biostudies-arrayexpressYu PengjieHomo sapienshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-16200The evaluation of RNA-binding proteins (RBPs) is based on their RNA-binding capacity and the yield of protein recovered in assays. To determine the specificity of ZFP36's RNA interactions in AGS cells, we performed iRIP-seq to identify its directly bound mRNA targets.biostudies-arrayexpressNucleic Acid Extraction - The GENE-bound RNA was isolated from the immunoprecipitation of anti-GENE using Trizol (Invitrogen).Library Construction - Complementary DNA (cDNA) libraries were prepared with the KAPA RNA Hyper Prep Kit (KAPA, KK8541) according to the manufacturer’s procedureSequencing - Illumina NovaSeq 6000 system was used for 150 nt paired-end sequencing.Sample Collection - Jurkat and Molt4 cells were grown at 37℃, 5% CO2 in RPMI-1640 medium (Gibco, USA) supplemented with 10% fetal bovine serum (FBS, Gibco, USA) and 1% penicillin/streptomycin, respectively.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesData Transformation - After reads were aligned onto the genome, we analysed the unique reads binding regions of GENE_NAME on genome using “ABLIRC” strategy.Sequence Alignment - Raw sequencing reads containing more than 2-N bases were first discarded. Subsequently, the raw reads were trimmed of adaptors and low-quality bases using a FASTX-Toolkit (v.0.0.13; http://hannonlab.cshl.edu/fastx toolkit/). In addition, short reads of less than 16 nt were dropped to retain clean reads, which were subsequently aligned to the GRch38 genome by HISAT2UnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq 6000RIP-seqHomo sapiensYu PengjiefalseZFP36 Inhibits Gastric Cancer Progression by enhancing expression of LIPG and binding its 3’UTR of RNAThe evaluation of RNA-binding proteins (RBPs) is based on their RNA-binding capacity and the yield of protein recovered in assays. To determine the specificity of ZFP36's RNA interactions in AGS cells, we performed iRIP-seq to identify its directly bound mRNA targets.2025-12-11T00:00:00Z2025-12-11T02:01:55.203Z2025-11-19T19:04:56.946ZE-MTAB-16200ERP185352EFO_0002944EFO_0004170EFO_0005310EFO_0004917EFO_0005518EFO_0003816EFO_0004184