	.	HBS1L	75	.	NM_001145207	exon5	c.C901G	p.Q301E	TATTTTGAATATA	.	PASS	Atlas-SNP
CHL1	10752	hgsc.bcm.edu	37	3	391167	391167	+	Missense_Mutation	SNP	G	G	A	rs201671256		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	99	3	131	0	0.030303	0	G|0.999;A|0.001	0.001	weak	CHL1,caecum,carcinoma,-1,1	CHL1	242	1	NM_001253388	exon8	c.G974A	p.R325H	ATTATCGCTGCAC	.	scavenged	Atlas-SNP
MYOCD	93649	hgsc.bcm.edu	37	17	12647709	12647709	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	115	2	81	0	0.0173913	0	.	.	none	MYOCD,colon,carcinoma,0,1	MYOCD	291	1	NM_001146312	exon8	c.G927A	p.Q309Q	GCAGCAGCAACAC	.	scavenged	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29885562	29885562	+	Missense_Mutation	SNP	G	G	A	rs370929798		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	64	9	64	1	0.140625	0.015625	.	.	weak	NEFH,rectum,carcinoma,-2,1	NEFH	178	1	NM_021076	exon4	c.G1933A	p.E645K	AAGGAGGAAGCAA	.	scavenged	Atlas-SNP
JAKMIP3	282973	hgsc.bcm.edu	37	10	133962951	133962951	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	64	29	80	0	0.453125	0	.	.	none	.	JAKMIP3	69	.	NM_001105521	exon14	c.C1884T	p.H628H	CTTCCACCACACG	.	PASS	Atlas-SNP
DUSP2	1844	hgsc.bcm.edu	37	2	96810595	96810595	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	98	37	84	0	0.377551	0	.	.	none	.	DUSP2	20	.	NM_004418	exon2	c.T415G	p.C139G	CGGGACAGCAGCC	.	PASS	Atlas-SNP
ZNF750	79755	hgsc.bcm.edu	37	17	80789538	80789538	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	164	3	141	2	0.0182927	0.0141844	.	.	none	ZNF750,colon,carcinoma,0,1	ZNF750	60	1	NM_024702	exon2	c.T793C	p.S265P	CAGGCGAGCTCCC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505858	195505858	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	138	7	145	2	0.0507246	0.0137931	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-1,3	MUC4	1505	3	NM_018406	exon2	c.C12593T	p.T4198I	GAGGAAGTGTCGG	.	scavenged	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238853	31238853	+	Missense_Mutation	SNP	C	C	T	rs17849598	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	160	7	220	4	0.04375	0.0181818	.	.	weak	HLA-C_ENST00000383329,NS,carcinoma,0,2	HLA-C	92	2	NM_002117	exon3	c.G616A	p.A206T	TACCTGCGCGCTG	.	scavenged	Atlas-SNP
PAK2	5062	hgsc.bcm.edu	37	3	196534708	196534708	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	188	2	179	0	0.0106383	0	.	.	none	PAK2,NS,carcinoma,0,1	PAK2	113	1	NM_002577	exon7	c.T632C	p.V211A	CACATGTTGATGG	.	scavenged	Atlas-SNP
GRAMD3	65983	hgsc.bcm.edu	37	5	125813449	125813449	+	Silent	SNP	C	C	T	rs375006587		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	146	35	107	0	0.239726	0	.	.	weak	.	GRAMD3	30	.	NM_001146319	exon6	c.C597T	p.N199N	GCCAAACGCCCTG	.	PASS	Atlas-SNP
CACNA1F	778	hgsc.bcm.edu	37	X	49061779	49061779	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	137	65	137	0	0.474453	0	.	.	none	.	CACNA1F	218	.	NM_005183	exon48	c.G5752A	p.V1918M	GGGCCACGAAACG	.	PASS	Atlas-SNP
FOXA3	3171	hgsc.bcm.edu	37	19	46375713	46375713	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	141	3	117	0	0.0212766	0	.	.	none	FOXA3,NS,carcinoma,+2,1	FOXA3	19	1	NM_004497	exon2	c.C450T	p.L150L	GGACCTCTTCCCT	.	scavenged	Atlas-SNP
PDGFB	5155	hgsc.bcm.edu	37	22	39627798	39627798	+	Silent	SNP	G	G	A	rs147036196		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	61	31	79	0	0.508197	0	G|1.000;A|0.000	0.000	weak	.	PDGFB	91	.	NM_002608	exon4	c.C285T	p.A95A	GCACTCGGCGATC	.	PASS	Atlas-SNP
SLC35F1	222553	hgsc.bcm.edu	37	6	118596682	118596682	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	133	2	134	1	0.0150376	0.00746269	.	.	none	SLC35F1,NS,carcinoma,0,1	SLC35F1	65	1	NM_001029858	exon5	c.C698T	p.S233F	GTATTTCTAACGT	.	scavenged	Atlas-SNP
APOBEC3D	140564	hgsc.bcm.edu	37	22	39421654	39421654	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	298	5	300	0	0.0167785	0	.	.	none	APOBEC3D_ENST00000381568,NS,carcinoma,0,4	APOBEC3D	61	4	NM_152426	exon4	c.C583T	p.R195C	CTGCACCGCACGC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505867	195505867	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	124	2	125	1	0.016129	0.008	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,8	MUC4	1505	8	NM_018406	exon2	c.T12584A	p.V4195D	TCGGTGACAGGAA	.	scavenged	Atlas-SNP
BIRC8	112401	hgsc.bcm.edu	37	19	53793269	53793269	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	276	3	237	1	0.0108696	0.00421941	.	.	none	BIRC8,colon,carcinoma,0,9	BIRC8	54	9	NM_033341	exon1	c.G359A	p.R120Q	CCCATTCGTATAG	.	scavenged	Atlas-SNP
OR52I2	143502	hgsc.bcm.edu	37	11	4608393	4608393	+	Silent	SNP	A	A	G	rs56002758	bycluster;byfrequency;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	363	16	384	13	0.0440771	0.0338542	A|0.972;G|0.028	0.028	strong	OR52I2,NS,carcinoma,0,1	OR52I2	50	1	NM_001005170	exon1	c.A351G	p.S117S	CTGCTCAGGAGAC	.	scavenged	Atlas-SNP
RYR3	6263	hgsc.bcm.edu	37	15	34064327	34064327	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	190	2	214	0	0.0105263	0	.	.	none	RYR3,NS,carcinoma,+1,1	RYR3	760	1	NM_001243996	exon63	c.T9023C	p.V3008A	AGCACGTCACTCA	.	scavenged	Atlas-SNP
MAP3K13	9175	hgsc.bcm.edu	37	3	185190894	185190894	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	162	3	145	0	0.0185185	0	.	.	none	MAP3K13_ENST00000424227,colon,carcinoma,+1,4	MAP3K13	209	4	NM_004721	exon11	c.G1775A	p.R592Q	ACCGCCGAGGGAA	.	scavenged	Atlas-SNP
ADAMTSL1	92949	hgsc.bcm.edu	37	9	18889701	18889701	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	114	2	77	0	0.0175439	0	.	.	none	ADAMTSL1_ENST00000380548,right_upper_lobe,carcinoma,+1,1	ADAMTSL1	306	1	NM_001040272	exon25	c.C4598T	p.P1533L	TTCGCCCTGCGGT	.	scavenged	Atlas-SNP
KCNT2	343450	hgsc.bcm.edu	37	1	196342346	196342346	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	187	2	203	0	0.0106952	0	.	.	none	KCNT2,NS,carcinoma,+2,1	KCNT2	243	1	NM_198503	exon14	c.G1327A	p.A443T	ACATGGCGTATTT	.	scavenged	Atlas-SNP
HSP90B1	7184	hgsc.bcm.edu	37	12	104335448	104335448	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	363	4	300	0	0.0110193	0	.	.	none	HSP90B1,NS,carcinoma,+1,1	HSP90B1	72	1	NM_003299	exon10	c.T1272C	p.D424D	CCATGATATGATG	.	scavenged	Atlas-SNP
DUOX2	50506	hgsc.bcm.edu	37	15	45403769	45403769	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	7	6	6	0	0.857143	0	.	.	none	.	DUOX2	137	.	NM_014080	exon6	c.G528A	p.T176T	CCAGCCCGTCACC	.	PASS	Atlas-SNP
MYCBP2	23077	hgsc.bcm.edu	37	13	77657173	77657173	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	141	56	150	0	0.397163	0	.	.	none	.	MYCBP2	1029	.	NM_015057	exon63	c.C11030T	p.A3677V	CTCAGGGCCATTT	.	PASS	Atlas-SNP
SPATA31A6	389730	hgsc.bcm.edu	37	9	43626815	43626815	+	Silent	SNP	G	G	A	rs76166720		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	41	4	46	1	0.097561	0.0217391	A|1.000;|0.000	1.000	weak	FAM75A6,NS,carcinoma,0,3	.	.	3	NM_001145196	exon4	c.C1872T	p.D624D	TGATTCGTCCCGA	.	scavenged	Atlas-SNP
DCP1A	55802	hgsc.bcm.edu	37	3	53353455	53353455	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	158	3	135	0	0.0189873	0	.	.	none	DCP1A,colon,carcinoma,-1,2	DCP1A	30	2	NM_018403	exon4	c.G350A	p.R117H	GCTATGCGGTGAC	.	scavenged	Atlas-SNP
MAML3	55534	hgsc.bcm.edu	37	4	140811125	140811125	+	Missense_Mutation	SNP	G	G	T	rs62344940		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	88	11	69	4	0.125	0.057971	.	.	weak	MAML3_ENST00000509479,colon,carcinoma,+2,2	MAML3	192	2	NM_018717	exon2	c.C1465A	p.Q489K	GCTGTTGCTGTTG	.	scavenged	Atlas-SNP
IFITM3	10410	hgsc.bcm.edu	37	11	320723	320723	+	Missense_Mutation	SNP	C	C	T	rs56227617		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	88	3	68	0	0.0340909	0	.	.	weak	IFITM3,brain,glioma,0,1	IFITM3	132	1	NM_021034	exon1	c.G91A	p.V31M	CCAGCACAGCCAC	.	scavenged	Atlas-SNP
PCDHB7	56129	hgsc.bcm.edu	37	5	140554429	140554429	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	37	19	73	0	0.513514	0	.	.	none	.	PCDHB7	231	.	NM_018940	exon1	c.G2013A	p.L671L	CTACCTGCGGCTC	.	PASS	Atlas-SNP
C11orf34	349633	hgsc.bcm.edu	37	11	112123070	112123070	+	Splice_Site	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	84	33	56	0	0.392857	0	.	.	none	.	C11orf34	6	.	NM_001145024	exon4	c.448+1G>A	.	AACTCACGTTTTT	.	PASS	Atlas-SNP
TUBA3C	7278	hgsc.bcm.edu	37	13	19751196	19751196	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	255	6	226	2	0.0235294	0.00884956	.	.	none	TUBA3C,NS,carcinoma,0,1	TUBA3C	166	1	NM_006001	exon4	c.C927T	p.H309H	CTTGCCGTGGCGA	.	scavenged	Atlas-SNP
HECW2	57520	hgsc.bcm.edu	37	2	197298113	197298113	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	225	84	167	0	0.373333	0	.	.	none	.	HECW2	239	.	NM_020760	exon2	c.T35C	p.V12A	CGCCTCACAAAAA	.	PASS	Atlas-SNP
ARMC3	219681	hgsc.bcm.edu	37	10	23287301	23287301	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	85	2	72	0	0.0235294	0	.	.	none	ARMC3,NS,carcinoma,-1,1	ARMC3	102	1	NM_173081	exon11	c.C1400T	p.A467V	CAACTGCGTGTGA	.	scavenged	Atlas-SNP
AIMP1	9255	hgsc.bcm.edu	37	4	107246152	107246152	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	295	69	349	0	0.233898	0	.	.	none	.	AIMP1	20	.	NM_001142416	exon2	c.C58T	p.R20C	TTCTGCCGTCTCT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512665	195512665	+	Missense_Mutation	SNP	G	G	A	rs79300100	bycluster;byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	425	15	410	9	0.0352941	0.0219512	G|0.993;A|0.007	0.007	strong	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C5786T	p.A1929V	GTGGATGCTGAGG	.	scavenged	Atlas-SNP
PYHIN1	149628	hgsc.bcm.edu	37	1	158911833	158911833	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	88	2	104	0	0.0227273	0	.	.	none	PYHIN1_ENST00000392254,NS,carcinoma,-2,2	PYHIN1	208	2	NM_152501	exon5	c.A646G	p.I216V	CCAATAATCGCGA	.	scavenged	Atlas-SNP
SLFN11	91607	hgsc.bcm.edu	37	17	33680037	33680037	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	176	2	130	1	0.0113636	0.00769231	.	.	none	SLFN11,NS,carcinoma,0,1	SLFN11	112	1	NM_152270	exon5	c.G2044A	p.G682R	CCTTCCCATACCA	.	scavenged	Atlas-SNP
BTBD3	22903	hgsc.bcm.edu	37	20	11903884	11903884	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	169	2	145	0	0.0118343	0	.	.	none	BTBD3,NS,carcinoma,0,2	BTBD3	92	2	NM_014962	exon4	c.C1139T	p.S380L	TCCAGTCGTGTGC	.	scavenged	Atlas-SNP
ZNF597	146434	hgsc.bcm.edu	37	16	3490834	3490834	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	70	3	65	0	0.0428571	0	.	.	none	ZNF597,NS,carcinoma,0,1	ZNF597	41	1	NM_152457	exon3	c.G133A	p.E45K	AAGACTCTTTTGT	.	scavenged	Atlas-SNP
COL7A1	1294	hgsc.bcm.edu	37	3	48613080	48613080	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	117	3	120	0	0.025641	0	.	.	none	COL7A1,rectum,carcinoma,-2,1	COL7A1	320	1	NM_000094	exon72	c.A5958G	p.E1986E	GCCCTGTTCGCCT	.	scavenged	Atlas-SNP
SSX3	10214	hgsc.bcm.edu	37	X	48209473	48209473	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	825	350	858	1	0.424242	0.0011655	.	.	none	.	SSX3	64	.	NM_021014	exon6	c.C415T	p.L139L	GGCACAGCTGTTT	.	PASS	Atlas-SNP
THG1L	54974	hgsc.bcm.edu	37	5	157161623	157161623	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	209	82	203	0	0.392345	0	.	.	none	.	THG1L	31	.	NM_017872	exon3	c.C408G	p.S136R	CTCCAGCTATGTG	.	PASS	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190873379	190873379	+	Missense_Mutation	SNP	A	A	G	rs1803592		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	119	24	135	16	0.201681	0.118519	.	.	weak	FRG1,arm,malignant_melanoma,0,1	FRG1	76	1	NM_004477	exon3	c.A196G	p.K66E	ATGGATAAGGGAA	.	scavenged	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228434398	228434398	+	Silent	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	256	3	243	0	0.0117188	0	.	.	none	OBSCN_ENST00000570156,NS,carcinoma,0,6	OBSCN	2142	6	NM_001271223	exon14	c.G4203T	p.A1401A	GGCTGCGGGCTGC	.	scavenged	Atlas-SNP
MED26	9441	hgsc.bcm.edu	37	19	16687806	16687806	+	Missense_Mutation	SNP	G	G	A	rs201182566		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	103	18	131	0	0.174757	0	G|0.999;A|0.001	0.001	weak	MED26,colon,carcinoma,+1,1	MED26	25	1	NM_004831	exon3	c.C835T	p.R279W	CATGCCGTGAGTT	.	PASS	Atlas-SNP
PRG4	10216	hgsc.bcm.edu	37	1	186276981	186276981	+	Silent	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	198	10	179	2	0.050505	0.0111732	.	.	none	PRG4,NS,carcinoma,0,6	PRG4	259	6	NM_005807	exon7	c.A2130G	p.K710K	CCCTAAAGGGACT	.	scavenged	Atlas-SNP
