Project description:To explain the possible molecular mechanism underlying the oncogenic roles of IGF2BP3 in EC, we employed RNA immunoprecipitation (RIP) assays to identify the lncRNAs involved in the regulation of IGF2BP3 function. RIP experiments, high-throughput sequencing and data analysis were performed by Seqhealth Tech (Wuhan, China). RIP assays were carried out on Ishikawa cells. The cells were lysed, and the lysis samples for immunoprecipitation reactions were incubated with anti-IGF2BP3 antibody (ab177477, Abcam, USA) or rabbit IgG (Cell Signaling Technology). The library products were enriched, quantified and finally sequenced on the Illumina PE150 platform.One hundred ninety-one candidates as IGF2BP3-interacting lncRNAs were identified in the RIP-seq results.
Project description:In this study we used RNA co-immunoprecipitation followed by RNA-sequencing (RIP-seq) to identify Hfq-binding RNAs in Vibrio cholerae.
Project description:Worms expressing 3xFLAG-tagged MSTR-1 (F22D6.2) were grown to young adult stage, crosslinked with 2% formaldehyde, and RIP-seq was performed to identify binding regions on target RNAs
Project description:In order to screen for CaMKIIβ binding lncRNAs, we performed a RIP-seq analysis on mouse hippocampus. Potential CaMKIIβ binding RNAs are identified through differential expression analysis between CaMKIIβ RIP-seq results and the control groups, IgG and input. Differentially expressed genes are subsequently filtered by biotype and expression level.
Project description:A key function for RNA-binding proteins in orchestrating plant development and environmental responses is well established. However, the lack of a genome-wide view on their in vivo binding targets and binding landscapes represents a gap in understanding the mode of action of plant RNA-binding proteins. Here, we conducted RNA Immunoprecipitation (RIP-seq) for genome-wide determining the binding repertoire of the circadian clock-regulated Arabidopsis thaliana glycine-rich RNA-binding protein AtGRP7.
Project description:We performed RIP (RNA-IP experiments) in the yeast Saccharomyces cerevisiae, immunoprecipitating either Ard1, Mak3, Nat3 subunits of N-acetyltransefrases in yeast or the ribosomal protein Rpl16 as a control. The RNAs present in the IPs were analyzed by microarray competitive hybridization against total RNAs (Input). Our goal was to identify the RNAs which are targetted, directly or indirectly, by these four proteins.
