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	COSMIC_Codon	COSMIC_Gene	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov_SOL	TVarCov_SOL	TVaf_SOL	NTotCov_SOL	NVarCov_SOL	NVaf_SOL	dbSNPPopFreq	COSMIC_Gene_Freq	COSMIC_Site_Freq	Ttot_rna	Tvar_rna	Tvaf_rna	note	germline-maf-frequency	IGV
TAS1R3	83756	hgsc.bcm.edu	37	1	1269674	1269674	+	Missense_Mutation	SNP	G	G	T	rs147583678		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_152228	exon6	c.G2389T	p.A797S	ATGGGCGCCCTCC		69	4	0.06	91	0	0				0	0				
PLCH2	9651	mdanderson.org	37	1	2418772	2418772	+	Silent	SNP	C	C	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_014638	exon7	c.C1071T	p.D357D	GGTGGACATGTAT		39	3	0.08	62	0	0				0	0				
TMEM51-AS1	200197	hgsc.bcm.edu	37	1	15439098	15439098	+	RNA	SNP	C	C	T	rs114844404	bycluster	TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	.	.	.	.	TTTTCTCCTCCCG		60	18	0.30	57	0	0				0	0				
BSND	7809	mdanderson.org	37	1	55470729	55470729	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_057176	exon2	c.G212A	p.G71D	TTCAAGGCATCCT		42	3	0.07	44	0	0				0	0				
GBP3	2635	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	89477486	89477486	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_018284	exon7	c.G1093A	p.V365I	TATAGACTTCAGT		280	79	0.28	218	0	0				2	0	0.00			
DBT	1629	mdanderson.org	37	1	100680387	100680387	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_001918	exon7	c.C925A	p.P309T	AGAAAGGCATAAA		43	3	0.07	32	0	0				10	0	0.00			
FLG	2312	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	152283719	152283719	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	FLG,NS,carcinoma,0,2	FLG	NM_002016	exon3	c.A3643C	p.S1215R	TTGCACTTCTGGA		94	7	0.07	83	0	0		0	2	2	0	0.00			
ZC3H11A	9877	broad.mit.edu	37	1	203821424	203821424	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	ZC3H11A	NM_014827	exon20	c.T2330C	p.I777T	AACTAATATGGGA		265	4	0.02	176	1	0.0056818182		71		106	0	0.00			
RASSF4	83937	hgsc.bcm.edu	37	10	45486407	45486407	+	Silent	SNP	T	T	C	rs142266476		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	RASSF4,NS,carcinoma,-2,1	RASSF4	NM_032023	exon9	c.T697C	p.L233L	ACAAAATTAAAAG		34	2	0.06	50	0	0	0	-2	1	36	0	0.00			
ZSWIM8	23053	mdanderson.org	37	10	75550887	75550887	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_015037	exon8	c.G1096T	p.A366S	AATGCTGCCCCCT		56	3	0.05	72	0	0				27	0	0.00			
PI4K2A	55361	mdanderson.org	37	10	99400832	99400832	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_018425	exon1	c.G333C	p.E111D	GTTCGAGGCGGTG		14	2	0.14	11	0	0				4	0	0.00			
ANO5	203859	mdanderson.org	37	11	22272376	22272376	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_213599	exon11	c.C1103T	p.T368M	ATAGTACGTGTTT		52	3	0.06	44	0	0				1	0	0.00			
TMEM109	79073	mdanderson.org	37	11	60689301	60689301	+	Silent	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_024092	exon4	c.G396T	p.L132L	CTTCCTGCTGTGG		51	3	0.06	48	0	0				45	0	0.00			
SART1	9092	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	65744158	65744158	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_005146	exon14	c.A1778C	p.N593T	CAGCCAACGGTGG		82	51	0.62	48	0	0				387	257	0.66			
GPC5	2262	mdanderson.org	37	13	92101090	92101090	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_004466	exon2	c.C239T	p.A80V	AGATTGCGGCTCG		51	3	0.06	49	0	0				0	0				
F7	2155	mdanderson.org	37	13	113772845	113772845	+	Silent	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_000131	exon9	c.G924T	p.L308L	CCGCCTGCACCAG		22	2	0.09	30	0	0				28	0	0.00			
PSMB5	5693	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	14	23504076	23504076	+	Silent	SNP	G	G	A	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	PSMB5_ENST00000493471,NS,carcinoma,0,2	PSMB5_ENST00000493471	NM_001144932	exon1	c.C15T	p.S5S	CAACACGCTGGCA		67	6	0.09	70	0	0		0	2	222	13	0.06			