ZNF804B	219578	hgsc.bcm.edu	37	7	88966043	88966043	+	Silent	SNP	G	G	T	rs371801451	alternate_allele	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	145	2	130	0	0.0137931	0	.	.	alt	ZNF804B,bladder,carcinoma,+1,2	ZNF804B	322	2	NM_181646	exon4	c.G3747T	p.S1249S	ATTTTCGACTCTG	.	scavenged	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52887146	52887146	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	144	3	89	1	0.0208333	0.011236	.	.	none	ZNF880,colon,carcinoma,-1,1	ZNF880	45	1	NM_001145434	exon4	c.A313T	p.K105X	TCTCTTAAAAATC	.	scavenged	Atlas-SNP
INO80D	54891	hgsc.bcm.edu	37	2	206872127	206872127	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	341	4	280	0	0.0117302	0	.	.	none	INO80D_ENST00000403263,NS,carcinoma,+1,2	INO80D	134	2	NM_017759	exon10	c.C1799T	p.P600L	TCATCCGGCAACT	.	scavenged	Atlas-SNP
EPHA3	2042	hgsc.bcm.edu	37	3	89391088	89391088	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	154	2	145	3	0.012987	0.0206897	.	.	none	EPHA3_ENST00000452448,colon,carcinoma,+1,2	EPHA3	501	2	NM_005233	exon5	c.G1154A	p.R385Q	TCCCTCGACAGTT	.	scavenged	Atlas-SNP
RGS18	64407	hgsc.bcm.edu	37	1	192153517	192153517	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	144	3	140	0	0.0208333	0	.	.	none	RGS18,right_upper_lobe,carcinoma,-2,1	RGS18	54	1	NM_130782	exon5	c.T541C	p.Y181H	AGAGTGTATCAGC	.	scavenged	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45234386	45234386	+	Silent	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	63	8	45	1	0.126984	0.0222222	.	.	none	CDC27_ENST00000531206,NS,carcinoma,0,8	CDC27	337	8	NM_001114091	exon7	c.C735A	p.V245V	CAGTGGGACAGTA	.	scavenged	Atlas-SNP
BUB1B	701	hgsc.bcm.edu	37	15	40453452	40453452	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	78	17	91	0	0.217949	0	.	.	none	.	BUB1B	71	.	NM_001211	exon1	c.C31T	p.L11L	GGTGCTCTGAGGT	.	PASS	Atlas-SNP
TMC5	79838	hgsc.bcm.edu	37	16	19488796	19488796	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	183	2	194	0	0.010929	0	.	.	none	TMC5_ENST00000396229,NS,carcinoma,0,2	TMC5	169	2	NM_001105249	exon13	c.C2125T	p.L709F	GGCATTCTTTGTT	.	scavenged	Atlas-SNP
FSIP1	161835	hgsc.bcm.edu	37	15	40068702	40068702	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	110	3	90	0	0.0272727	0	.	.	none	FSIP1,NS,carcinoma,-2,1	FSIP1	53	1	NM_152597	exon2	c.A24G	p.L8L	TCCATCTAGGTTT	.	scavenged	Atlas-SNP
DYRK1A	1859	hgsc.bcm.edu	37	21	38845022	38845022	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	233	4	142	1	0.0171674	0.00704225	.	.	none	DYRK1A,NS,carcinoma,+1,1	DYRK1A	85	1	NM_001396	exon2	c.G47A	p.R16Q	CTGTTCGGCTTGC	.	scavenged	Atlas-SNP
FLG2	388698	hgsc.bcm.edu	37	1	152325925	152325925	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	314	149	307	0	0.474522	0	.	.	none	.	FLG2	431	.	NM_001014342	exon3	c.C4337T	p.T1446I	CCATGAGTTTGTT	.	PASS	Atlas-SNP
LILRB1	10859	hgsc.bcm.edu	37	19	55148031	55148031	+	Silent	SNP	T	T	C	rs637515		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	460	14	345	5	0.0304348	0.0144928	.	.	weak	LILRB1,NS,carcinoma,+2,1	LILRB1	140	1	NM_001081637	exon14	c.T1740C	p.P580P	TCCTCCTTCCCCA	.	scavenged	Atlas-SNP
HMMR	3161	hgsc.bcm.edu	37	5	162910330	162910330	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	164	2	158	0	0.0121951	0	.	.	none	HMMR,NS,carcinoma,+1,1	HMMR	64	1	NM_001142556	exon15	c.G1742A	p.R581H	AGTGGCGTCTCCT	.	scavenged	Atlas-SNP
MED26	9441	hgsc.bcm.edu	37	19	16687805	16687805	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	102	17	129	0	0.166667	0	.	.	none	MED26,colon,carcinoma,0,1	MED26	25	1	NM_004831	exon3	c.G836T	p.R279L	TCATGCCGTGAGT	.	PASS	Atlas-SNP
P2RY8	286530	hgsc.bcm.edu	37	X	1584574	1584574	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	120	74	180	0	0.616667	0	.	.	none	.	P2RY8	53	.	NM_178129	exon2	c.A878T	p.Y293F	AAGTAATAAACAA	.	PASS	Atlas-SNP
TNRC6B	23112	hgsc.bcm.edu	37	22	40661027	40661027	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	71	37	65	0	0.521127	0	.	.	none	.	TNRC6B	195	.	NM_001162501	exon5	c.G793T	p.A265S	CCTAAGGCTAAAT	.	PASS	Atlas-SNP
ADAM21	8747	hgsc.bcm.edu	37	14	70924812	70924812	+	Missense_Mutation	SNP	C	C	T	rs370238293		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	213	9	205	1	0.0422535	0.00487805	.	.	weak	ADAM21_ENST00000267499,NS,carcinoma,0,6	ADAM21	181	6	NM_003813	exon2	c.C596T	p.S199F	CAAAATCTGCTGG	.	scavenged	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110495331	110495331	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	103	32	83	0	0.31068	0	.	.	none	.	PKHD1L1	522	.	NM_177531	exon57	c.G9573T	p.W3191C	GGATTGGCAGGTA	.	PASS	Atlas-SNP
CADM3	57863	hgsc.bcm.edu	37	1	159170688	159170688	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	146	3	166	0	0.0205479	0	.	.	none	CADM3,NS,carcinoma,0,1	CADM3	118	1	NM_021189	exon10	c.C1275T	p.D425D	AGGGGACGACAAG	.	scavenged	Atlas-SNP
DNAJC13	23317	hgsc.bcm.edu	37	3	132245067	132245067	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	94	5	98	0	0.0531915	0	.	.	none	.	DNAJC13	253	.	NM_015268	exon53	c.T6323C	p.L2108P	TTGGTCTAGCCTG	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187629904	187629904	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	88	19	89	0	0.215909	0	.	.	none	.	FAT1	500	.	NM_005245	exon2	c.T1078G	p.F360V	CTTTGAACTGTGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515078	195515078	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	141	6	131	2	0.0425532	0.0152672	.	.	none	MUC4_ENST00000463781,bladder,carcinoma,+1,5	MUC4	1505	5	NM_018406	exon2	c.G3373A	p.D1125N	AAGTGTCGGTGAC	.	scavenged	Atlas-SNP
BAI2	576	hgsc.bcm.edu	37	1	32196967	32196967	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	215	19	247	24	0.0883721	0.097166	.	.	none	BAI2,NS,haematopoietic_neoplasm,+2,1	BAI2	128	1	NM_001703	exon29	c.T3814C	p.S1272P	GGCGGGATAGTGT	.	scavenged	Atlas-SNP
ANKS1B	56899	hgsc.bcm.edu	37	12	99640284	99640284	+	Silent	SNP	G	G	A	rs367637188		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	340	4	263	0	0.0117647	0	.	.	weak	ANKS1B,NS,carcinoma,0,1	ANKS1B	180	1	NM_152788	exon13	c.C2115T	p.N705N	CCCTGCGTTCATA	.	scavenged	Atlas-SNP
HSPA2	3306	hgsc.bcm.edu	37	14	65008064	65008064	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	81	39	87	0	0.481481	0	.	.	none	HSPA2,NS,carcinoma,0,2	HSPA2	83	2	NM_021979	exon1	c.C497T	p.T166M	CCATCACGGGGCT	.	PASS	Atlas-SNP
NFKB2	4791	hgsc.bcm.edu	37	10	104160764	104160764	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	112	54	96	0	0.482143	0	.	.	none	.	NFKB2	48	.	NM_001077494	exon18	c.G2029A	p.G677R	GCAGCTGGACTGG	.	PASS	Atlas-SNP
PRB3	5544	hgsc.bcm.edu	37	12	11420563	11420563	+	Missense_Mutation	SNP	G	G	T	rs200902635	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	188	4	172	1	0.0212766	0.00581395	.	.	weak	PRB3_ENST00000538488,NS,carcinoma,0,1	PRB3	84	1	NM_006249	exon3	c.C620A	p.P207Q	GGGGGTGGTCCTT	.	scavenged	Atlas-SNP
TKTL2	84076	hgsc.bcm.edu	37	4	164394041	164394041	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	256	4	218	0	0.015625	0	.	.	none	TKTL2,colon,carcinoma,-1,1	TKTL2	130	1	NM_032136	exon1	c.A846G	p.I282M	GGTCTGTATCTGA	.	scavenged	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151932990	151932990	+	Missense_Mutation	SNP	C	C	T	rs76844681	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	170	8	172	3	0.0470588	0.0174419	C|0.999;T|0.001	0.001	weak	MLL3_ENST00000355193,NS,malignant_melanoma,+1,4	MLL3	1564	4	NM_170606	exon16	c.G2681A	p.R894Q	GGTCTCCGCTTTC	.	scavenged	Atlas-SNP
HIST1H1C	3006	hgsc.bcm.edu	37	6	26056488	26056488	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	144	61	136	0	0.423611	0	.	.	none	.	HIST1H1C	80	.	NM_005319	exon1	c.G169A	p.V57I	GAGAAACTCCGCT	.	PASS	Atlas-SNP
RNF145	153830	hgsc.bcm.edu	37	5	158630641	158630641	+	Silent	SNP	C	C	T	rs74841177	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	37	4	23	1	0.108108	0.0434783	.	.	weak	RNF145,NS,carcinoma,-1,2	RNF145	110	2	NM_001199380	exon2	c.G75A	p.K25K	TTTTTTCTTTTTT	.	scavenged	Atlas-SNP
SLC32A1	140679	hgsc.bcm.edu	37	20	37353459	37353459	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	165	2	133	0	0.0121212	0	.	.	none	SLC32A1,lower_third,carcinoma,0,1	SLC32A1	81	1	NM_080552	exon1	c.T92C	p.M31T	CCAGGATGGGTTT	.	scavenged	Atlas-SNP
GLIS1	148979	hgsc.bcm.edu	37	1	53980302	53980302	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	161	29	143	0	0.180124	0	.	.	none	.	GLIS1	52	.	NM_147193	exon7	c.G1354A	p.D452N	ACCCATCCCGGGT	.	PASS	Atlas-SNP
FOXK1	221937	hgsc.bcm.edu	37	7	4794917	4794917	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	84	3	95	1	0.0357143	0.0105263	.	.	none	KIAA0415_ENST00000450194,NS,carcinoma,-1,2	FOXK1	64	2	NM_001037165	exon4	c.T953C	p.I318T	AGGCCATCTCCTC	.	scavenged	Atlas-SNP
ABCC2	1244	hgsc.bcm.edu	37	10	101558978	101558978	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	57	2	62	0	0.0350877	0	.	.	none	ABCC2,NS,carcinoma,0,1	ABCC2	160	1	NM_000392	exon8	c.G882A	p.K294K	TGAAAAGAAAAAA	.	scavenged	Atlas-SNP
TRPM3	80036	hgsc.bcm.edu	37	9	73151520	73151520	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	395	5	354	0	0.0126582	0	.	.	none	TRPM3_ENST00000423814,NS,carcinoma,0,4	TRPM3	700	4	NM_001007471	exon25	c.G4473A	p.P1491P	GTACATCGGAGGC	.	scavenged	Atlas-SNP
KRTAP4-5	85289	hgsc.bcm.edu	37	17	39305785	39305785	+	Missense_Mutation	SNP	A	A	T	rs411367	bycluster;byhapmap;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	56	7	57	0	0.125	0	A|0.646;T|0.354	0.354	strong	KRTAP4-5,colon,carcinoma,0,3	KRTAP4-5	34	3	NM_033188	exon1	c.T235A	p.C79S	AGCAGCAGGGGCG	.	PASS	Atlas-SNP
POTEE	445582	hgsc.bcm.edu	37	2	132021475	132021475	+	Missense_Mutation	SNP	G	G	A	rs11546936	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	262	23	214	12	0.0877863	0.0560748	.	.	weak	ENSG00000188219,NS,carcinoma,+1,2	.	.	2	NM_001083538	exon15	c.G2447A	p.R816H	CCAACCGCGAGAA	.	scavenged	Atlas-SNP
PIGP	51227	hgsc.bcm.edu	37	21	38437947	38437947	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	191	45	143	0	0.235602	0	.	.	none	.	PIGP	9	.	NM_153681	exon4	c.A412T	p.I138F	TAGAAATATCTCT	.	PASS	Atlas-SNP
PRMT8	56341	hgsc.bcm.edu	37	12	3692249	3692249	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	102	22	85	0	0.215686	0	.	.	none	PRMT8,NS,carcinoma,-1,3	PRMT8	97	3	NM_019854	exon8	c.C854T	p.T285M	TGAAGACGGAAGA	.	PASS	Atlas-SNP
SYT7	9066	hgsc.bcm.edu	37	11	61291310	61291310	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	192	41	224	0	0.213542	0	.	.	none	.	SYT7	39	.	NM_001252065	exon8	c.G1121A	p.G374E	GTGCCCCCGATGT	.	PASS	Atlas-SNP
CUL4A	8451	hgsc.bcm.edu	37	13	113909104	113909104	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	70	17	91	1	0.242857	0.010989	.	.	none	CUL4A,NS,carcinoma,0,1	CUL4A	50	1	NM_001008895	exon17	c.C1850T	p.T617M	TGGCCACGGGGAT	.	scavenged	Atlas-SNP
PPP2R2B	5521	hgsc.bcm.edu	37	5	145969730	145969730	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	142	47	117	0	0.330986	0	.	.	none	PPP2R2B_ENST00000508545,NS,haematopoietic_neoplasm,-1,4	PPP2R2B	271	4	NM_181675	exon10	c.G1430A	p.R477H	ACATCACGCTTGG	.	PASS	Atlas-SNP
SLC9A5	6553	hgsc.bcm.edu	37	16	67291451	67291451	+	Silent	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	175	2	172	0	0.0114286	0	.	.	none	SLC9A5,NS,carcinoma,+2,1	SLC9A5	82	1	NM_004594	exon9	c.G1443T	p.L481L	CATTCTGGCTGCA	.	scavenged	Atlas-SNP
PTH2R	5746	hgsc.bcm.edu	37	2	209358138	209358138	+	Silent	SNP	A	A	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	165	26	154	0	0.157576	0	.	.	none	.	PTH2R	92	.	NM_005048	exon13	c.A1407C	p.T469T	CAGCACACGCATG	.	PASS	Atlas-SNP
PAK2	5062	hgsc.bcm.edu	37	3	196509522	196509522	+	Missense_Mutation	SNP	C	C	G	rs67093638	bycluster;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	147	2	141	1	0.0136054	0.0070922	C|0.986;G|0.014	0.014	strong	PAK2_ENST00000327134,NS,carcinoma,0,4	PAK2	113	4	NM_002577	exon2	c.C5G	p.S2C	TCATGTCTGATAA	.	scavenged	Atlas-SNP
TUBA3C	7278	hgsc.bcm.edu	37	13	19751301	19751301	+	Silent	SNP	C	C	T	rs140548354		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	241	11	226	9	0.0456432	0.039823	C|0.999;T|0.001	0.001	weak	TUBA3C,bladder,carcinoma,-2,1	TUBA3C	166	1	NM_006001	exon4	c.G822A	p.P274P	GATGACCGGGGCG	.	scavenged	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48314897	48314897	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	138	26	144	0	0.188406	0	.	.	none	.	ABCA13	1192	.	NM_152701	exon17	c.C5634T	p.S1878S	AAGCTCCCGAATG	.	PASS	Atlas-SNP
