ERX324181 E-MTAB-1936:FAIRE_32 E-MTAB-1936:FAIRE_32 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358406 E-MTAB-1936:L1-E_FAIRE L1-E_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324182 E-MTAB-1936:FAIRE_4 E-MTAB-1936:FAIRE_4 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358407 E-MTAB-1936:A6_FAIRE A6_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324183 E-MTAB-1936:FAIRE_33 E-MTAB-1936:FAIRE_33 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358408 E-MTAB-1936:MD22298_FAIRE MD22298_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324184 E-MTAB-1936:Input_1 E-MTAB-1936:Input_1 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358409 E-MTAB-1936:nMD719791_input nMD719791_input ChIP-Seq GENOMIC ChIP Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate input Experimental Factor: disease normal ERX324185 E-MTAB-1936:FAIRE_31 E-MTAB-1936:FAIRE_31 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358410 E-MTAB-1936:L1-D_FAIRE L1-D_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324186 E-MTAB-1936:FAIRE_6 E-MTAB-1936:FAIRE_6 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358411 E-MTAB-1936:A13_FAIRE A13_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina Genome Analyzer IIx Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324187 E-MTAB-1936:RNA_34 E-MTAB-1936:RNA_34 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358412 E-MTAB-1936:MD22523_RNA MD22523_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324188 E-MTAB-1936:FAIRE_21 E-MTAB-1936:FAIRE_21 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358413 E-MTAB-1936:K09_FAIRE K09_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324189 E-MTAB-1936:FAIRE_8 E-MTAB-1936:FAIRE_8 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358414 E-MTAB-1936:A26_FAIRE A26_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324190 E-MTAB-1936:FAIRE_5 E-MTAB-1936:FAIRE_5 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358415 E-MTAB-1936:A9_FAIRE A9_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324191 E-MTAB-1936:RNA_28 E-MTAB-1936:RNA_28 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358416 E-MTAB-1936:K25_RNA K25_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324192 E-MTAB-1936:RNA_4 E-MTAB-1936:RNA_4 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358417 E-MTAB-1936:A6_RNA A6_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324193 E-MTAB-1936:FAIRE_25 E-MTAB-1936:FAIRE_25 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358418 E-MTAB-1936:K22_FAIRE K22_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324194 E-MTAB-1936:RNA_42 E-MTAB-1936:RNA_42 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358419 E-MTAB-1936:nE6_RNA nE6_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease normal ERX324195 E-MTAB-1936:FAIRE_28 E-MTAB-1936:FAIRE_28 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358420 E-MTAB-1936:K25_FAIRE K25_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324196 E-MTAB-1936:FAIRE_14 E-MTAB-1936:FAIRE_14 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358421 E-MTAB-1936:G7_FAIRE G7_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324197 E-MTAB-1936:FAIRE_9 E-MTAB-1936:FAIRE_9 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358422 E-MTAB-1936:A31_FAIRE A31_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina Genome Analyzer IIx Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324198 E-MTAB-1936:FAIRE_46 E-MTAB-1936:FAIRE_46 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358423 E-MTAB-1936:TC003_FAIRE TC003_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324199 E-MTAB-1936:FAIRE_30 E-MTAB-1936:FAIRE_30 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358424 E-MTAB-1936:L1-B_FAIRE L1-B_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324200 E-MTAB-1936:RNA_19 E-MTAB-1936:RNA_19 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358425 E-MTAB-1936:J09_RNA J09_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324201 E-MTAB-1936:ChIP_1 E-MTAB-1936:ChIP_1 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358426 E-MTAB-1936:nMD719791_ChIP nMD719791_ChIP ChIP-Seq GENOMIC ChIP Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate H3K36me3 Experimental Factor: disease normal ERX324202 E-MTAB-1936:FAIRE_45 E-MTAB-1936:FAIRE_45 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358427 E-MTAB-1936:TC002_FAIRE TC002_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324203 E-MTAB-1936:FAIRE_40 E-MTAB-1936:FAIRE_40 