NFATC4	4776	mdanderson.org	37	14	24841809	24841809	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_001198967	exon4	c.G1548T	p.K516N	AGTCAAGGTAAAG		18	2	0.11	36	0	0				11	0	0.00			
SYNE2	23224	mdanderson.org	37	14	64421577	64421577	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_182914	exon8	c.A731G	p.E244G	TGAGAGAGGCCTT		23	3	0.13	20	0	0				0	0				
TJP1	7082	mdanderson.org	37	15	29997939	29997939	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_003257	exon26	c.G4861A	p.V1621M	CTTCCACAGCTGA		70	4	0.06	67	0	0				106	0	0.00			
UACA	55075	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	15	70960705	70960706	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	TG	TG					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	UACA	NM_018003	exon16	c.2318_2319del	p.773_773del	TATTTTTGTGTTA		66	35	0.53	46	0	0		235		13	0	0.00			
E4F1	1877	mdanderson.org	37	16	2279574	2279574	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_004424	exon3	c.G313T	p.V105L	CAGGTGGTGCCGG		23	3	0.13	14	0	0				11	0	0.00			
TNRC6A	27327	mdanderson.org	37	16	24788654	24788654	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_014494	exon5	c.G564T	p.E188D	CGGAGAGGTGCAG		18	2	0.11	13	0	0				9	0	0.00			
GFOD2	81577	mdanderson.org	37	16	67709829	67709829	+	Silent	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_030819	exon3	c.C387A	p.A129A	CACGAAGGCAGGC		46	3	0.07	70	0	0				21	0	0.00			
ZCCHC14	23174	mdanderson.org	37	16	87451220	87451220	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_015144	exon8	c.C818A	p.A273D	CGGTAGGCCAGGG		43	3	0.07	54	0	0				4	0	0.00			
.	0	broad.mit.edu	37	16	90161723	90161723	+	RNA	SNP	T	T	C	rs71485063		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	.	.	.	.	CATTAGTAAGATC		167	9	0.05	176	1	0.0056818182				6	0	0.00			
BCAS3	54828	broad.mit.edu;mdanderson.org	37	17	59001819	59001819	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	BCAS3	NM_001099432	exon13	c.G1045T	p.A349S	TTCCCTGCCCATG		74	4	0.05	45	0	0		90		8	0	0.00			
HMG20B	10362	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	19	3575627	3575638	+	In_Frame_Del	DEL	GGAGAAGATCCA	GGAGAAGATCCA	-	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	GGAGAAGATCCA	GGAGAAGATCCA					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	HMG20B	NM_006339	exon5	c.440_451del	p.147_151del	GTGCACGGAGAAG		32	11	0.34	26	0	0		12		107	0	0.00			
SPC24	147841	broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	11259855	11259855	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	SPC24	NM_182513	exon2	c.C220T	p.H74Y	CCTGGTGCACCTG		64	5	0.08	59	0	0		8		27	1	0.04			
CPAMD8	27151	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	17039937	17039937	+	Silent	SNP	A	A	G	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_015692	exon24	c.T3100C	p.L1034L	AAGACAAGGCCAC		23	10	0.43	30	0	0				3	1	0.33			
ZNF675	171392	broad.mit.edu	37	19	23836584	23836584	+	Missense_Mutation	SNP	G	G	T	rs200866824	by1000genomes;alternate_allele	TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	ZNF675	NM_138330	exon4	c.C1151A	p.T384K	TGTTCCGTAAGAT		64	3	0.05	50	0	0		88		14	0	0.00			
PAPL	0	mdanderson.org	37	19	39589612	39589612	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_001004318	exon4	c.G335T	p.G112V	GCTGTGGCAGTGC		19	2	0.11	13	0	0				0	0				
PPM1N	147699	mdanderson.org	37	19	46003744	46003744	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_001080401	exon3	c.G1088T	p.S363I	CCCCCAGCCTGAA		51	3	0.06	38	0	0				58	0	0.00			
GLTSCR1	29998	mdanderson.org	37	19	48182836	48182836	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_015711	exon6	c.G409T	p.A137S	CAGCCTGCGGATG		29	3	0.10	25	0	0				1	0	0.00			
