{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Yu Pengjie"],"organism":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-16200"],"description":["The 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."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Nucleic 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 procedure","Sequencing - 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."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data 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 HISAT2"],"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina NovaSeq 6000"],"study_type":["RIP-seq"],"species":["Homo sapiens"],"pubmed_authors":["Yu Pengjie"],"additional_accession":[]},"is_claimable":false,"name":"ZFP36 Inhibits Gastric Cancer Progression by enhancing expression of LIPG and binding its 3’UTR of RNA","description":"The 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.","dates":{"release":"2025-12-11T00:00:00Z","modification":"2025-12-11T02:01:55.203Z","creation":"2025-11-19T19:04:56.946Z"},"accession":"E-MTAB-16200","cross_references":{"ENA":["ERP185352"],"EFO":["EFO_0002944","EFO_0004170","EFO_0005310","EFO_0004917","EFO_0005518","EFO_0003816","EFO_0004184"]}}