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358428 E-MTAB-1936:nA9_FAIRE nA9_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate N/A Experimental Factor: disease normal ERX324204 E-MTAB-1936:FAIRE_1 E-MTAB-1936:FAIRE_1 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358429 E-MTAB-1936:2_FAIRE 2_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324205 E-MTAB-1936:RNA_12 E-MTAB-1936:RNA_12 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358430 E-MTAB-1936:E7_RNA E7_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324206 E-MTAB-1936:FAIRE_10 E-MTAB-1936:FAIRE_10 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358431 E-MTAB-1936:E5_FAIRE E5_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324207 E-MTAB-1936:FAIRE_23 E-MTAB-1936:FAIRE_23 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358432 E-MTAB-1936:K19_FAIRE K19_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324208 E-MTAB-1936:ChIP_2 E-MTAB-1936:ChIP_2 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358433 E-MTAB-1936:nMD724775_ChIP nMD724775_ChIP ChIP-Seq GENOMIC ChIP Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate H3K36me3 Experimental Factor: disease normal ERX324209 E-MTAB-1936:RNA_15 E-MTAB-1936:RNA_15 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358434 E-MTAB-1936:G8_RNA G8_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324210 E-MTAB-1936:RNA_35 E-MTAB-1936:RNA_35 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358435 E-MTAB-1936:MD7523249_RNA MD7523249_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324211 E-MTAB-1936:FAIRE_35 E-MTAB-1936:FAIRE_35 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358436 E-MTAB-1936:MD7523249_FAIRE MD7523249_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324212 E-MTAB-1936:FAIRE_29 E-MTAB-1936:FAIRE_29 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358437 E-MTAB-1936:L1-A_FAIRE L1-A_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324213 E-MTAB-1936:RNA_16 E-MTAB-1936:RNA_16 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358438 E-MTAB-1936:J03_RNA J03_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324214 E-MTAB-1936:RNA_36 E-MTAB-1936:RNA_36 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358439 E-MTAB-1936:MD719791_RNA MD719791_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324215 E-MTAB-1936:FAIRE_38 E-MTAB-1936:FAIRE_38 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358440 E-MTAB-1936:nA4_FAIRE nA4_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate N/A Experimental Factor: disease normal ERX324216 E-MTAB-1936:RNA_21 E-MTAB-1936:RNA_21 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358441 E-MTAB-1936:K09_RNA K09_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324217 E-MTAB-1936:FAIRE_7 E-MTAB-1936:FAIRE_7 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358442 E-MTAB-1936:A16_FAIRE A16_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324218 E-MTAB-1936:FAIRE_43 E-MTAB-1936:FAIRE_43 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358443 E-MTAB-1936:nJ11_FAIRE nJ11_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease normal ERX324219 E-MTAB-1936:FAIRE_16 E-MTAB-1936:FAIRE_16 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358444 E-MTAB-1936:J03_FAIRE J03_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324220 E-MTAB-1936:FAIRE_48 E-MTAB-1936:FAIRE_48 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358445 E-MTAB-1936:TC006_FAIRE TC006_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324221 E-MTAB-1936:RNA_18 E-MTAB-1936:RNA_18 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358446 E-MTAB-1936:J07_RNA J07_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324222 E-MTAB-1936:FAIRE_26 E-MTAB-1936:FAIRE_26 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358447 E-MTAB-1936:K23_FAIRE K23_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324223 E-MTAB-1936:RNA_47 E-MTAB-1936:RNA_47 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358448 E-MTAB-1936:TC004_RNA TC004_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324224 E-MTAB-1936:Input_2 E-MTAB-1936:Input_2 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358449 E-MTAB-1936:nMD724775_input nMD724775_input ChIP-Seq GENOMIC ChIP Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate input Experimental Factor: disease normal ERX324225 E-MTAB-1936:RNA_45 E-MTAB-1936:RNA_45 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358450 E-MTAB-1936:TC002_RNA