ELSPBP1	64100	mdanderson.org	37	19	48522982	48522982	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_022142	exon5	c.G362T	p.G121V	AGTATGGGGGAAA		52	3	0.06	69	0	0				0	0				
GRIN2D	2906	mdanderson.org	37	19	48945427	48945427	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_000836	exon12	c.C2461T	p.R821W	CTGGAGCGGCTGT		23	3	0.13	36	0	0				1	0	0.00			
LHCGR	3973	mdanderson.org	37	2	48982764	48982764	+	Missense_Mutation	SNP	A	A	T	rs4539842	bycluster	TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_000233	exon1	c.T47A	p.L16Q	TGCAGCAGCAGCA		12	2	0.17	8	0	0				0	0				
SPRED2	200734	mdanderson.org	37	2	65541091	65541091	+	Silent	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_181784	exon6	c.C801A	p.P267P	CACGTAGGGGTAG		28	3	0.11	22	0	0				23	0	0.00			
ARHGAP25	9938	mdanderson.org	37	2	69002529	69002529	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_001166277	exon2	c.G238T	p.D80Y	TACAAGGATGAAG		46	4	0.09	44	0	0				4	0	0.00			
ANKRD30BL	554226	broad.mit.edu	37	2	132919171	132919171	+	Silent	SNP	A	A	G	rs199695856	bycluster	TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	ANKRD30BL	.	.	.	.	ATCCCCATGGTGA		107	6	0.06	91	1	0.010989011		36		0	0				
UBR3	130507	mdanderson.org	37	2	170734086	170734086	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_172070	exon4	c.G927T	p.E309D	TCCTGAGGATAAG		50	3	0.06	33	0	0				1	0	0.00			
DLX2	1746	broad.mit.edu	37	2	172967030	172967030	+	Silent	SNP	G	G	C	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	DLX2	NM_004405	exon1	c.C237G	p.G79G	GCCCCCGCCGCCG		80	4	0.05	68	5	0.0735294118		29		0	0				
.	0	broad.mit.edu	37	2	178042377	178042378	+	RNA	INS	-	-	TA	rs138520040	bycluster;by1000genomes	TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	.	.	.	.	ATATATGTATATA		11	6	0.55	4	0	0				0	0				
SCRT2	85508	mdanderson.org	37	20	644429	644429	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_033129	exon2	c.C810A	p.C270X	CTGGCGGCAGCGG		19	2	0.11	20	0	0				0	0				
GPCPD1	56261	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	20	5528338	5528338	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_019593	exon20	c.C1988A	p.A663D	CCGTTGGCATCCA		110	5	0.05	61	0	0				22	0	0.00			
ARHGAP40	343578	mdanderson.org	37	20	37258290	37258290	+	Silent	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_001164431	exon5	c.G777T	p.L259L	TTCCCTGCCGGTG		50	3	0.06	48	0	0				19	0	0.00			
ZNF217	7764	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	52198198	52198198	+	Silent	SNP	G	G	A	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_006526	exon1	c.C1168T	p.L390L	AGACCAGCTGGTG		89	25	0.28	76	0	0				10	1	0.10			
HRH3	11255	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	20	60791521	60791522	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	-	-					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	HRH3	NM_007232	exon3	c.879_880insG	p.G293fs	ACCGCCACCCCCG		40	17	0.43	26	0	0		25		0	0				
ZNF70	7621	broad.mit.edu	37	22	24087226	24087226	+	Silent	SNP	A	A	G	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	ZNF70	NM_021916	exon2	c.T102C	p.P34P	AAGAAAAGGGTCC		230	5	0.02	87	0	0		49		2	0	0.00			
.	129099	bcgsc.ca	37	22	32668450	32668450	+	RNA	SNP	C	C	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	.	.	.	.	GAACTTCATCCTG		19	9	0.47	18	0	0				4	1	0.25			
SLC6A20	54716	mdanderson.org	37	3	45814060	45814060	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_020208	exon5	c.C630A	p.Y210X	GATGAGGTAGATG		45	3	0.07	32	0	0				0	0				
RYK	6259	broad.mit.edu	37	3	133896871	133896871	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	RYK	.	.	.	.	CCATGGGCTTTTC		189	6	0.03	154	0	0		37		193	13	0.07	rescued with RNA-seq		
GFM1	85476	mdanderson.org	37	3	158363548	158363548	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_024996	exon2	c.G212T	p.G71V	ACACTGGCAGAAT		55	3	0.05	32	0	0				12	0	0.00			
