GSM1909462: PARCLiP-meRIP-IP-repl2; Homo sapiens; OTHER
All PAR-CLIP RNA samples (samples 1-10) were extracted following normal PAR-CLIP procedures; the total RNA samples (samples 11-22) were extracted according to RNeasy plus kit (Catalog # 74104, Qiagen). PAR-CLIP-MeRIP samples are the m6A-immunoprecipitated (202003, SYSY) PAR-CLIP samples, so the library construction of PAR-CLIP-MeRIP samples is the same as PAR-CLIP samples. Therefore, PAR-CLIP-MeRIP libraries (Samples 1-4) were prepared using TruSeq Small RNA Sample Preparation Kit (RS-200-0012, Illumina) according to the manufacturer’s instructions, and then sequenced by Illumina Hiseq 2000 with single end 50-bp read length. PAR-CLIP libraries (Samples 5-10) were prepared using TruSeq Small RNA Sample Preparation Kit (RS-200-0012, Illumina) according to the manufacturer’s instructions, and then sequenced by Illumina Hiseq 2000 with single end 50-bp read length. RNA-seq libraries (Samples 11-18) were prepared according to the TruSeq Stranded mRNA LT Sample Prep Kit (Catalog # RS-122-9005DOC). KD and control samples were sequenced together in one flowcell on four lanes, respectively. The reads from the four lanes of each samples were combined for all analysis.