PAX8	7849	hgsc.bcm.edu	37	2	114004442	114004442	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	168	71	122	0	0.422619	0	.	.	none	.	PAX8	42	.	NM_013952	exon3	c.C80T	p.P27L	ACTTCCGGCAGAG	.	PASS	Atlas-SNP
IGFBP4	3487	hgsc.bcm.edu	37	17	38612729	38612729	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	193	24	162	0	0.124352	0	.	.	none	.	IGFBP4	17	.	NM_001552	exon4	c.G671A	p.G224D	AGCGTGGCAAGTG	.	PASS	Atlas-SNP
BMPR1A	657	hgsc.bcm.edu	37	10	88679129	88679129	+	Missense_Mutation	SNP	G	G	A	rs76029688		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	231	21	201	7	0.0909091	0.0348259	A|1.000;|0.000	1.000	weak	BMPR1A,NS,carcinoma,0,1	BMPR1A	118	1	NM_004329	exon10	c.G1069A	p.A357T	AAGCCCGCAATTG	.	scavenged	Atlas-SNP
C2CD4D	100191040	hgsc.bcm.edu	37	1	151810406	151810406	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	95	4	113	0	0.0421053	0	.	.	none	.	C2CD4D	3	.	NM_001136003	exon2	c.T1060C	p.X354Q	CAGGCTACAGGCT	.	PASS	Atlas-SNP
KIF21A	55605	hgsc.bcm.edu	37	12	39756911	39756911	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	194	3	154	0	0.0154639	0	.	.	none	KIF21A_ENST00000395670,NS,carcinoma,0,2	KIF21A	238	2	NM_001173463	exon7	c.C1008T	p.L336L	ACCCCCGAGGGAA	.	scavenged	Atlas-SNP
KRTAP4-8	728224	hgsc.bcm.edu	37	17	39254124	39254124	+	Silent	SNP	C	C	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	65	10	44	2	0.153846	0.0454545	.	.	none	KRTAP4-8,colon,carcinoma,0,2	KRTAP4-8	57	2	NM_031960	exon1	c.G213C	p.V71V	GCTGGACACACAG	.	scavenged	Atlas-SNP
GTDC2	84892	hgsc.bcm.edu	37	3	43122493	43122493	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	128	3	153	0	0.0234375	0	.	.	none	C3orf39,NS,adenocarcinoma,0,2	.	.	2	NM_032806	exon2	c.C431A	p.P144H	GGCTTGGGCATGA	.	scavenged	Atlas-SNP
EMR2	30817	hgsc.bcm.edu	37	19	14865793	14865793	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	153	2	113	0	0.0130719	0	.	.	none	EMR2,NS,carcinoma,-1,1	EMR2	99	1	NM_013447	exon14	c.C1563T	p.A521A	GAGGACGGCAAAG	.	scavenged	Atlas-SNP
GON4L	54856	hgsc.bcm.edu	37	1	155732033	155732033	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	162	3	155	0	0.0185185	0	.	.	none	GON4L_ENST00000368331,NS,carcinoma,-1,2	GON4L	392	2	NM_001037533	exon23	c.A4859G	p.D1620G	AGTGGATCTCGCT	.	scavenged	Atlas-SNP
EMR1	2015	hgsc.bcm.edu	37	19	6919679	6919679	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	130	2	149	0	0.0153846	0	.	.	none	EMR1,NS,carcinoma,0,1	EMR1	153	1	NM_001256253	exon13	c.G1541T	p.R514L	ATTCTCGAGTCGT	.	scavenged	Atlas-SNP
TGM4	7047	hgsc.bcm.edu	37	3	44943132	44943132	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	229	5	241	0	0.0218341	0	.	.	none	TGM4,caecum,carcinoma,0,1	TGM4	82	1	NM_003241	exon7	c.C774T	p.N258N	CTACAACACGAAG	.	scavenged	Atlas-SNP
TRMT5	57570	hgsc.bcm.edu	37	14	61442460	61442460	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	197	3	209	0	0.0152284	0	.	.	none	TRMT5,colon,carcinoma,+1,1	TRMT5	44	1	NM_020810	exon4	c.A1177G	p.I393V	ACTCTATAGCTTT	.	scavenged	Atlas-SNP
EML2	24139	hgsc.bcm.edu	37	19	46116911	46116911	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	113	18	107	0	0.159292	0	.	.	none	EML2,caecum,carcinoma,0,1	EML2	64	1	NM_001193268	exon21	c.C2315T	p.A772V	CCGTCCGCCCCCT	.	PASS	Atlas-SNP
PABPC1	26986	hgsc.bcm.edu	37	8	101721960	101721960	+	Splice_Site	SNP	C	C	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	126	42	116	0	0.333333	0	.	.	none	.	PABPC1	76	.	NM_002568	exon9	c.973-1G>T	.	CATAACCTATTAA	.	PASS	Atlas-SNP
MAGEE1	57692	hgsc.bcm.edu	37	X	75648638	75648638	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	152	21	166	0	0.138158	0	.	.	none	.	MAGEE1	236	.	NM_020932	exon1	c.G315A	p.L105L	CGTGCTGCCCACC	.	PASS	Atlas-SNP
HYAL3	8372	hgsc.bcm.edu	37	3	50332345	50332345	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	211	88	208	0	0.417062	0	.	.	none	.	HYAL3	34	.	NM_001200030	exon2	c.A689C	p.Q230P	TGCAGTTGAGTGT	.	PASS	Atlas-SNP
LONRF3	79836	hgsc.bcm.edu	37	X	118109491	118109491	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	147	24	165	0	0.163265	0	.	.	none	.	LONRF3	138	.	NM_001031855	exon1	c.G748A	p.G250S	CACGAGGGCAACC	.	PASS	Atlas-SNP
OR2W3	343171	hgsc.bcm.edu	37	1	248059470	248059470	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	298	64	248	0	0.214765	0	.	.	none	OR2W3,right_lower_lobe,carcinoma,+2,1	OR2W3	113	1	NM_001001957	exon1	c.C582T	p.A194A	TGTGGCCATCGAA	.	PASS	Atlas-SNP
USP11	8237	hgsc.bcm.edu	37	X	47092477	47092477	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	83	24	120	0	0.289157	0	.	.	none	.	USP11	93	.	NM_004651	exon1	c.C164T	p.A55V	CTGCTGCGGCGGC	.	PASS	Atlas-SNP
MAATS1	89876	hgsc.bcm.edu	37	3	119466110	119466110	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	56	3	95	0	0.0535714	0	.	.	none	C3orf15,NS,carcinoma,+1,2	.	.	2	NM_033364	exon15	c.G2051A	p.R684H	AAAGCCGGTGTGT	.	scavenged	Atlas-SNP
DGAT2L6	347516	hgsc.bcm.edu	37	X	69424867	69424867	+	Missense_Mutation	SNP	G	G	A	rs35142503	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	297	49	260	0	0.164983	0	G|0.987;A|0.013	0.013	weak	.	DGAT2L6	40	.	NM_198512	exon7	c.G925A	p.A309T	TATCACGCACTCT	.	PASS	Atlas-SNP
SLITRK2	84631	hgsc.bcm.edu	37	X	144904787	144904787	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	78	13	68	0	0.166667	0	.	.	none	.	SLITRK2	221	.	NM_001144005	exon5	c.G844A	p.V282I	ACCCACGTCCAAA	.	PASS	Atlas-SNP
PCDHB16	57717	hgsc.bcm.edu	37	5	140564228	140564228	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	55	19	86	0	0.345455	0	.	.	none	PCDHB16,colon,carcinoma,0,2	PCDHB16	159	2	NM_020957	exon1	c.G2094A	p.S698S	GGTGTCGTCGCTC	.	PASS	Atlas-SNP
CXCR4	7852	hgsc.bcm.edu	37	2	136872552	136872552	+	Missense_Mutation	SNP	C	C	T	rs145335491		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	229	4	158	0	0.0174672	0	C|1.000;T|0.000	0.000	weak	CXCR4,NS,carcinoma,0,1	CXCR4	51	1	NM_001008540	exon1	c.G958A	p.A320T	TGAGTGCGTGCTG	.	scavenged	Atlas-SNP
IQCA1	79781	hgsc.bcm.edu	37	2	237327861	237327861	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	210	3	151	0	0.0142857	0	.	.	none	IQCA1_ENST00000409907,NS,carcinoma,0,2	IQCA1	170	2	NM_001270585	exon8	c.G1086A	p.K362K	CTTCTTCTTCTTT	.	scavenged	Atlas-SNP
ELF1	1997	hgsc.bcm.edu	37	13	41507882	41507882	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	137	62	118	0	0.452555	0	.	.	none	ELF1,NS,carcinoma,-2,1	ELF1	65	1	NM_172373	exon9	c.G1539A	p.Q513Q	AATGGTCTGAACA	.	PASS	Atlas-SNP
ANKRD53	79998	hgsc.bcm.edu	37	2	71212171	71212171	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	22	5	39	0	0.227273	0	.	.	none	.	ANKRD53	55	.	NM_001115116	exon6	c.C1334T	p.A445V	GGGTGGCGCCCGT	.	PASS	Atlas-SNP
ENGASE	64772	hgsc.bcm.edu	37	17	77079972	77079972	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	79	2	62	0	0.0253165	0	.	.	none	ENGASE,lower_third,carcinoma,0,1	ENGASE	55	1	NM_001042573	exon10	c.G1381A	p.G461R	TGGCACGGAGGCA	.	scavenged	Atlas-SNP
GABRQ	55879	hgsc.bcm.edu	37	X	151820139	151820139	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	289	47	222	0	0.16263	0	.	.	none	.	GABRQ	131	.	NM_018558	exon8	c.A1052C	p.Y351S	TCAACTATCTTTT	.	PASS	Atlas-SNP
BMP5	653	hgsc.bcm.edu	37	6	55659189	55659189	+	Silent	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	52	9	75	0	0.173077	0	.	.	none	.	BMP5	94	.	NM_021073	exon3	c.C720A	p.A240A	AGCTTGGGCCTTT	.	PASS	Atlas-SNP
RIF1	55183	hgsc.bcm.edu	37	2	152300225	152300225	+	Splice_Site	SNP	T	T	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	74	28	64	0	0.378378	0	.	.	none	.	RIF1	244	.	NM_018151	exon18	c.1986+2T>G	.	ATCAGGTATGAAA	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240549	39240549	+	Missense_Mutation	SNP	C	C	G	rs200397258	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	98	13	88	4	0.132653	0.0454545	.	.	weak	KRTAP4-9_ENST00000377734,right_lower_lobe,carcinoma,0,2	KRTAP4-7	49	2	NM_033061	exon1	c.C91G	p.Q31E	TGCTGTCAGACCA	.	scavenged	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385714	58385714	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	335	6	252	1	0.0179104	0.00396825	.	.	none	ZNF814,NS,carcinoma,0,2	ZNF814	93	2	NM_001144989	exon3	c.A1044C	p.E348D	TTTTTTTTCAGTG	.	scavenged	Atlas-SNP
ALDH3B2	222	hgsc.bcm.edu	37	11	67432799	67432799	+	Silent	SNP	G	G	A	rs80147122	bycluster;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	273	8	275	2	0.029304	0.00727273	.	.	strong	ALDH3B2,NS,haematopoietic_neoplasm,0,2	ALDH3B2	46	2	NM_001031615	exon7	c.C663T	p.R221R	GGCCACGCGGCTG	.	scavenged	Atlas-SNP
KIAA1549	57670	hgsc.bcm.edu	37	7	138602479	138602479	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	71	11	69	0	0.15493	0	.	.	none	.	KIAA1549	314	.	NM_020910	exon2	c.G1893A	p.P631P	TTCCAGCGGGGGT	.	PASS	Atlas-SNP
UBE3B	89910	hgsc.bcm.edu	37	12	109940887	109940887	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	113	2	93	0	0.0176991	0	.	.	none	UBE3B,rectum,carcinoma,0,1	UBE3B	116	1	NM_130466	exon14	c.G1342A	p.G448R	CCTGTCGGGGGTA	.	scavenged	Atlas-SNP
SOCS1	8651	hgsc.bcm.edu	37	16	11348808	11348808	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	11	6	18	0	0.545455	0	.	.	none	SOCS1,lymph_node,lymphoid_neoplasm,0,1	SOCS1	84	1	NM_003745	exon2	c.G528A	p.E176E	GCACAGCTCCTGC	.	PASS	Atlas-SNP
POM121L12	285877	hgsc.bcm.edu	37	7	53103673	53103673	+	Silent	SNP	C	C	A	rs1184320	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	15	8	5	0	0.533333	0	C|0.563;A|0.437	0.437	strong	.	POM121L12	146	.	NM_182595	exon1	c.C309A	p.P103P	CCTTCCCGGGGAG	.	PASS	Atlas-SNP
LCMT1	51451	hgsc.bcm.edu	37	16	25186263	25186263	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	85	18	90	0	0.211765	0	.	.	none	.	LCMT1	22	.	NM_016309	exon10	c.A890G	p.E297G	GGATAGAATCACT	.	PASS	Atlas-SNP
TNFRSF8	943	hgsc.bcm.edu	37	1	12164562	12164562	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	160	2	127	0	0.0125	0	.	.	none	TNFRSF8,bladder,carcinoma,0,2	TNFRSF8	70	2	NM_001243	exon4	c.C395T	p.P132L	TCTGTCCGGCAGG	.	scavenged	Atlas-SNP
ADCY2	108	hgsc.bcm.edu	37	5	7766919	7766919	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	199	5	166	1	0.0251256	0.0060241	.	.	none	ADCY2,right_upper_lobe,carcinoma,0,1	ADCY2	337	1	NM_020546	exon17	c.G2214A	p.P738P	CCTCCCGGTAAGA	.	scavenged	Atlas-SNP
SARM1	23098	hgsc.bcm.edu	37	17	26708753	26708753	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	38	4	40	0	0.105263	0	.	.	none	.	SARM1	40	.	NM_015077	exon3	c.C999T	p.L333L	GTTGCTCGACTCT	.	PASS	Atlas-SNP
GABRQ	55879	hgsc.bcm.edu	37	X	151820129	151820129	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	305	47	251	0	0.154098	0	.	.	none	.	GABRQ	131	.	NM_018558	exon8	c.T1042C	p.Y348H	TATGTCTACATCA	.	PASS	Atlas-SNP
CARD11	84433	hgsc.bcm.edu	37	7	2976756	2976756	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	148	63	175	0	0.425676	0	.	.	none	.	CARD11	339	.	NM_032415	exon9	c.T1256G	p.I419S	ATCTCGATCCTCA	.	PASS	Atlas-SNP
CAMKV	79012	hgsc.bcm.edu	37	3	49897116	49897116	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	126	2	148	0	0.015873	0	.	.	none	CAMKV_ENST00000477224,colon,carcinoma,+2,1	CAMKV	84	1	NM_024046	exon11	c.C1141T	p.P381S	CTGCGGGGGCCAC	.	scavenged	Atlas-SNP
GPR133	283383	hgsc.bcm.edu	37	12	131439191	131439191	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	275	3	207	0	0.0109091	0	.	.	none	GPR133,colon,carcinoma,0,2	GPR133	136	2	NM_198827	exon2	c.C89T	p.S30L	CCAGATCGCAGGA	.	scavenged	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179438134	179438134	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	187	2	117	0	0.0106952	0	.	.	none	TTN_ENST00000359218,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,4	TTN	18412	4	NM_001267550	exon326	c.G72725T	p.C24242F	CCCCAGCAGACAA	.	scavenged	Atlas-SNP
DEPDC1B	55789	hgsc.bcm.edu	37	5	59941337	59941337	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	297	3	200	1	0.010101	0.005	.	.	none	DEPDC1B,NS,carcinoma,-1,1	DEPDC1B	56	1	NM_001145208	exon4	c.A560G	p.K187R	ATAGACTTCCATA	.	scavenged	Atlas-SNP
C3	718	hgsc.bcm.edu	37	19	6694547	6694547	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	167	3	154	0	0.0179641	0	.	.	none	C3,NS,carcinoma,+1,1	C3	192	1	NM_000064	exon24	c.G3049A	p.G1017S	TCATGCCGATCAT	.	scavenged	Atlas-SNP