TC002_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324226 E-MTAB-1936:FAIRE_39 E-MTAB-1936:FAIRE_39 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358451 E-MTAB-1936:nA5_FAIRE nA5_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina Genome Analyzer IIx Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate N/A Experimental Factor: disease normal ERX324227 E-MTAB-1936:RNA_49 E-MTAB-1936:RNA_49 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358452 E-MTAB-1936:TC007_RNA TC007_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324228 E-MTAB-1936:RNA_37 E-MTAB-1936:RNA_37 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358453 E-MTAB-1936:MD724775_RNA MD724775_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324229 E-MTAB-1936:FAIRE_49 E-MTAB-1936:FAIRE_49 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358454 E-MTAB-1936:TC007_FAIRE TC007_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324230 E-MTAB-1936:RNA_23 E-MTAB-1936:RNA_23 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358455 E-MTAB-1936:K19_RNA K19_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324231 E-MTAB-1936:RNA_26 E-MTAB-1936:RNA_26 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358456 E-MTAB-1936:K23_RNA K23_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324232 E-MTAB-1936:FAIRE_41 E-MTAB-1936:FAIRE_41 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358457 E-MTAB-1936:nA13_FAIRE nA13_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina Genome Analyzer IIx Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate N/A Experimental Factor: disease normal ERX324233 E-MTAB-1936:FAIRE_2 E-MTAB-1936:FAIRE_2 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358458 E-MTAB-1936:A4_FAIRE A4_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina Genome Analyzer IIx Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324234 E-MTAB-1936:RNA_17 E-MTAB-1936:RNA_17 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358459 E-MTAB-1936:J06_RNA J06_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324235 E-MTAB-1936:FAIRE_44 E-MTAB-1936:FAIRE_44 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358460 E-MTAB-1936:nL1_FAIRE nL1_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease normal ERX324236 E-MTAB-1936:RNA_14 E-MTAB-1936:RNA_14 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358461 E-MTAB-1936:G7_RNA G7_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324237 E-MTAB-1936:FAIRE_42 E-MTAB-1936:FAIRE_42 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358462 E-MTAB-1936:nE6_FAIRE nE6_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease normal ERX324238 E-MTAB-1936:RNA_20 E-MTAB-1936:RNA_20 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358463 E-MTAB-1936:J11_RNA J11_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324239 E-MTAB-1936:FAIRE_18 E-MTAB-1936:FAIRE_18 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358464 E-MTAB-1936:J07_FAIRE J07_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324240 E-MTAB-1936:RNA_11 E-MTAB-1936:RNA_11 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358465 E-MTAB-1936:E6_RNA E6_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324241 E-MTAB-1936:RNA_33 E-MTAB-1936:RNA_33 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358466 E-MTAB-1936:MD22298_RNA MD22298_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324242 E-MTAB-1936:FAIRE_15 E-MTAB-1936:FAIRE_15 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358467 E-MTAB-1936:G8_FAIRE G8_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324243 E-MTAB-1936:FAIRE_11 E-MTAB-1936:FAIRE_11 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358468 E-MTAB-1936:E6_FAIRE E6_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324244 E-MTAB-1936:RNA_22 E-MTAB-1936:RNA_22 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358469 E-MTAB-1936:K13_RNA K13_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324245 E-MTAB-1936:FAIRE_27 E-MTAB-1936:FAIRE_27 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358470 E-MTAB-1936:K24_FAIRE K24_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324246 E-MTAB-1936:FAIRE_13 E-MTAB-1936:FAIRE_13 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358471 E-MTAB-1936:G4_FAIRE G4_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324247 E-MTAB-1936:RNA_27 E-MTAB-1936:RNA_27 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358472 E-MTAB-1936:K24_RNA K24_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324248 E-MTAB-1936:FAIRE_34 