FAT4	79633	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	126372841	126372841	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_024582	exon9	c.A10670G	p.Y3557C	CCAGTTATTTCAG		95	31	0.33	102	0	0				0	0				
LOC728613	0	broad.mit.edu	37	5	1633228	1633229	+	RNA	INS	-	-	TCTCTCTCTTTTCC	rs113894061		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	.	.	.	.	TCATCTTCACCTC		26	6	0.23	20	0	0				0	0				
.	0	bcgsc.ca	37	5	34191582	34191582	+	RNA	SNP	G	G	A	rs66520650	bycluster;byfrequency	TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	.	.	.	.	ACACCCGCTGTGA		34	6	0.18	31	0	0				0	0				
MCC	4163	broad.mit.edu;mdanderson.org	37	5	112418571	112418571	+	Silent	SNP	T	T	G	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	MCC	NM_001085377	exon11	c.A1770C	p.T590T	CCGTTCTGTTTCC		30	5	0.17	38	0	0		234		13	1	0.08			
PRR16	51334	mdanderson.org	37	5	120021895	120021895	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_016644	exon3	c.G337T	p.D113Y	TGTGAAGACCCCA		35	3	0.09	34	0	0				4	0	0.00			
SIL1	64374	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	5	138283066	138283066	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_001037633	exon11	c.C1126T	p.Q376X	AGCCCTGTTCCCA		91	9	0.10	149	0	0				71	4	0.06			
FTSJD2	23070	mdanderson.org	37	6	37442325	37442325	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_015050	exon18	c.G1847T	p.G616V	GGGATGGCCGCCA		52	3	0.06	54	0	0				49	0	0.00			
RASA4CP	401331	hgsc.bcm.edu	37	7	44069004	44069004	+	RNA	SNP	C	C	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	.	.	.	.	GGGCCTCGCGGAG		17	9	0.53	8	0	0				16	2	0.13			
INTS4L2	0	broad.mit.edu	37	7	65150816	65150817	+	RNA	INS	-	-	C	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	.	.	.	.	TCCCTCACCCCCC		35	6	0.17	27	0	0				0	0				
NCAPG2	54892	broad.mit.edu	37	7	158478886	158478886	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	NCAPG2	NM_017760	exon8	c.A815G	p.K272R	GAAGCCTTTTTCC		317	4	0.01	221	1	0.0045248869		80		37	1	0.03			
TGS1	96764	mdanderson.org	37	8	56723593	56723593	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_024831	exon11	c.G2297T	p.W766L	CACCTTGGGGAGG		42	3	0.07	31	0	0				48	0	0.00			
PLEC	5339	mdanderson.org	37	8	144996006	144996006	+	Silent	SNP	G	G	T	rs376058402	alternate_allele	TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_201380	exon32	c.C8394A	p.A2798A	GATGCCGGCCTCC		18	2	0.11	26	0	0				30	0	0.00			
AQP7	364	mdanderson.org	37	9	33385047	33385047	+	Missense_Mutation	SNP	G	G	A	rs78431873	bycluster	TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_001170	exon8	c.C985T	p.P329S	GGGCAGGGTGGAC		22	2	0.09	16	0	0				16	0	0.00			
FOXE1	2304	bcgsc.ca	37	9	100616400	100616400	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	FOXE1	NM_004473	exon1	c.C204G	p.H68Q	CGCGCACGCGCCC		67	28	0.42	34	1	0.0294117647		19		0	0				
C9orf43	257169	mdanderson.org	37	9	116187328	116187328	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_152786	exon9	c.G837T	p.L279F	ACGTTTGAAGAAA		35	3	0.09	16	0	0				0	0				
RNR1	6052	hgsc.bcm.edu	37	MT	1586	1586	+	RNA	SNP	G	G	A	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	.	.	.	.	TGGAAAGTGCACT		15	13	0.87	26	0	0				0	0				
MAOA	4128	mdanderson.org	37	X	43590942	43590942	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	NM_000240	exon8	c.G797T	p.C266F	TTTAGTGCAAATA		61	4	0.07	47	0	0				6	0	0.00			
MAGEA12	4111	hgsc.bcm.edu;ucsc.edu	37	X	151899528	151899528	+	RNA	SNP	C	C	T	novel		TCGA-YU-AA4L-01A-11D-A435-10	TCGA-YU-AA4L-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	5c166720-7105-4052-bcbd-b3f546b1043b	ef89d76a-cb3c-4473-888b-99ccd7d3dd3a	.	.	.	.	.	.	GATTTCCCAATCT		77	33	0.43	61	0	0				383	162	0.42			
