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	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	COSMIC_Gene_Freq	COSMIC_Site_Freq	Algorithm
JAKMIP1	152789	hgsc.bcm.edu	37	4	6107587	6107589	+	In_Frame_Del	DEL	CTC	CTC	-	novel		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	.	JAKMIP1	NM_144720	exon3	c.236_238del	p.79_80del	.	.	57.0	10.0	71.0	0.0	.	250	.	Pindel,Atlas-Indel
FAM212A	389119	hgsc.bcm.edu	37	3	49841691	49841691	+	Silent	SNP	G	G	A	novel		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	.	.	NM_203370	exon2	c.G135A	p.Q45Q	TGTGCAGCCCAGC	.	57.0	14.0	67.0	0.0	.	.	.	Atlas-SNP
XRN2	22803	hgsc.bcm.edu	37	20	21319698	21319698	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	.	.	NM_012255	exon14	c.G1250A	p.R417Q	GAAGACGACAGAA	.	60.0	16.0	54.0	0.0	.	.	.	Atlas-SNP
BZRAP1	9256	hgsc.bcm.edu	37	17	56386622	56386622	+	Silent	SNP	T	T	C	novel		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	.	.	NM_004758	exon22	c.A4011G	p.E1337E	TTCCTCTTCCTCC	.	79.0	8.0	80.0	0.0	.	.	.	Atlas-SNP
COG4	25839	hgsc.bcm.edu	37	16	70530257	70530257	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	.	.	NM_015386	exon12	c.C1559T	p.A520V	TTCACGGCACTTG	.	140.0	6.0	102.0	0.0	.	.	.	Atlas-SNP
TRAF7	84231	hgsc.bcm.edu	37	16	2221328	2221328	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	.	.	NM_032271	exon6	c.T412C	p.F138L	AGCGTCTTCAAAG	.	67.0	15.0	52.0	0.0	.	.	.	Atlas-SNP
CBX1	10951	hgsc.bcm.edu	37	17	46154242	46154242	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	.	.	NM_006807	exon2	c.G125A	p.W42X	CCCTTCCACTTTA	.	206.0	18.0	183.0	0.0	.	.	.	Atlas-SNP
GOLGA2	2801	hgsc.bcm.edu	37	9	131020818	131020818	+	Missense_Mutation	SNP	A	A	C	rs199744363		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	.	.	NM_004486	exon21	c.T2124G	p.D708E	CTCCTCATCCTCC	.	22.0	4.0	41.0	0.0	.	.	.	Atlas-SNP
MESP2	145873	hgsc.bcm.edu	37	15	90320134	90320134	+	Silent	SNP	A	A	G	novel		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	MESP2,NS,carcinoma,0,1	MESP2	NM_001039958	exon1	c.A546G	p.Q182Q	GGGGCAAGGGCAG	.	15.0	2.0	8.0	0.0	.	0	1	Atlas-SNP
MESP2	145873	hgsc.bcm.edu	37	15	90320132	90320132	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	MESP2,NS,carcinoma,-2,1	MESP2	NM_001039958	exon1	c.C544G	p.Q182E	CAGGGGCAAGGGC	.	15.0	2.0	8.0	0.0	.	-2	1	Atlas-SNP
RGL1	23179	hgsc.bcm.edu	37	1	183816714	183816714	+	Silent	SNP	G	G	A	novel		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	.	.	NM_015149	exon4	c.G258A	p.Q86Q	GGACCAGCTGCCT	.	95.0	21.0	88.0	0.0	.	.	.	Atlas-SNP
C17orf61-PLSCR3	0	hgsc.bcm.edu	37	17	7307176	7307176	+	RNA	SNP	C	C	T	novel		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	.	.	.	.	.	.	TGGACCCAGCTGG	.	83.0	17.0	86.0	0.0	.	.	.	Atlas-SNP
NXF4	55999	hgsc.bcm.edu	37	X	101819124	101819124	+	RNA	SNP	G	G	C	novel		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	.	.	.	.	.	.	TCTCCTGTCTCTC	.	123.0	6.0	104.0	0.0	.	.	.	Atlas-SNP
RNF103	7844	hgsc.bcm.edu	37	2	86849821	86849821	+	Silent	SNP	G	G	C	rs139047742		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	.	.	NM_005667	exon1	c.C189G	p.P63P	CTTCTCGGGCAAC	.	287.0	24.0	217.0	0.0	0.000	.	.	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093462	1093462	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AALG-01A-11D-A42Y-10	TCGA-2G-AALG-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f29b7c0c-30ed-4d15-9ee2-148852f3e573	6f3fee73-6a59-47ea-891c-e9946680a400	MUC2_ENST00000441003,NS,carcinoma,0,2	MUC2_ENST00000441003	NM_002457	exon30	c.G5281A	p.G1761S	CCCACCGGCACAC	.	44.0	2.0	35.0	0.0	.	0	2	Atlas-SNP