CR1	1378	hgsc.bcm.edu	37	1	207787831	207787831	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	237	3	282	0	0.0126582	0	.	.	none	CR1_ENST00000367049,NS,carcinoma,0,12	CR1	354	12	NM_000651	exon40	c.G6658T	p.E2220X	GTGTGTGAACGTG	.	scavenged	Atlas-SNP
STAT6	6778	hgsc.bcm.edu	37	12	57493818	57493818	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	152	56	137	0	0.368421	0	.	.	none	.	STAT6	69	.	NM_001178079	exon14	c.A1568G	p.D523G	GTGAGGTCCAGGA	.	PASS	Atlas-SNP
SCRN1	9805	hgsc.bcm.edu	37	7	30008595	30008595	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	142	5	138	0	0.0352113	0	.	.	none	SCRN1,colon,carcinoma,+1,1	SCRN1	85	1	NM_001145514	exon2	c.G149A	p.R50Q	CTGGGCCGGGCTG	.	scavenged	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017974	1017974	+	Missense_Mutation	SNP	C	C	G	rs200353019	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	545	17	537	11	0.0311927	0.0204842	.	.	weak	MUC6_ENST00000421673,colon,carcinoma,0,2	MUC6	408	2	NM_005961	exon31	c.G4827C	p.Q1609H	TGTGGTCTGAGGG	.	scavenged	Atlas-SNP
ITPKB	3707	hgsc.bcm.edu	37	1	226925148	226925148	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	33	7	32	0	0.212121	0	.	.	none	.	ITPKB	158	.	NM_002221	exon2	c.C12T	p.Y4Y	ATAGCAGTACACA	.	PASS	Atlas-SNP
KRTAP4-9	100132386	hgsc.bcm.edu	37	17	39262103	39262103	+	Missense_Mutation	SNP	A	A	T	rs374629799		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	80	2	90	1	0.025	0.0111111	.	.	weak	KRTAP4-9_ENST00000377734,NS,carcinoma,0,2	KRTAP4-9	110	2	NM_001146041	exon1	c.A463T	p.S155C	AGCTGCAGCATCT	.	scavenged	Atlas-SNP
GPATCH3	63906	hgsc.bcm.edu	37	1	27219894	27219894	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	216	3	256	0	0.0138889	0	.	.	none	GPATCH3,NS,carcinoma,-1,1	GPATCH3	30	1	NM_022078	exon4	c.T1097C	p.V366A	TAGTACACACTCA	.	scavenged	Atlas-SNP
LPPR4	0	hgsc.bcm.edu	37	1	99771406	99771406	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	278	3	286	0	0.0107914	0	.	.	none	LPPR4,colon,carcinoma,-1,2	LPPR4	143	2	NM_014839	exon7	c.C1132T	p.R378X	CTCAACCGAAACC	.	scavenged	Atlas-SNP
AMBRA1	55626	hgsc.bcm.edu	37	11	46564251	46564251	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	172	38	162	0	0.22093	0	.	.	none	.	AMBRA1	201	.	NM_001267783	exon8	c.G1046A	p.R349K	CTGGTTCTGGGCG	.	PASS	Atlas-SNP
CNTRL	11064	hgsc.bcm.edu	37	9	123931934	123931934	+	Missense_Mutation	SNP	G	G	T	rs376768102	alternate_allele	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	96	41	76	0	0.427083	0	.	.	alt	.	CNTRL	161	.	NM_007018	exon37	c.G6116T	p.G2039V	AATCAGGTGAGCT	.	PASS	Atlas-SNP
FUT10	84750	hgsc.bcm.edu	37	8	33246864	33246864	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	154	2	115	0	0.012987	0	.	.	none	FUT10,brain,glioma,+2,1	FUT10	62	1	NM_032664	exon4	c.A829G	p.I277V	CTAGGATAAACTT	.	scavenged	Atlas-SNP
SYMPK	8189	hgsc.bcm.edu	37	19	46352062	46352062	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	260	135	218	0	0.519231	0	.	.	none	.	SYMPK	104	.	NM_004819	exon6	c.C372T	p.N124N	CACCACGTTCACA	.	PASS	Atlas-SNP
KRT12	3859	hgsc.bcm.edu	37	17	39021152	39021152	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	148	26	125	0	0.175676	0	.	.	none	.	KRT12	53	.	NM_000223	exon3	c.T713A	p.V238E	TCCAGCACCCGGC	.	PASS	Atlas-SNP
CASQ2	845	hgsc.bcm.edu	37	1	116243937	116243937	+	Silent	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	255	3	222	0	0.0117647	0	.	.	none	CASQ2,NS,carcinoma,-2,1	CASQ2	54	1	NM_001232	exon11	c.T1125C	p.D375D	TTCATCATCATCT	.	scavenged	Atlas-SNP
NRAP	4892	hgsc.bcm.edu	37	10	115381651	115381651	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	191	2	197	0	0.0104712	0	.	.	none	NRAP,NS,carcinoma,+1,1	NRAP	208	1	NM_001261463	exon24	c.A2746G	p.K916E	AAGCCTTCTTGGC	.	scavenged	Atlas-SNP
PCM1	5108	hgsc.bcm.edu	37	8	17843569	17843569	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	97	4	100	0	0.0412371	0	.	.	none	.	PCM1	120	.	NM_006197	exon26	c.T4383C	p.P1461P	TACTCCTAGTGAG	.	PASS	Atlas-SNP
CAMTA1	23261	hgsc.bcm.edu	37	1	7797002	7797002	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	139	3	186	0	0.0215827	0	.	.	none	CAMTA1,NS,carcinoma,+1,1	CAMTA1	226	1	NM_015215	exon14	c.C3275T	p.A1092V	AGCACGCGGATAG	.	scavenged	Atlas-SNP
CYP2D6	1565	hgsc.bcm.edu	37	22	42523636	42523636	+	Missense_Mutation	SNP	C	C	A	rs3915951	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	134	3	154	1	0.0223881	0.00649351	C|0.500;A|0.500	0.500	weak	CYP2D6_ENST00000360608,NS,carcinoma,0,11	CYP2D6	104	11	NM_000106	exon7	c.G986T	p.R329L	ACACGGCCTGGAC	.	scavenged	Atlas-SNP
CCDC11	220136	hgsc.bcm.edu	37	18	47753972	47753972	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	208	3	184	0	0.0144231	0	.	.	none	CCDC11,caecum,carcinoma,0,1	CCDC11	59	1	NM_145020	exon8	c.C1324A	p.R442S	CTAAACGTTGGCG	.	scavenged	Atlas-SNP
PRAC	84366	hgsc.bcm.edu	37	17	46799191	46799191	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	181	60	171	0	0.331492	0	.	.	none	.	PRAC	6	.	NM_032391	exon2	c.C146T	p.S49L	CCTCCCGAAATTC	.	PASS	Atlas-SNP
RASSF2	9770	hgsc.bcm.edu	37	20	4768377	4768377	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	142	2	113	0	0.0140845	0	.	.	none	RASSF2,NS,carcinoma,0,1	RASSF2	75	1	NM_014737	exon10	c.G715A	p.D239N	GGTAATCGGTGGC	.	scavenged	Atlas-SNP
KRTAP5-4	387267	hgsc.bcm.edu	37	11	1643066	1643066	+	Silent	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	189	11	188	8	0.0582011	0.0425532	.	.	none	KRTAP5-4,NS,carcinoma,0,3	KRTAP5-4	78	3	NM_001012709	exon1	c.T258C	p.G86G	CTTGGAACCCCCA	.	scavenged	Atlas-SNP
ZNF845	91664	hgsc.bcm.edu	37	19	53855284	53855284	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	77	4	48	0	0.0519481	0	.	.	none	ZNF845,NS,carcinoma,0,1	ZNF845	101	1	NM_138374	exon4	c.G1356A	p.S452S	CAAATCGAACCTT	.	scavenged	Atlas-SNP
VPS16	64601	hgsc.bcm.edu	37	20	2842741	2842741	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	152	4	102	0	0.0263158	0	.	.	none	VPS16,NS,carcinoma,0,1	VPS16	76	1	NM_022575	exon11	c.G1036A	p.G346R	GCCCCCGGGGCGC	.	scavenged	Atlas-SNP
ARFRP1	10139	hgsc.bcm.edu	37	20	62333231	62333231	+	Missense_Mutation	SNP	G	G	A	rs139547982	bycluster;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	171	4	174	0	0.0233918	0	G|0.999;A|0.001	0.001	strong	ARFRP1,colon,carcinoma,+1,1	ARFRP1	17	1	NM_001134758	exon6	c.C368T	p.A123V	CACAGCGCCTCGC	.	scavenged	Atlas-SNP
CEACAM18	729767	hgsc.bcm.edu	37	19	51983701	51983701	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	120	2	74	0	0.0166667	0	.	.	none	CEACAM18_ENST00000451626,NS,carcinoma,0,2	CEACAM18	96	2	NM_001080405	exon3	c.T350C	p.V117A	AGGATGTTCAGGA	.	scavenged	Atlas-SNP
KRT8	3856	hgsc.bcm.edu	37	12	53298699	53298699	+	Missense_Mutation	SNP	G	G	A	rs201807576	byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	95	5	76	0	0.0526316	0	G|0.944;A|0.055	0.055	strong	KRT8,colon,carcinoma,0,2	KRT8	41	2	NM_001256282	exon2	c.C151T	p.R51C	AGGAGCGGCTGCT	.	scavenged	Atlas-SNP
HTR1F	3355	hgsc.bcm.edu	37	3	88040470	88040470	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	188	2	171	0	0.0106383	0	.	.	none	HTR1F,right_upper_lobe,carcinoma,-2,1	HTR1F	66	1	NM_000866	exon2	c.T571C	p.Y191H	GCTTTCTACATCC	.	scavenged	Atlas-SNP
PIK3AP1	118788	hgsc.bcm.edu	37	10	98369476	98369476	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	111	48	101	0	0.432432	0	.	.	none	.	PIK3AP1	111	.	NM_152309	exon14	c.C2163T	p.S721S	TGCTGTGCTGGAG	.	PASS	Atlas-SNP
OR51A2	401667	hgsc.bcm.edu	37	11	4976671	4976671	+	Silent	SNP	G	G	A	rs2595984	bycluster;byfrequency;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	417	11	302	3	0.0263789	0.00993378	G|0.880;A|0.120	0.120	strong	OR51A2,rectum,carcinoma,0,1	OR51A2	40	1	NM_001004748	exon1	c.C273T	p.A91A	TTCAGGGGCATTG	.	scavenged	Atlas-SNP
UBE2A	7319	hgsc.bcm.edu	37	X	118715490	118715490	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	508	203	383	1	0.399606	0.00261097	.	.	none	.	UBE2A	43	.	NM_003336	exon4	c.G172T	p.E58X	ACAATAGAATTCA	.	PASS	Atlas-SNP
AURKAIP1	54998	hgsc.bcm.edu	37	1	1309461	1309461	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	73	29	63	0	0.39726	0	.	.	none	.	AURKAIP1	12	.	NM_001127230	exon3	c.C417T	p.N139N	GTGGTGGTTCATC	.	PASS	Atlas-SNP
DRP2	1821	hgsc.bcm.edu	37	X	100509422	100509422	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	351	67	314	0	0.190883	0	.	.	none	.	DRP2	98	.	NM_001939	exon18	c.C1986T	p.S662S	CACATCCAGTGAG	.	PASS	Atlas-SNP
C5orf38	153571	hgsc.bcm.edu	37	5	2752510	2752510	+	Silent	SNP	G	G	A	rs181498861	bycluster;by1000genomes;alternate_allele	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	51	17	58	0	0.333333	0	G|0.999;C|0.001	.	alt	.	C5orf38	20	.	NM_178569	exon1	c.G132A	p.A44A	CCTCGCGGTCCAC	.	PASS	Atlas-SNP
PCDHGB4	8641	hgsc.bcm.edu	37	5	140768636	140768636	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	112	3	100	0	0.0267857	0	.	.	none	PCDHGB4,NS,carcinoma,+1,1	PCDHGB4	125	1	NM_032098	exon1	c.T1185C	p.S395S	AACTTCTTCAAGA	.	scavenged	Atlas-SNP
FNIP1	96459	hgsc.bcm.edu	37	5	131013444	131013444	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	126	37	96	0	0.293651	0	.	.	none	.	FNIP1	104	.	NM_133372	exon13	c.G1471C	p.D491H	ACATGTCCACACT	.	PASS	Atlas-SNP
ALDH8A1	64577	hgsc.bcm.edu	37	6	135271176	135271176	+	Missense_Mutation	SNP	C	C	T	rs150345681	bycluster;byfrequency;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	109	5	111	0	0.0458716	0	C|0.999;T|0.001	0.001	strong	ALDH8A1,colon,carcinoma,0,1	ALDH8A1	68	1	NM_022568	exon1	c.G16A	p.A6T	AAAGTGCGTTTGT	.	PASS	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	37	2	141259273	141259273	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	63	31	83	0	0.492063	0	.	.	none	.	LRP1B	1315	.	NM_018557	exon55	c.C8833T	p.L2945F	CCGGAAGGTCTTG	.	PASS	Atlas-SNP
APC	324	hgsc.bcm.edu	37	5	112176927	112176927	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	179	3	143	0	0.0167598	0	.	.	none	APC,colon,carcinoma,+1,1	APC	4158	1	NM_001127510	exon17	c.C5636T	p.A1879V	AAAAGGCTGAATT	.	scavenged	Atlas-SNP
TLE4	7091	hgsc.bcm.edu	37	9	82337469	82337469	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	129	46	127	0	0.356589	0	.	.	none	.	TLE4	187	.	NM_007005	exon18	c.T2090G	p.L697R	ACCAACTACATCT	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26164606	26164606	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	32	7	30	0	0.21875	0	.	.	none	.	MYO18B	322	.	NM_032608	exon4	c.G723A	p.V241V	CATAGTGGGGAAG	.	PASS	Atlas-SNP
RHPN2	85415	hgsc.bcm.edu	37	19	33493842	33493842	+	Missense_Mutation	SNP	C	C	A	rs137892450	bycluster;byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	92	8	90	3	0.0869565	0.0333333	A|0.000;C|0.999;T|0.000	0.000	strong	RHPN2,NS,neuroblastoma,0,1	RHPN2	107	1	NM_033103	exon8	c.G825T	p.M275I	GCTGAGCATGGCA	.	scavenged	Atlas-SNP
CDH4	1002	hgsc.bcm.edu	37	20	60427856	60427856	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	133	45	114	0	0.338346	0	.	.	none	.	CDH4	172	.	NM_001794	exon6	c.C779T	p.P260L	AGAACCCCATCGA	.	PASS	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	37	1	186008085	186008085	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	362	4	353	0	0.0110497	0	.	.	none	HMCN1,NS,carcinoma,+2,1	HMCN1	797	1	NM_031935	exon38	c.G5976A	p.V1992V	ATGCGTGGCCATC	.	scavenged	Atlas-SNP
CALR	811	hgsc.bcm.edu	37	19	13050364	13050364	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	137	2	144	0	0.0145985	0	.	.	none	CALR,colon,carcinoma,-2,1	CALR	31	1	NM_004343	exon3	c.G316A	p.G106R	GACTGTGGGGGCG	.	scavenged	Atlas-SNP
IFITM3	10410	hgsc.bcm.edu	37	11	320606	320606	+	Missense_Mutation	SNP	G	G	T	rs199749095	bycluster;byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	162	6	148	6	0.037037	0.0405405	G|0.936;T|0.064	0.064	strong	IFITM3,caecum,carcinoma,0,13	IFITM3	132	13	NM_021034	exon1	c.C208A	p.P70T	AGCAGGGGTTCAT	.	scavenged	Atlas-SNP
CTPS2	56474	hgsc.bcm.edu	37	X	16711587	16711587	+	Silent	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	156	44	188	0	0.282051	0	.	.	none	.	CTPS2	49	.	NM_001144002	exon5	c.C462A	p.I154I	TCCTTCGATGTCT	.	PASS	Atlas-SNP
MYOM1	8736	hgsc.bcm.edu	37	18	3094190	3094190	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	83	2	89	0	0.0240964	0	.	.	none	MYOM1,NS,carcinoma,-1,1	MYOM1	192	1	NM_003803	exon26	c.A3842G	p.E1281G	TCCTTCTCGTTAA	.	scavenged	Atlas-SNP