E-MTAB-1936:FAIRE_34 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358473 E-MTAB-1936:MD22523_FAIRE MD22523_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324249 E-MTAB-1936:FAIRE_47 E-MTAB-1936:FAIRE_47 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358474 E-MTAB-1936:TC004_FAIRE TC004_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324250 E-MTAB-1936:RNA_24 E-MTAB-1936:RNA_24 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358475 E-MTAB-1936:K21_RNA K21_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324251 E-MTAB-1936:RNA_5 E-MTAB-1936:RNA_5 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358476 E-MTAB-1936:A9_RNA A9_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324252 E-MTAB-1936:FAIRE_24 E-MTAB-1936:FAIRE_24 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358477 E-MTAB-1936:K21_FAIRE K21_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324253 E-MTAB-1936:RNA_48 E-MTAB-1936:RNA_48 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358478 E-MTAB-1936:TC006_RNA TC006_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324254 E-MTAB-1936:FAIRE_17 E-MTAB-1936:FAIRE_17 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358479 E-MTAB-1936:J06_FAIRE J06_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324255 E-MTAB-1936:FAIRE_19 E-MTAB-1936:FAIRE_19 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358480 E-MTAB-1936:J09_FAIRE J09_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324256 E-MTAB-1936:FAIRE_22 E-MTAB-1936:FAIRE_22 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358481 E-MTAB-1936:K13_FAIRE K13_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324257 E-MTAB-1936:RNA_46 E-MTAB-1936:RNA_46 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358482 E-MTAB-1936:TC003_RNA TC003_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324258 E-MTAB-1936:FAIRE_20 E-MTAB-1936:FAIRE_20 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358483 E-MTAB-1936:J11_FAIRE J11_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324259 E-MTAB-1936:FAIRE_12 E-MTAB-1936:FAIRE_12 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358484 E-MTAB-1936:E7_FAIRE E7_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324260 E-MTAB-1936:FAIRE_3 E-MTAB-1936:FAIRE_3 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358485 E-MTAB-1936:A5_FAIRE A5_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina Genome Analyzer IIx Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324261 E-MTAB-1936:FAIRE_37 E-MTAB-1936:FAIRE_37 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358486 E-MTAB-1936:MD724775_FAIRE MD724775_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324262 E-MTAB-1936:RNA_1 E-MTAB-1936:RNA_1 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358487 E-MTAB-1936:2_RNA 2_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324263 E-MTAB-1936:RNA_13 E-MTAB-1936:RNA_13 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358488 E-MTAB-1936:G4_RNA G4_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324264 E-MTAB-1936:FAIRE_36 E-MTAB-1936:FAIRE_36 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358489 E-MTAB-1936:MD719791_FAIRE MD719791_FAIRE FAIRE-seq GENOMIC other Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324265 E-MTAB-1936:RNA_10 E-MTAB-1936:RNA_10 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358490 E-MTAB-1936:E5_RNA E5_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 normal Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324266 E-MTAB-1936:RNA_3 E-MTAB-1936:RNA_3 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358491 E-MTAB-1936:A5_RNA A5_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina Genome Analyzer IIx Experimental Factor: genotype Unknown Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma ERX324267 E-MTAB-1936:RNA_25 E-MTAB-1936:RNA_25 ERP004043 E-MTAB-1936 Variation in chromatin accessibility in human kidney cancer links H3K36 methyltransferase loss with widespread RNA processing defects ERS358492 E-MTAB-1936:K22_RNA K22_RNA RNA-Seq TRANSCRIPTOMIC cDNA Tumors and normal kidney stored at -80C. FAIRE was performed as described in Simon et al 2012, Nature Protocols. RNA-seq was performed on riboMinus-extracted RNA. Libraries were prepared using manufacturer's recommendations with TruSeq adapters or Illumina adapters. Illumina HiSeq 2000 Experimental Factor: genotype SETD2 mutant Experimental Factor: immunoprecipitate N/A Experimental Factor: disease clear cell renal carcinoma