ZNF846	162993	hgsc.bcm.edu	37	19	9873975	9873975	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	95	4	54	0	0.0421053	0	.	.	none	ZNF846,NS,carcinoma,0,1	ZNF846	61	1	NM_001077624	exon3	c.A125G	p.K42R	AGATTCTTGTAGT	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017566	1017566	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	636	27	632	30	0.0424528	0.0474684	.	.	none	MUC6_ENST00000421673,NS,carcinoma,-2,2	MUC6	408	2	NM_005961	exon31	c.C5235T	p.T1745T	TGTAGAGGTTTTG	.	scavenged	Atlas-SNP
PLXNC1	10154	hgsc.bcm.edu	37	12	94543629	94543629	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	9	6	9	0	0.666667	0	.	.	none	.	PLXNC1	135	.	NM_005761	exon1	c.C882T	p.L294L	CCTGCTCCTCTCC	.	PASS	Atlas-SNP
MBD1	4152	hgsc.bcm.edu	37	18	47799097	47799097	+	Silent	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	105	27	114	0	0.257143	0	.	.	none	.	MBD1	228	.	NM_001204137	exon16	c.T1803C	p.I601I	GCTGAAAATCTCC	.	PASS	Atlas-SNP
CRISPLD1	83690	hgsc.bcm.edu	37	8	75898242	75898242	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	79	19	58	0	0.240506	0	.	.	none	.	CRISPLD1	94	.	NM_031461	exon2	c.A20T	p.E7V	CGCGGGAGTGGCT	.	PASS	Atlas-SNP
CIB3	117286	hgsc.bcm.edu	37	19	16275678	16275678	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	199	2	140	0	0.0100503	0	.	.	none	CIB3,colon,carcinoma,-1,1	CIB3	35	1	NM_054113	exon5	c.G393A	p.T131T	GGTCACCGTCTGC	.	scavenged	Atlas-SNP
ZNF462	58499	hgsc.bcm.edu	37	9	109691621	109691621	+	Missense_Mutation	SNP	G	G	A	rs376844260		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	100	20	80	0	0.2	0	.	.	weak	ZNF462,NS,carcinoma,0,1	ZNF462	322	1	NM_021224	exon3	c.G5428A	p.V1810I	ACGGCCGTCTATG	.	PASS	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	37	22	25023903	25023903	+	Silent	SNP	C	C	T	rs1041998	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	540	7	586	7	0.012963	0.0119454	.	.	weak	GGT1,NS,carcinoma,0,1	GGT1	68	1	NM_013430	exon13	c.C1293T	p.N431N	CACCAACGAGTTT	.	scavenged	Atlas-SNP
QRSL1	55278	hgsc.bcm.edu	37	6	107100238	107100238	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	212	44	203	0	0.207547	0	.	.	none	.	QRSL1	30	.	NM_018292	exon6	c.G712A	p.D238N	TGTGTGGATGATG	.	PASS	Atlas-SNP
SOGA2	23255	hgsc.bcm.edu	37	18	8824955	8824955	+	Silent	SNP	T	T	C	rs201573119	alternate_allele	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	78	2	67	1	0.025641	0.0149254	T|0.999;A|0.001	.	alt	CCDC165,NS,carcinoma,+2,1	.	.	1	NM_015210	exon15	c.T3447C	p.P1149P	AGAGCCTTTCCCC	.	scavenged	Atlas-SNP
NCOA3	8202	hgsc.bcm.edu	37	20	46265035	46265035	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	123	22	104	0	0.178862	0	.	.	none	.	NCOA3	156	.	NM_001174088	exon12	c.C1935T	p.S645S	TCATTCCTCCTTG	.	PASS	Atlas-SNP
CTSF	8722	hgsc.bcm.edu	37	11	66331416	66331416	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	105	2	114	0	0.0190476	0	.	.	none	CTSF,caecum,carcinoma,-1,2	CTSF	42	2	NM_003793	exon13	c.G1443A	p.A481A	CACCACCGCCGAG	.	scavenged	Atlas-SNP
PRAMEF1	65121	hgsc.bcm.edu	37	1	12853441	12853441	+	Missense_Mutation	SNP	C	C	A	rs75270454	bycluster;byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	282	9	277	5	0.0319149	0.0180505	A|0.000;C|0.999;T|0.000	0.000	strong	PRAMEF1,NS,carcinoma,0,2	PRAMEF1	78	2	NM_023013	exon2	c.C65A	p.A22D	ACCAGGCCTTGTC	.	scavenged	Atlas-SNP
SLC25A37	51312	hgsc.bcm.edu	37	8	23429088	23429088	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	57	32	56	0	0.561404	0	.	.	none	.	SLC25A37	27	.	NM_016612	exon4	c.C737A	p.A246D	CCGGGGCCCTCGC	.	PASS	Atlas-SNP
C14orf37	145407	hgsc.bcm.edu	37	14	58598352	58598352	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	110	40	111	0	0.363636	0	.	.	none	C14orf37,NS,carcinoma,-1,1	C14orf37	87	1	NM_001001872	exon4	c.A1709G	p.E570G	CTGGGTTCCCCCA	.	PASS	Atlas-SNP
HIST1H2BM	8342	hgsc.bcm.edu	37	6	27783062	27783062	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	116	2	137	0	0.0172414	0	.	.	none	HIST1H2BM,NS,carcinoma,0,2	HIST1H2BM	36	2	NM_003521	exon1	c.C241T	p.L81L	TCACGCCTGGCGC	.	scavenged	Atlas-SNP
ZNF611	81856	hgsc.bcm.edu	37	19	53209453	53209453	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	118	3	104	0	0.0254237	0	.	.	none	ZNF611,NS,carcinoma,-1,1	ZNF611	72	1	NM_030972	exon7	c.A855G	p.K285K	GTAAGGTTTCTCA	.	scavenged	Atlas-SNP
PRG4	10216	hgsc.bcm.edu	37	1	186276394	186276394	+	Missense_Mutation	SNP	T	T	G	rs201070519		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	158	34	149	11	0.21519	0.0738255	.	.	weak	PRG4,NS,lymphoid_neoplasm,0,3	PRG4	259	3	NM_005807	exon7	c.T1543G	p.S515A	GAGCCTTCACCCA	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508903	195508903	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	149	16	144	4	0.107383	0.0277778	.	.	none	MUC4_ENST00000463781,NS,malignant_melanoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C9548T	p.T3183M	AGAGGCGTGGTGT	.	scavenged	Atlas-SNP
SALL1	6299	hgsc.bcm.edu	37	16	51171056	51171056	+	Silent	SNP	G	G	A	rs189411650	bycluster;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	122	3	134	0	0.0245902	0	G|0.999;A|0.001	0.001	strong	SALL1,colon,carcinoma,0,2	SALL1	301	2	NM_002968	exon3	c.C3942T	p.F1314F	CTCCACGAAGCGG	.	scavenged	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017068	1017068	+	Silent	SNP	C	C	T	rs78992004		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	698	77	732	80	0.110315	0.10929	C|0.500;T|0.500	0.500	weak	MUC6,NS,carcinoma,-1,1	MUC6	408	1	NM_005961	exon31	c.G5733A	p.T1911T	TTTGGCCGTGCTA	.	scavenged	Atlas-SNP
BLVRB	645	hgsc.bcm.edu	37	19	40964385	40964385	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	92	51	84	0	0.554348	0	.	.	none	.	BLVRB	12	.	NM_000713	exon2	c.C147T	p.H49H	TACCACGTGGGCC	.	PASS	Atlas-SNP
ATP8B1	5205	hgsc.bcm.edu	37	18	55335757	55335757	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	110	3	116	1	0.0272727	0.00862069	.	.	none	ATP8B1,colon,carcinoma,+2,1	ATP8B1	126	1	NM_005603	exon19	c.G2113A	p.A705T	CAATAGCTGTAGC	.	scavenged	Atlas-SNP
NCOA6	23054	hgsc.bcm.edu	37	20	33345744	33345744	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	134	4	97	1	0.0298507	0.0103093	.	.	none	NCOA6,NS,carcinoma,0,18	NCOA6	219	18	NM_014071	exon7	c.G807A	p.Q269Q	CTGCTGCTGTTGT	.	scavenged	Atlas-SNP
ENTPD6	955	hgsc.bcm.edu	37	20	25199209	25199209	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	167	3	152	1	0.0179641	0.00657895	.	.	none	ENTPD6,NS,carcinoma,0,1	ENTPD6	57	1	NM_001247	exon10	c.C902T	p.S301L	TGATGTCGGCACG	.	scavenged	Atlas-SNP
PCDHB4	56131	hgsc.bcm.edu	37	5	140503797	140503797	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	81	4	100	0	0.0493827	0	.	.	none	.	PCDHB4	177	.	NM_018938	exon1	c.C2217T	p.S739S	CGTAAGCGGCACC	.	PASS	Atlas-SNP
EBLN1	340900	hgsc.bcm.edu	37	10	22498749	22498749	+	Missense_Mutation	SNP	A	A	T	rs2478476	bycluster;byhapmap;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	4	4	0	0	1	.	A|0.001;T|0.999	0.999	strong	.	.	.	.	NM_001199938	exon1	c.T164A	p.V55D	TCAATGACCTTAA	.	PASS	Atlas-SNP
CCDC87	55231	hgsc.bcm.edu	37	11	66359191	66359191	+	Silent	SNP	A	A	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	75	25	54	0	0.333333	0	.	.	none	.	CCDC87	83	.	NM_018219	exon1	c.T1296A	p.T432T	CTTCAAAGTAATG	.	PASS	Atlas-SNP
NEUROD1	4760	hgsc.bcm.edu	37	2	182543437	182543437	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	187	70	133	0	0.374332	0	.	.	none	NEUROD1,NS,carcinoma,0,1	NEUROD1	67	1	NM_002500	exon2	c.G151T	p.D51Y	GTGAGTCCTCCTC	.	PASS	Atlas-SNP
REL	5966	hgsc.bcm.edu	37	2	61147230	61147230	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	444	163	403	0	0.367117	0	.	.	none	.	REL	48	.	NM_002908	exon8	c.T908A	p.L303Q	AGAAACTGTGCCA	.	PASS	Atlas-SNP
GLTSCR1L	23506	hgsc.bcm.edu	37	6	42797411	42797411	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	89	46	73	0	0.516854	0	.	.	none	KIAA0240,NS,carcinoma,-1,1	.	.	1	NM_015349	exon5	c.A1340T	p.N447I	ACAGAAACTCTTC	.	PASS	Atlas-SNP
ANKHD1	54882	hgsc.bcm.edu	37	5	139917069	139917069	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	162	65	153	0	0.401235	0	.	.	none	.	ANKHD1	233	.	NM_017747	exon31	c.C7123T	p.R2375X	CTGGCCCGAATTC	.	PASS	Atlas-SNP
SDHA	6389	hgsc.bcm.edu	37	5	236617	236617	+	Silent	SNP	G	G	T	rs200223188	byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	443	6	317	4	0.013544	0.0126183	A|0.002;G|0.988;T|0.011	0.011	strong	SDHA,NS,carcinoma,0,1	SDHA	80	1	NM_004168	exon10	c.G1335T	p.S445S	TGCCTCGGTACAT	.	scavenged	Atlas-SNP
TRIM68	55128	hgsc.bcm.edu	37	11	4621978	4621978	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	202	3	212	0	0.0148515	0	.	.	none	TRIM68,NS,carcinoma,-1,1	TRIM68	53	1	NM_018073	exon7	c.A986G	p.D329G	TTGGTGTCTCCAT	.	scavenged	Atlas-SNP
SLC25A17	10478	hgsc.bcm.edu	37	22	41188619	41188619	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	161	38	150	0	0.236025	0	.	.	none	.	SLC25A17	25	.	NM_006358	exon4	c.T244G	p.Y82D	AGAAATAGACAAA	.	PASS	Atlas-SNP
PRKD1	5587	hgsc.bcm.edu	37	14	30046446	30046446	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	205	49	212	0	0.239024	0	.	.	none	.	PRKD1	316	.	NM_002742	exon18	c.T2737A	p.X913R	GAACTCAGAGGAT	.	PASS	Atlas-SNP
IDNK	414328	hgsc.bcm.edu	37	9	86258428	86258428	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	152	31	116	0	0.203947	0	.	.	none	C9orf103,colon,carcinoma,+2,1	.	.	1	NM_001001551	exon5	c.T297C	p.D99D	AAAAGATGGTGTA	.	PASS	Atlas-SNP
PON3	5446	hgsc.bcm.edu	37	7	95025645	95025645	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	47	9	72	0	0.191489	0	.	.	none	PON3,NS,carcinoma,-1,1	PON3	59	1	NM_000940	exon1	c.G18A	p.A6A	GACCAGCGCCACG	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79032516	79032516	+	Missense_Mutation	SNP	G	G	A	rs368525698	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	142	5	123	1	0.0352113	0.00813008	.	.	weak	CMYA5_ENST00000446378,caecum,carcinoma,+1,2	CMYA5	643	2	NM_153610	exon2	c.G7928A	p.R2643H	CTTGTCGTGATGA	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506387	195506387	+	Missense_Mutation	SNP	G	G	T	rs201542091	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	37	13	23	6	0.351351	0.26087	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.C12064A	p.P4022T	AGGAAGGGCTGGT	.	scavenged	Atlas-SNP
FLG2	388698	hgsc.bcm.edu	37	1	152325795	152325795	+	Silent	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	289	3	288	0	0.0103806	0	.	.	none	FLG2,colon,carcinoma,-1,1	FLG2	431	1	NM_001014342	exon3	c.A4467G	p.R1489R	GGACCCTCTCTGT	.	scavenged	Atlas-SNP
PRAMEF2	65122	hgsc.bcm.edu	37	1	12921387	12921387	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	607	8	592	13	0.0131796	0.0219595	.	.	none	PRAMEF2,extremity,malignant_melanoma,0,1	PRAMEF2	85	1	NM_023014	exon4	c.C1178T	p.A393V	TTGACGCCCTGAA	.	scavenged	Atlas-SNP
TBX18	9096	hgsc.bcm.edu	37	6	85466570	85466570	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	150	3	133	0	0.02	0	.	.	none	TBX18,colon,carcinoma,+1,4	TBX18	131	4	NM_001080508	exon4	c.C617A	p.S206X	CATTTCGAACTGT	.	scavenged	Atlas-SNP
POTEC	388468	hgsc.bcm.edu	37	18	14513764	14513764	+	Missense_Mutation	SNP	C	C	T	rs79575795		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	428	9	421	1	0.021028	0.0023753	.	.	weak	POTEC,NS,carcinoma,0,17	POTEC	129	17	NM_001137671	exon10	c.G1430A	p.R477Q	TGTTTCCGGGTAT	.	scavenged	Atlas-SNP
GRHPR	9380	hgsc.bcm.edu	37	9	37432011	37432011	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	136	2	116	0	0.0147059	0	.	.	none	GRHPR,rectum,carcinoma,+2,3	GRHPR	35	3	NM_012203	exon8	c.C741T	p.D247D	GGGCGACGTCGTA	.	scavenged	Atlas-SNP
TEP1	7011	hgsc.bcm.edu	37	14	20848107	20848107	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	106	2	107	0	0.0188679	0	.	.	none	TEP1,NS,carcinoma,0,1	TEP1	224	1	NM_007110	exon35	c.G5109A	p.L1703L	CAGGTCCAACAGG	.	scavenged	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28483809	28483809	+	Silent	SNP	G	G	A	rs149204675	bycluster;byfrequency;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	435	5	463	5	0.0114943	0.0107991	G|0.998;A|0.002	0.002	strong	HERC2,NS,carcinoma,0,1	HERC2	501	1	NM_004667	exon24	c.C3687T	p.D1229D	CTTCCCGTCAATC	.	scavenged	Atlas-SNP
CHRM2	1129	hgsc.bcm.edu	37	7	136700095	136700095	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	131	2	113	0	0.0152672	0	.	.	none	CHRM2,lower_third,carcinoma,+1,1	CHRM2	167	1	NM_001006632	exon3	c.C483T	p.F161F	TCTCTTCTGGCAG	.	scavenged	Atlas-SNP
EIF3D	8664	hgsc.bcm.edu	37	22	36907798	36907798	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	194	90	180	0	0.463918	0	.	.	none	.	EIF3D	37	.	NM_003753	exon14	c.G1385A	p.R462H	ACGTGGCGTGAGG	.	PASS	Atlas-SNP
LILRB1	10859	hgsc.bcm.edu	37	19	55148105	55148105	+	Splice_Site	SNP	T	T	A	rs201250339	byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	350	18	278	6	0.0514286	0.0215827	T|0.983;A|0.016	0.016	strong	LILRB1,NS,carcinoma,0,1	LILRB1	140	1	NM_006669	exon15	c.1806+2T>A	.	CTGAGGTGAGTCC	.	scavenged	Atlas-SNP
IL4R	3566	hgsc.bcm.edu	37	16	27373599	27373599	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	129	21	128	0	0.162791	0	.	.	none	.	IL4R	70	.	NM_000418	exon11	c.T926C	p.L309P	CCAAGCTCTTGCC	.	PASS	Atlas-SNP
STK35	140901	hgsc.bcm.edu	37	20	2083900	2083900	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	92	2	98	0	0.0217391	0	.	.	none	STK35,NS,carcinoma,-2,1	STK35	31	1	NM_080836	exon2	c.G781A	p.V261I	CAGAACGTCGTGC	.	scavenged	Atlas-SNP
TTPAL	79183	hgsc.bcm.edu	37	20	43113093	43113093	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	144	2	124	0	0.0138889	0	.	.	none	TTPAL,trunk,malignant_melanoma,0,1	TTPAL	31	1	NM_001039199	exon3	c.G562A	p.D188N	CTTGCAGACTACA	.	scavenged	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158592861	158592861	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	241	3	234	0	0.0124481	0	.	.	none	SPTA1,NS,carcinoma,+1,9	SPTA1	720	9	NM_003126	exon43	c.C6032A	p.A2011D	AGAGCGGCATAAC	.	scavenged	Atlas-SNP
ZNF101	94039	hgsc.bcm.edu	37	19	19790525	19790525	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	54	13	50	0	0.240741	0	.	.	none	.	ZNF101	43	.	NM_033204	exon4	c.C727T	p.H243Y	CAAATTCATGTTA	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50745677	50745677	+	Silent	SNP	T	T	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	128	3	108	5	0.0234375	0.0462963	.	.	none	FAM186A_ENST00000327337,rectum,carcinoma,0,4	FAM186A	181	4	NM_001145475	exon4	c.A4938T	p.A1646A	TCCCAGTGCCTGG	.	scavenged	Atlas-SNP
MYH6	4624	hgsc.bcm.edu	37	14	23865523	23865523	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	136	63	121	0	0.463235	0	.	.	none	MYH6,NS,carcinoma,-1,1	MYH6	274	1	NM_002471	exon20	c.G2399A	p.R800H	TCAATGCGCATGA	.	PASS	Atlas-SNP
XIRP2	129446	hgsc.bcm.edu	37	2	168107691	168107691	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	108	10	76	0	0.0925926	0	.	.	none	.	XIRP2	914	.	NM_152381	exon9	c.G9789T	p.R3263S	AATCAGGAAAGTG	.	PASS	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97869931	97869931	+	Missense_Mutation	SNP	A	A	T	rs76309140	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	35	4	49	0	0.114286	0	.	.	weak	ANKRD36_ENST00000420699,NS,carcinoma,0,14	ANKRD36	170	14	NM_001164315	exon50	c.A2992T	p.T998S	CAGGCTACAAGTG	.	scavenged	Atlas-SNP
PCDHB10	56126	hgsc.bcm.edu	37	5	140573649	140573649	+	Silent	SNP	G	G	A	rs61745573	byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	200	3	334	3	0.015	0.00898204	G|0.344;A|0.656	0.656	strong	PCDHB10,NS,carcinoma,+1,3	PCDHB10	177	3	NM_018930	exon1	c.G1524A	p.A508A	CAACGCGGACAAC	.	scavenged	Atlas-SNP
CDC42BPG	55561	hgsc.bcm.edu	37	11	64594201	64594201	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	16	10	49	0	0.625	0	.	.	none	.	CDC42BPG	101	.	NM_017525	exon35	c.G4455A	p.E1485E	CAACGCCTCGGAG	.	PASS	Atlas-SNP
NRXN1	9378	hgsc.bcm.edu	37	2	50724589	50724589	+	Silent	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	110	2	116	0	0.0181818	0	.	.	none	NRXN1_ENST00000536085,right_upper_lobe,carcinoma,+1,3	NRXN1	1118	3	NM_001135659	exon15	c.T2881C	p.L961L	CTTGCAAGGTAGC	.	scavenged	Atlas-SNP
FAM161A	84140	hgsc.bcm.edu	37	2	62081028	62081028	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	174	2	157	0	0.0114943	0	.	.	none	FAM161A_ENST00000405894,NS,carcinoma,-1,1	FAM161A	200	1	NM_032180	exon1	c.A149G	p.E50G	TCCTCCTCTTCGT	.	scavenged	Atlas-SNP
ECM1	1893	hgsc.bcm.edu	37	1	150484192	150484192	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	146	2	141	0	0.0136986	0	.	.	none	ECM1_ENST00000369049,NS,carcinoma,+1,2	ECM1	96	2	NM_001202858	exon7	c.G1049A	p.R350H	TGCCACGCAACCT	.	scavenged	Atlas-SNP
CHD4	1108	hgsc.bcm.edu	37	12	6710854	6710854	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	221	75	174	1	0.339367	0.00574713	.	.	none	CHD4_ENST00000357008,NS,malignant_melanoma,0,3	CHD4	539	3	NM_001273	exon5	c.C517T	p.R173X	GGGTTCGATAATC	.	scavenged	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60892438	60892438	+	Missense_Mutation	SNP	C	C	T	rs373181217		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	25	9	39	0	0.36	0	.	.	weak	.	LAMA5	268	.	NM_005560	exon55	c.G7474A	p.A2492T	GCTGTGCGTGGGC	.	PASS	Atlas-SNP
ZBTB21	49854	hgsc.bcm.edu	37	21	43411305	43411305	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	414	6	265	1	0.0144928	0.00377358	.	.	none	ZNF295,NS,lymphoid_neoplasm,0,1	.	.	1	NM_001098402	exon3	c.C2900T	p.S967L	TGTGCCGATTCCT	.	scavenged	Atlas-SNP
CCDC146	57639	hgsc.bcm.edu	37	7	76908080	76908080	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	107	2	94	0	0.0186916	0	.	.	none	CCDC146,NS,carcinoma,0,1	CCDC146	87	1	NM_020879	exon12	c.C1452T	p.T484T	ATACACCAACATT	.	scavenged	Atlas-SNP
RAB11FIP4	84440	hgsc.bcm.edu	37	17	29850575	29850575	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	268	6	217	0	0.0223881	0	.	.	none	RAB11FIP4,caecum,carcinoma,0,1	RAB11FIP4	65	1	NM_032932	exon8	c.C975T	p.T325T	CAGCACCGAAGAC	.	scavenged	Atlas-SNP
PDZD7	79955	hgsc.bcm.edu	37	10	102778029	102778029	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	110	45	122	0	0.409091	0	.	.	none	.	PDZD7	101	.	NM_001195263	exon9	c.A1349C	p.E450A	GACTTCTCCTTCT	.	PASS	Atlas-SNP
TRPS1	7227	hgsc.bcm.edu	37	8	116599566	116599566	+	Missense_Mutation	SNP	C	C	T	rs200408178	by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	113	2	87	0	0.0176991	0	C|1.000;T|0.000	0.000	strong	TRPS1_ENST00000395715,right_upper_lobe,carcinoma,+1,2	TRPS1	516	2	NM_014112	exon5	c.G2362A	p.G788R	TGAGCCCGTCCTT	.	scavenged	Atlas-SNP
ZSCAN32	54925	hgsc.bcm.edu	37	16	3434848	3434848	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	128	31	160	0	0.242188	0	.	.	none	.	.	.	.	NM_017810	exon5	c.A209G	p.Q70R	CTGTTCTGCTGAC	.	PASS	Atlas-SNP
NAP1L3	4675	hgsc.bcm.edu	37	X	92928107	92928107	+	Missense_Mutation	SNP	C	C	A	rs62635803	bycluster;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	68	14	59	0	0.205882	0	C|0.992;A|0.008	0.008	strong	.	NAP1L3	81	.	NM_004538	exon1	c.G197T	p.G66V	GTGCTGCCGCTGC	.	PASS	Atlas-SNP
SAP130	79595	hgsc.bcm.edu	37	2	128758026	128758026	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	86	20	77	0	0.232558	0	.	.	none	.	SAP130	169	.	NM_001145928	exon8	c.G950A	p.R317K	GTTGGCCTACTGA	.	PASS	Atlas-SNP
TNFAIP8	25816	hgsc.bcm.edu	37	5	118728686	118728686	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	170	54	149	0	0.317647	0	.	.	none	.	TNFAIP8	12	.	NM_014350	exon2	c.G207A	p.E69E	GGCAGAGAAGATC	.	PASS	Atlas-SNP
MYPN	84665	hgsc.bcm.edu	37	10	69959256	69959256	+	Silent	SNP	C	C	T	rs144488384	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	245	3	168	0	0.0122449	0	C|1.000;T|0.000	0.000	weak	MYPN,NS,carcinoma,0,1	MYPN	189	1	NM_032578	exon17	c.C3417T	p.R1139R	TCAGCGCGACGCA	.	scavenged	Atlas-SNP
LRRC15	131578	hgsc.bcm.edu	37	3	194080325	194080325	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	242	55	291	0	0.227273	0	.	.	none	.	LRRC15	137	.	NM_001135057	exon3	c.G1466C	p.S489T	GGGTAACTAGGCA	.	PASS	Atlas-SNP
ITPKB	3707	hgsc.bcm.edu	37	1	226924388	226924388	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	134	62	110	0	0.462687	0	.	.	none	.	ITPKB	158	.	NM_002221	exon2	c.G772C	p.E258Q	CCTTCTCCATCCT	.	PASS	Atlas-SNP
ZYG11B	79699	hgsc.bcm.edu	37	1	53237431	53237431	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	157	2	152	0	0.0127389	0	.	.	none	ZYG11B,NS,carcinoma,0,1	ZYG11B	61	1	NM_024646	exon3	c.C936T	p.G312G	CACAGGCGAAGGA	.	scavenged	Atlas-SNP
TIAM2	26230	hgsc.bcm.edu	37	6	155577707	155577707	+	Missense_Mutation	SNP	G	G	A	rs116807909	bycluster;byfrequency;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	183	85	175	0	0.464481	0	G|0.998;A|0.002	0.002	strong	.	TIAM2	161	.	NM_012454	exon26	c.G4558A	p.E1520K	TCTGACGAGGGCA	.	PASS	Atlas-SNP
CELA3B	23436	hgsc.bcm.edu	37	1	22304901	22304901	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	239	45	232	0	0.188285	0	.	.	none	.	CELA3B	24	.	NM_007352	exon2	c.G83A	p.R28H	CCAGCCGCGTTGT	.	PASS	Atlas-SNP
CCDC64	92558	hgsc.bcm.edu	37	12	120518805	120518805	+	Missense_Mutation	SNP	G	G	A	rs373363052		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	29	9	33	0	0.310345	0	.	.	weak	.	CCDC64	40	.	NM_207311	exon7	c.G1423A	p.D475N	GACCGCGACGAGG	.	PASS	Atlas-SNP
CYB5B	80777	hgsc.bcm.edu	37	16	69496394	69496394	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	149	2	149	0	0.0134228	0	.	.	none	CYB5B,NS,carcinoma,-1,1	CYB5B	12	1	NM_030579	exon5	c.T424C	p.Y142H	TACCGCTACTACA	.	scavenged	Atlas-SNP
NSRP1	84081	hgsc.bcm.edu	37	17	28511766	28511766	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	207	3	171	0	0.0144928	0	.	.	none	NSRP1,lower_third,carcinoma,0,1	NSRP1	49	1	NM_032141	exon7	c.G751A	p.D251N	GACTTCGATGCTA	.	scavenged	Atlas-SNP
KCNK1	3775	hgsc.bcm.edu	37	1	233802348	233802348	+	Silent	SNP	C	C	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	230	108	239	0	0.469565	0	.	.	none	KCNK1,colon,carcinoma,+1,1	KCNK1	36	1	NM_002245	exon2	c.C363G	p.G121G	TTATGGCCACACC	.	PASS	Atlas-SNP
MAML3	55534	hgsc.bcm.edu	37	4	140811099	140811099	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	94	4	86	2	0.0425532	0.0232558	.	.	none	MAML3_ENST00000509479,caecum,carcinoma,0,12	MAML3	192	12	NM_018717	exon2	c.G1491A	p.Q497Q	CTGCTGCTGCTGC	.	scavenged	Atlas-SNP
PRKD1	5587	hgsc.bcm.edu	37	14	30046591	30046591	+	Silent	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	189	37	199	0	0.195767	0	.	.	none	.	PRKD1	316	.	NM_002742	exon18	c.T2592C	p.S864S	GTCATCACTTTCA	.	PASS	Atlas-SNP
AFF1	4299	hgsc.bcm.edu	37	4	88026962	88026962	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	185	2	189	0	0.0108108	0	.	.	none	AFF1_ENST00000395146,NS,carcinoma,+1,1	AFF1	102	1	NM_001166693	exon10	c.C1341T	p.T447T	CTAGACCCCAGAG	.	scavenged	Atlas-SNP
ZNF816	125893	hgsc.bcm.edu	37	19	53456125	53456125	+	Silent	SNP	G	G	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	49	14	43	0	0.285714	0	.	.	none	.	ZNF816	73	.	NM_001202457	exon3	c.C69G	p.R23R	AGTCAAGCGTCCC	.	PASS	Atlas-SNP
SKP1	6500	hgsc.bcm.edu	37	5	133494195	133494195	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	132	45	145	1	0.340909	0.00689655	.	.	none	SKP1,colon,carcinoma,-1,1	SKP1	10	1	NM_170679	exon5	c.G407A	p.R136H	GTCTTGCGAATCT	.	scavenged	Atlas-SNP
ZBTB17	7709	hgsc.bcm.edu	37	1	16274938	16274938	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	134	3	140	1	0.0223881	0.00714286	.	.	none	ZBTB17,NS,carcinoma,0,1	ZBTB17	45	1	NM_003443	exon3	c.G53A	p.R18Q	AGCTGCCGCTGCT	.	scavenged	Atlas-SNP
LAP3	51056	hgsc.bcm.edu	37	4	17606285	17606285	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	107	39	114	0	0.364486	0	.	.	none	.	LAP3	50	.	NM_015907	exon11	c.T1255C	p.F419L	AAACTCTTCGAGG	.	PASS	Atlas-SNP
NLRX1	79671	hgsc.bcm.edu	37	11	119045894	119045894	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	125	5	130	0	0.04	0	.	.	none	.	NLRX1	128	.	NM_024618	exon6	c.C1582T	p.R528C	GTGGGCCGTGTTG	.	PASS	Atlas-SNP
PPP1R42	286187	hgsc.bcm.edu	37	8	67922976	67922976	+	Missense_Mutation	SNP	C	C	T	rs200466525	by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	63	20	83	0	0.31746	0	C|1.000;T|0.000	0.000	strong	.	PPP1R42	2	.	NM_001013626	exon5	c.G526A	p.V176I	TGTCAACGGCTAT	.	PASS	Atlas-SNP
CEP170	9859	hgsc.bcm.edu	37	1	243328077	243328077	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	368	5	312	1	0.013587	0.00320513	.	.	none	CEP170_ENST00000366543,NS,carcinoma,+1,2	CEP170	153	2	NM_014812	exon13	c.A3185G	p.E1062G	ACATGCTCATCAG	.	scavenged	Atlas-SNP
RPL3	6122	hgsc.bcm.edu	37	22	39714450	39714450	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	90	21	70	0	0.233333	0	.	.	none	.	RPL3	29	.	NM_001033853	exon2	c.G151A	p.A51T	TGCCAGCCTTGTA	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092929	1092929	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	105	9	111	1	0.0857143	0.00900901	.	.	none	MUC2_ENST00000441003,rectum,carcinoma,+1,4	MUC2	614	4	NM_002457	exon30	c.C4748T	p.S1583L	CAACATCGACACC	.	scavenged	Atlas-SNP
APOBEC3A	200315	hgsc.bcm.edu	37	22	39357649	39357649	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	120	2	117	0	0.0166667	0	.	.	none	APOBEC3A,lower_third,carcinoma,+2,1	APOBEC3A	20	1	NM_145699	exon3	c.G432A	p.R144R	GCTGCGGGATGCT	.	scavenged	Atlas-SNP
MYH2	4620	hgsc.bcm.edu	37	17	10428646	10428646	+	Silent	SNP	C	C	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	125	2	117	0	0.016	0	.	.	none	MYH2,NS,carcinoma,0,2	MYH2	390	2	NM_017534	exon33	c.G4557T	p.T1519T	CTGTTCCGTGAGG	.	scavenged	Atlas-SNP
SOCS1	8651	hgsc.bcm.edu	37	16	11349329	11349329	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	12	8	16	2	0.666667	0.125	.	.	none	SOCS1,NS,lymphoid_neoplasm,0,2	SOCS1	84	2	NM_003745	exon2	c.G7A	p.A3T	TGTGTGCTACCAT	.	scavenged	Atlas-SNP
FBXL6	26233	hgsc.bcm.edu	37	8	145579962	145579962	+	Missense_Mutation	SNP	C	C	T	rs77494279	bycluster;byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	75	8	62	2	0.106667	0.0322581	C|0.932;T|0.068	0.068	strong	FBXL6,colon,carcinoma,0,1	FBXL6	26	1	NM_012162	exon7	c.G1223A	p.R408Q	TGACCCCGACATG	.	scavenged	Atlas-SNP
CACNB2	783	hgsc.bcm.edu	37	10	18795465	18795465	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	95	3	99	0	0.0315789	0	.	.	none	CACNB2_ENST00000377329,NS,carcinoma,0,3	CACNB2	220	3	NM_201597	exon6	c.C659T	p.P220L	CAACACCTCCATC	.	scavenged	Atlas-SNP
PCDHB1	29930	hgsc.bcm.edu	37	5	140432615	140432615	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	143	62	94	0	0.433566	0	.	.	none	.	PCDHB1	148	.	NM_013340	exon1	c.G1560A	p.M520I	AACCATGGATTAT	.	PASS	Atlas-SNP
SIRPA	140885	hgsc.bcm.edu	37	20	1895965	1895965	+	Missense_Mutation	SNP	C	C	A	rs17855614	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	387	37	360	19	0.0956072	0.0527778	.	.	weak	SIRPA,brain,glioma,0,4	SIRPA	83	4	NM_001040022	exon3	c.C300A	p.N100K	GAGAAACAACATG	.	scavenged	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	29498090	29498090	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	209	3	165	0	0.0143541	0	.	.	none	ALK,NS,carcinoma,+1,1	ALK	533	1	NM_004304	exon11	c.G1916A	p.S639N	TCTCCGCTAACTG	.	scavenged	Atlas-SNP
PPP2R5B	5526	hgsc.bcm.edu	37	11	64699058	64699058	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	47	25	40	0	0.531915	0	.	.	none	.	PPP2R5B	47	.	NM_006244	exon10	c.C973T	p.P325S	TACTGGCCAAAAA	.	PASS	Atlas-SNP
PLA2G4C	8605	hgsc.bcm.edu	37	19	48558246	48558246	+	Missense_Mutation	SNP	C	C	T	rs370150895		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	145	77	138	0	0.531034	0	.	.	weak	.	PLA2G4C	76	.	NM_001159322	exon15	c.G1348A	p.E450K	CAGCCTCTTCTAC	.	PASS	Atlas-SNP
FNBP4	23360	hgsc.bcm.edu	37	11	47744591	47744591	+	Silent	SNP	A	A	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	53	4	48	0	0.0754717	0	.	.	none	FNBP4,NS,carcinoma,0,1	FNBP4	99	1	NM_015308	exon15	c.T2742A	p.P914P	TGGTGGAGGAGGA	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49427679	49427679	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	44	3	54	0	0.0681818	0	.	.	none	MLL2_ENST00000301067,NS,carcinoma,0,2	MLL2	1173	2	NM_003482	exon39	c.G10809A	p.Q3603Q	CTGCTGCTGTTGT	.	scavenged	Atlas-SNP
UNC45B	146862	hgsc.bcm.edu	37	17	33504529	33504529	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	101	41	83	0	0.405941	0	.	.	none	UNC45B,NS,carcinoma,-1,2	UNC45B	133	2	NM_173167	exon17	c.C2161T	p.R721W	GTGGTGCGGCCCC	.	PASS	Atlas-SNP
PRB2	653247	hgsc.bcm.edu	37	12	11546598	11546598	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	334	6	261	2	0.0179641	0.00766284	.	.	none	PRB2_ENST00000389362,NS,carcinoma,0,2	PRB2	168	2	NM_006248	exon3	c.G414A	p.K138K	TTGTGGCTTTCCT	.	scavenged	Atlas-SNP
ZNF175	7728	hgsc.bcm.edu	37	19	52084729	52084729	+	Missense_Mutation	SNP	G	G	A	rs200667551	bycluster;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	232	3	182	0	0.012931	0	A|0.000;G|1.000	0.000	strong	ZNF175,colon,carcinoma,+1,1	ZNF175	65	1	NM_007147	exon3	c.G158A	p.R53Q	TGTACCGGGATGT	.	scavenged	Atlas-SNP
DMGDH	29958	hgsc.bcm.edu	37	5	78359591	78359591	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	265	4	185	0	0.0150943	0	.	.	none	DMGDH,rectum,carcinoma,+1,1	DMGDH	88	1	NM_013391	exon2	c.T121C	p.S41P	CTGCAGATAAGGG	.	scavenged	Atlas-SNP
AR	367	hgsc.bcm.edu	37	X	66905872	66905872	+	Missense_Mutation	SNP	G	G	A	rs137852569		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	59	4	60	0	0.0677966	0	.	.	weak	.	AR	249	.	NM_000044	exon3	c.G1789A	p.A597T	CTGTGCGCCAGCA	.	PASS	Atlas-SNP
SEMG1	6406	hgsc.bcm.edu	37	20	43837052	43837052	+	Missense_Mutation	SNP	C	C	A	rs199672858	by1000genomes;alternate_allele	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	203	3	174	0	0.0147783	0	C|1.000;T|0.000	.	alt	SEMG1,bladder,carcinoma,0,3	SEMG1	71	3	NM_003007	exon2	c.C1114A	p.R372S	TCCCAACGCAGTA	.	scavenged	Atlas-SNP
PRAMEF11	440560	hgsc.bcm.edu	37	1	12887174	12887174	+	Missense_Mutation	SNP	C	C	T	rs75703556		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	16	3	21	1	0.1875	0.047619	C|0.833;T|0.167	0.167	weak	PRAMEF11,extremity,malignant_melanoma,0,1	PRAMEF11	72	1	NM_001146344	exon3	c.G683A	p.R228H	AGGCAGCGCAGCT	.	scavenged	Atlas-SNP
BEST3	144453	hgsc.bcm.edu	37	12	70087575	70087575	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	162	60	138	0	0.37037	0	.	.	none	.	BEST3	129	.	NM_032735	exon4	c.C360T	p.H120H	GCGCCCGTGCTCG	.	PASS	Atlas-SNP
KAT6A	7994	hgsc.bcm.edu	37	8	41790513	41790513	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	148	2	101	1	0.0135135	0.00990099	.	.	none	MYST3,NS,carcinoma,+1,1	.	.	1	NM_001099412	exon18	c.G5225T	p.G1742V	TAGCTGCCGGCAC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509843	195509843	+	Missense_Mutation	SNP	C	C	T	rs200739317	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	283	14	291	3	0.04947	0.0103093	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G8608A	p.A2870T	AGGAAGCGTCGGT	.	scavenged	Atlas-SNP
DACH1	1602	hgsc.bcm.edu	37	13	72440219	72440219	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	133	66	149	0	0.496241	0	.	.	none	.	DACH1	123	.	NM_080759	exon1	c.C689G	p.T230R	TAGACCGTATGCA	.	PASS	Atlas-SNP
HIST1H1C	3006	hgsc.bcm.edu	37	6	26056385	26056385	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	188	87	171	0	0.462766	0	.	.	none	.	HIST1H1C	80	.	NM_005319	exon1	c.G272A	p.G91D	AGAGTGCCCTTGC	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144856817	144856817	+	Missense_Mutation	SNP	T	T	C	rs3844239	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	172	14	176	11	0.0813954	0.0625	.	.	weak	PDE4DIP_ENST00000369356,caecum,carcinoma,0,4	PDE4DIP	817	4	NM_014644	exon40	c.A6668G	p.E2223G	ATTACCTCTGTGC	.	scavenged	Atlas-SNP
CYP2C19	1557	hgsc.bcm.edu	37	10	96580331	96580331	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	102	30	103	0	0.294118	0	.	.	none	.	CYP2C19	88	.	NM_000769	exon6	c.G898A	p.E300K	GGGACAGAGACAA	.	PASS	Atlas-SNP
PMPCA	23203	hgsc.bcm.edu	37	9	139306549	139306549	+	Missense_Mutation	SNP	A	A	G	rs367845329		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	288	72	268	0	0.25	0	.	.	weak	.	PMPCA	29	.	NM_015160	exon2	c.A172G	p.T58A	TTTGCTACAGTTG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9002597	9002597	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	197	12	194	9	0.0609137	0.0463918	.	.	none	MUC16_ENST00000397910,NS,lymphoid_neoplasm,0,2	MUC16	4315	2	NM_024690	exon51	c.G40219A	p.D13407N	CTCTGTCCAGTCC	.	scavenged	Atlas-SNP
KRT8	3856	hgsc.bcm.edu	37	12	53298675	53298675	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	98	5	86	0	0.0510204	0	.	.	none	KRT8,NS,carcinoma,0,5	KRT8	41	5	NM_001256282	exon2	c.T175G	p.S59A	TGCGGGAACCGGG	.	scavenged	Atlas-SNP
CTR9	9646	hgsc.bcm.edu	37	11	10777233	10777233	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	116	48	139	0	0.413793	0	.	.	none	.	CTR9	94	.	NM_014633	exon4	c.G393T	p.L131F	CCATTTGTTGGGA	.	PASS	Atlas-SNP
CLMN	79789	hgsc.bcm.edu	37	14	95669923	95669923	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	153	3	190	1	0.0196078	0.00526316	.	.	none	CLMN,NS,carcinoma,-1,2	CLMN	103	2	NM_024734	exon9	c.A1763G	p.E588G	TTTGTCTCATGAG	.	scavenged	Atlas-SNP
PRADC1	84279	hgsc.bcm.edu	37	2	73455927	73455927	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	96	2	48	0	0.0208333	0	.	.	none	PRADC1,NS,carcinoma,+2,1	PRADC1	15	1	NM_032319	exon4	c.G442A	p.D148N	ACCCGTCTCGGCC	.	scavenged	Atlas-SNP
OPN1LW	5956	hgsc.bcm.edu	37	X	153421999	153421999	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	464	71	409	0	0.153017	0	.	.	none	.	OPN1LW	87	.	NM_020061	exon5	c.G975A	p.M325I	CTTTATGAACCGG	.	PASS	Atlas-SNP
SERINC3	10955	hgsc.bcm.edu	37	20	43129937	43129937	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	103	50	78	0	0.485437	0	.	.	none	.	SERINC3	42	.	NM_006811	exon9	c.C1060T	p.R354C	AAGTGCGGATGCT	.	PASS	Atlas-SNP
GTF2H5	404672	hgsc.bcm.edu	37	6	158613139	158613139	+	Nonsense_Mutation	SNP	C	C	T	rs121434364		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	173	87	201	0	0.50289	0	.	.	weak	.	GTF2H5	1	.	NM_207118	exon3	c.C166T	p.R56X	CAGGAGCGAGTGG	.	PASS	Atlas-SNP
CLTCL1	8218	hgsc.bcm.edu	37	22	19217421	19217421	+	Silent	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	65	2	69	0	0.0307692	0	.	.	none	CLTCL1,caecum,adenoma,-2,1	CLTCL1	115	1	NM_001835	exon11	c.C1722A	p.R574R	AGCTGGGCGATTA	.	scavenged	Atlas-SNP
ARHGAP35	2909	hgsc.bcm.edu	37	19	47424847	47424847	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	132	3	81	1	0.0227273	0.0123457	.	.	none	GRLF1_ENST00000317082,NS,carcinoma,+1,1	.	.	1	NM_004491	exon1	c.G2915A	p.R972Q	CCCCCCGGGCAGG	.	scavenged	Atlas-SNP
CYP1A2	1544	hgsc.bcm.edu	37	15	75042485	75042485	+	Missense_Mutation	SNP	C	C	A	rs368187861	alternate_allele	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	68	2	70	1	0.0294118	0.0142857	.	.	alt	CYP1A2,NS,carcinoma,-1,1	CYP1A2	70	1	NM_000761	exon2	c.C406A	p.R136S	GCTGCCCGCCGGC	.	scavenged	Atlas-SNP
LURAP1L	286343	hgsc.bcm.edu	37	9	12775880	12775880	+	Missense_Mutation	SNP	T	T	G	rs201963967	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	14	3	6	0	0.214286	0	.	.	weak	C9orf150,caecum,carcinoma,0,3	.	.	3	NM_203403	exon1	c.T166G	p.C56G	GGCGGCTGCAGTA	.	scavenged	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17086183	17086183	+	Splice_Site	SNP	T	T	G	rs61769735	bycluster;byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	197	21	235	28	0.106599	0.119149	T|0.988;G|0.011	0.011	strong	Q13209_HUMAN,NS,carcinoma,0,6	.	.	6	NM_001271733	exon8	c.716-2A>C	.	GGACCCTTAGATG	.	scavenged	Atlas-SNP
CCSER1	401145	hgsc.bcm.edu	37	4	91321217	91321217	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	182	3	181	0	0.0164835	0	.	.	none	FAM190A_ENST00000509176,NS,carcinoma,-2,3	.	.	3	NM_001145065	exon4	c.C1540T	p.L514L	TGTGAACTGGATG	.	scavenged	Atlas-SNP
DTD2	112487	hgsc.bcm.edu	37	14	31926584	31926584	+	Missense_Mutation	SNP	G	G	A	rs3087952		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	48	8	129	0	0.166667	0	.	.	weak	C14orf126,third_ventricle,glioma,0,2	.	.	2	NM_080664	exon1	c.C16T	p.R6W	GAATCCGGCTACC	.	scavenged	Atlas-SNP
APOBEC3F	200316	hgsc.bcm.edu	37	22	39441197	39441197	+	Silent	SNP	G	G	A	rs200983508	byfrequency	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	143	5	133	5	0.034965	0.037594	G|0.998;A|0.002	0.002	strong	APOBEC3F,NS,carcinoma,0,1	APOBEC3F	37	1	NM_145298	exon3	c.G423A	p.G141G	GGCAGGGGCCCGC	.	scavenged	Atlas-SNP
RBPJL	11317	hgsc.bcm.edu	37	20	43944983	43944983	+	Splice_Site	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	125	2	85	0	0.016	0	.	.	none	RBPJL,right_lower_lobe,carcinoma,0,1	RBPJL	67	1	NM_014276	exon10	c.1176+1G>A	.	CTAGAGGTGAAGC	.	scavenged	Atlas-SNP
TRPC4AP	26133	hgsc.bcm.edu	37	20	33595429	33595429	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	157	2	111	0	0.0127389	0	.	.	none	TRPC4AP,NS,carcinoma,0,1	TRPC4AP	64	1	NM_015638	exon14	c.G1610A	p.R537Q	ACAGCCCGAGCTT	.	scavenged	Atlas-SNP
SI	6476	hgsc.bcm.edu	37	3	164783107	164783107	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	162	2	199	0	0.0123457	0	.	.	none	SI,colon,carcinoma,-1,3	SI	500	3	NM_001041	exon7	c.G749A	p.R250H	TCATGACGAAATC	.	scavenged	Atlas-SNP
CYP2D6	1565	hgsc.bcm.edu	37	22	42523539	42523539	+	Silent	SNP	A	A	G	rs28371726	bycluster;byfrequency;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	169	6	219	3	0.035503	0.0136986	A|0.959;G|0.041	0.041	strong	CYP2D6_ENST00000360608,NS,carcinoma,0,4	CYP2D6	104	4	NM_000106	exon7	c.T1083C	p.H361H	CACCTCATGAATC	.	scavenged	Atlas-SNP
ABCA3	21	hgsc.bcm.edu	37	16	2338028	2338028	+	Silent	SNP	G	G	A	rs76519389	bycluster;byfrequency;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	20	8	27	0	0.4	0	G|1.000;A|0.000	0.000	strong	.	ABCA3	176	.	NM_001089	exon21	c.C3003T	p.L1001L	CTTACCGAGCACC	.	PASS	Atlas-SNP
NKAIN2	154215	hgsc.bcm.edu	37	6	124676480	124676480	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	234	116	283	0	0.495726	0	.	.	none	.	NKAIN2	34	.	NM_153355	exon3	c.G260C	p.G87A	AGGCTGGGGACCT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9067987	9067987	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	165	4	142	0	0.0242424	0	.	.	none	MUC16_ENST00000397910,NS,carcinoma,+2,3	MUC16	4315	3	NM_024690	exon3	c.T19459C	p.S6487P	GAGTGGACAAATC	.	scavenged	Atlas-SNP
NLRP5	126206	hgsc.bcm.edu	37	19	56572873	56572873	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	163	3	141	0	0.0184049	0	.	.	none	NLRP5_ENST00000390649,NS,carcinoma,+1,1	NLRP5	217	1	NM_153447	exon15	c.C3582T	p.D1194D	AGATGACCGGTAC	.	scavenged	Atlas-SNP
SEC22C	9117	hgsc.bcm.edu	37	3	42610481	42610481	+	Missense_Mutation	SNP	C	C	G	rs141431943	alternate_allele	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	168	30	178	0	0.178571	0	C|1.000;T|0.000	.	alt	.	SEC22C	27	.	NM_001201584	exon2	c.G58C	p.A20P	TAGAGGCTGAGAG	.	PASS	Atlas-SNP
USP17L10	100287144	hgsc.bcm.edu	37	4	9212697	9212697	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	19	10	20	0	0.526316	0	.	.	none	.	.	.	.	NM_001256852	exon1	c.C315T	p.A105A	ACTTGCCAACTAC	.	PASS	Atlas-SNP
CCR8	1237	hgsc.bcm.edu	37	3	39374673	39374673	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	220	3	197	0	0.0136364	0	.	.	none	CCR8,NS,carcinoma,+1,1	CCR8	34	1	NM_005201	exon2	c.T851C	p.V284A	CCCATGTCACAGA	.	scavenged	Atlas-SNP
HTR1F	3355	hgsc.bcm.edu	37	3	88040116	88040116	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	205	3	208	0	0.0146341	0	.	.	none	HTR1F,NS,carcinoma,-1,1	HTR1F	66	1	NM_000866	exon2	c.G217A	p.A73T	CTTGTGGCTGTCC	.	scavenged	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97790211	97790211	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	202	5	266	4	0.0247525	0.0150376	.	.	none	ANKRD36_ENST00000420699,extremity,malignant_melanoma,0,2	ANKRD36	170	2	NM_001164315	exon5	c.A608T	p.H203L	TCATACATGCTGT	.	scavenged	Atlas-SNP
SH3GL3	6457	hgsc.bcm.edu	37	15	84287010	84287010	+	Missense_Mutation	SNP	G	G	A	rs376114446		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	80	14	79	0	0.175	0	.	.	weak	SH3GL3_ENST00000427482,NS,carcinoma,0,2	SH3GL3	91	2	NM_003027	exon9	c.G1015A	p.V339M	AATTACGTGGAAG	.	PASS	Atlas-SNP
IQCA1	79781	hgsc.bcm.edu	37	2	237374287	237374287	+	Missense_Mutation	SNP	G	G	A	rs35814876	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	255	40	202	1	0.156863	0.00495049	G|0.986;A|0.014	0.014	weak	IQCA1_ENST00000409907,NS,carcinoma,+1,4	IQCA1	170	4	NM_001270585	exon6	c.C808T	p.R270W	CATTCCGCAGGCG	.	scavenged	Atlas-SNP
CA10	56934	hgsc.bcm.edu	37	17	49713329	49713329	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	93	4	97	0	0.0430108	0	.	.	none	.	CA10	84	.	NM_001082534	exon8	c.T676C	p.Y226H	CTGGATATAGTTC	.	PASS	Atlas-SNP
RHOJ	57381	hgsc.bcm.edu	37	14	63757685	63757685	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	113	2	140	0	0.0176991	0	.	.	none	RHOJ,NS,malignant_melanoma,+2,1	RHOJ	45	1	NM_020663	exon5	c.C588T	p.H196H	TTTCCACCCCAAG	.	scavenged	Atlas-SNP
UGT1A6	54578	hgsc.bcm.edu	37	2	234601918	234601918	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	161	2	109	0	0.0124224	0	.	.	none	UGT1A6,colon,carcinoma,-1,1	UGT1A6	63	1	NM_001072	exon1	c.C268A	p.R90S	AAGAACCGTTACC	.	scavenged	Atlas-SNP
SEMA6D	80031	hgsc.bcm.edu	37	15	48063877	48063877	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	146	8	146	0	0.0547945	0	.	.	none	.	SEMA6D	322	.	NM_153618	exon19	c.G3117A	p.R1039R	TCCTAGGACGGGA	.	PASS	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190878551	190878551	+	Splice_Site	SNP	A	A	G	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	227	2	220	0	0.00881057	0	.	.	none	FRG1,NS,malignant_melanoma,0,1	FRG1	76	1	NM_004477	exon6	c.433-2A>G	.	TCACTTAGGGGAA	.	scavenged	Atlas-SNP
MED13L	23389	hgsc.bcm.edu	37	12	116413345	116413345	+	Missense_Mutation	SNP	C	C	T	rs182752795	bycluster;by1000genomes	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	169	3	134	0	0.0177515	0	C|1.000;T|0.000	0.000	strong	MED13L,colon,carcinoma,0,1	MED13L	193	1	NM_015335	exon24	c.G5563A	p.V1855I	TTACAACGCAGGT	.	scavenged	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238930	31238930	+	Missense_Mutation	SNP	A	A	T	rs79636386	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	210	7	278	5	0.0333333	0.0179856	T|0.001;C|0.301;A|0.698	0.001	weak	HLA-C_ENST00000383329,NS,carcinoma,0,2	HLA-C	92	2	NM_002117	exon3	c.T539A	p.L180Q	GCTCTCAGCTGCT	.	scavenged	Atlas-SNP
DBC1	1620	hgsc.bcm.edu	37	9	121929513	121929513	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	226	79	189	0	0.349558	0	.	.	none	DBC1,rectum,carcinoma,0,4	DBC1	194	4	NM_014618	exon8	c.C2135T	p.P712L	TTCCCCGGGGCCA	.	PASS	Atlas-SNP
NELL2	4753	hgsc.bcm.edu	37	12	44915940	44915940	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	64	3	52	0	0.046875	0	.	.	none	NELL2_ENST00000437801,colon,carcinoma,-1,2	NELL2	286	2	NM_001145107	exon19	c.G2168A	p.R723Q	ATCCGTCGACACA	.	scavenged	Atlas-SNP
ACN9	57001	hgsc.bcm.edu	37	7	96810429	96810429	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	365	4	322	0	0.0109589	0	.	.	none	ACN9,NS,malignant_melanoma,0,1	ACN9	19	1	NM_020186	exon2	c.C280T	p.R94C	GACTTTCGTGATG	.	scavenged	Atlas-SNP
CUX1	1523	hgsc.bcm.edu	37	7	101845432	101845432	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	96	4	125	0	0.0416667	0	.	.	none	.	CUX1	253	.	NM_001202543	exon18	c.T2888C	p.V963A	GGCAGGTTAAGGA	.	PASS	Atlas-SNP
KDM4C	23081	hgsc.bcm.edu	37	9	6880041	6880041	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	124	2	93	0	0.016129	0	.	.	none	KDM4C_ENST00000381306,colon,carcinoma,+1,4	KDM4C	186	4	NM_001146696	exon6	c.G725T	p.R242L	GAAAACGACTTGA	.	scavenged	Atlas-SNP
SEH1L	81929	hgsc.bcm.edu	37	18	12955467	12955467	+	Silent	SNP	T	T	C	rs2015378		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	185	9	201	1	0.0486486	0.00497512	.	.	weak	SEH1L,NS,carcinoma,0,3	SEH1L	33	3	NM_001013437	exon3	c.T168C	p.H56H	GACACATAGTGGA	.	scavenged	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124395178	124395178	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	93	2	92	0	0.0215054	0	.	.	none	DNAH10_same_name,NS,carcinoma,-2,2	DNAH10	888	2	NM_207437	exon58	c.T9739C	p.Y3247H	ATGGGCTACTGTG	.	scavenged	Atlas-SNP
GRN	2896	hgsc.bcm.edu	37	17	42430050	42430050	+	Missense_Mutation	SNP	C	C	T	rs63750116		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	62	30	51	0	0.483871	0	.	.	weak	.	GRN	51	.	NM_002087	exon13	c.C1666T	p.R556C	GATCGGCGCCACT	.	PASS	Atlas-SNP
TSKS	60385	hgsc.bcm.edu	37	19	50251699	50251699	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	256	4	177	0	0.015625	0	.	.	none	TSKS,NS,carcinoma,0,1	TSKS	97	1	NM_021733	exon3	c.G427A	p.A143T	CTTTGGCGCGGAC	.	scavenged	Atlas-SNP
TNN	63923	hgsc.bcm.edu	37	1	175097789	175097789	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	190	2	160	0	0.0105263	0	.	.	none	TNN,NS,carcinoma,+2,1	TNN	297	1	NM_022093	exon15	c.C3237T	p.A1079A	CAATGCCGCCAGT	.	scavenged	Atlas-SNP
D2HGDH	728294	hgsc.bcm.edu	37	2	242681924	242681924	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	395	6	309	1	0.0151899	0.00323625	.	.	none	D2HGDH,NS,carcinoma,+1,1	D2HGDH	39	1	NM_152783	exon4	c.T425C	p.V142A	TCCCCGTCTTTGA	.	scavenged	Atlas-SNP
CHTF18	63922	hgsc.bcm.edu	37	16	840179	840179	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	91	23	108	0	0.252747	0	.	.	none	.	CHTF18	52	.	NM_022092	exon5	c.C609T	p.G203G	ACAGGGCTCTCTC	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29885567	29885567	+	Silent	SNP	A	A	C	rs75808076	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	72	17	67	0	0.236111	0	.	.	weak	NEFH,rectum,carcinoma,0,1	NEFH	178	1	NM_021076	exon4	c.A1938C	p.A646A	GGAAGCAAAGTCC	.	PASS	Atlas-SNP
ADAMTS12	81792	hgsc.bcm.edu	37	5	33576895	33576895	+	Missense_Mutation	SNP	C	C	T	rs202204545		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	214	4	140	1	0.0186916	0.00714286	.	.	weak	ADAMTS12,NS,carcinoma,-1,1	ADAMTS12	464	1	NM_030955	exon19	c.G3236A	p.R1079H	AGATAGCGAGAGC	.	scavenged	Atlas-SNP
SIRPA	140885	hgsc.bcm.edu	37	20	1895963	1895963	+	Missense_Mutation	SNP	A	A	G	rs17855613	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	389	38	363	20	0.0976864	0.0550964	.	.	weak	SIRPA,brain,glioma,-2,4	SIRPA	83	4	NM_001040022	exon3	c.A298G	p.N100D	AAGAGAAACAACA	.	scavenged	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88537081	88537081	+	Silent	SNP	C	C	T	rs370267258		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	57	13	10	0	0.22807	0	.	.	weak	.	DSPP	174	.	NM_014208	exon5	c.C3267T	p.D1089D	CAGTGACAGCAGC	.	PASS	Atlas-SNP
WDR78	79819	hgsc.bcm.edu	37	1	67299296	67299296	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	199	2	192	1	0.0100503	0.00520833	.	.	none	WDR78,face,carcinoma,-1,1	WDR78	102	1	NM_024763	exon13	c.C1985A	p.P662H	ATTCCAGGAGCCT	.	scavenged	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88537123	88537123	+	Silent	SNP	C	C	T	rs372453629		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	49	44	31	18	0.897959	0.580645	.	.	weak	DSPP,NS,carcinoma,0,2	DSPP	174	2	NM_014208	exon5	c.C3309T	p.S1103S	CAGCAGCGACAGC	.	scavenged	Atlas-SNP
PITX2	5308	hgsc.bcm.edu	37	4	111539469	111539469	+	Missense_Mutation	SNP	C	C	T	rs149181425	alternate_allele	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	162	40	146	0	0.246914	0	C|1.000;A|0.000	.	alt	.	PITX2	73	.	NM_000325	exon3	c.G787A	p.A263T	GCACCGCGGAATT	.	PASS	Atlas-SNP
UBQLN2	29978	hgsc.bcm.edu	37	X	56591532	56591532	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	131	57	117	0	0.435115	0	.	.	none	.	UBQLN2	55	.	NM_013444	exon1	c.T1226C	p.M409T	CACAGATGATGCT	.	PASS	Atlas-SNP
TFAP2A	7020	hgsc.bcm.edu	37	6	10398806	10398806	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	163	4	179	0	0.0245399	0	.	.	none	TFAP2A_ENST00000379604,right_upper_lobe,carcinoma,0,3	TFAP2A	129	3	NM_003220	exon7	c.C1158T	p.F386F	GCTGCCGAAGCCG	.	scavenged	Atlas-SNP
SEMA5B	54437	hgsc.bcm.edu	37	3	122632728	122632728	+	Silent	SNP	G	G	A	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	80	38	143	0	0.475	0	.	.	none	.	SEMA5B	303	.	NM_001256347	exon15	c.C2271T	p.C757C	GCCCACGCAGATG	.	PASS	Atlas-SNP
ERAP1	51752	hgsc.bcm.edu	37	5	96129142	96129142	+	Silent	SNP	C	C	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	259	3	212	0	0.011583	0	.	.	none	ERAP1,colon,carcinoma,-2,1	ERAP1	59	1	NM_001198541	exon7	c.G1149A	p.E383E	CACAAACTCCATA	.	scavenged	Atlas-SNP
SYT10	341359	hgsc.bcm.edu	37	12	33579301	33579301	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	135	21	113	0	0.155556	0	.	.	none	.	SYT10	109	.	NM_198992	exon2	c.C281A	p.T94N	AGCGTAGTGATGT	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31322910	31322910	+	Missense_Mutation	SNP	G	G	A	rs74189305	bycluster	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	186	7	166	2	0.0376344	0.0120482	.	.	weak	HLA-B,NS,carcinoma,-1,7	HLA-B	54	7	NM_005514	exon5	c.C986T	p.A329V	ATCACAGCAGCGA	.	scavenged	Atlas-SNP
ATP12A	479	hgsc.bcm.edu	37	13	25283889	25283889	+	Missense_Mutation	SNP	C	C	A	rs376963957	alternate_allele	TCGA-FF-8041-01A-11D-2210-10	TCGA-FF-8041-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	fa676301-902f-473f-8313-5bff34ae549a	d3ef8780-62a6-4dbb-ab8f-3e7122632efc	220	3	201	0	0.0136364	0	.	.	alt	ATP12A,colon,carcinoma,-1,1	ATP12A	172	1	NM_001185085	exon19	c.C2704A	p.R902S	CTGCCCCGCACTC	.	scavenged	Atlas-SNP
