Genome-wide binding sites of RBM46 in mouse testes.
Ontology highlight
ABSTRACT: We carried out RBM46 eCLIP-seq (enhanced cross-linking immunoprecipitation coupled with sequencing) in wild-type testes and reported genome-wide occupancy of RBM46 in mouse testes.
Project description:Revealing the binding sites of endogenous SF3B1 using HITS-CLIP (high-throughput sequencing coupled with cross-linking immunoprecipitation).
Project description:To profile RNA targets of NKAPL on chromatin, we performed eCLIP-seq (enhanced crosslinking immunoprecipitation coupled with sequencing) using 21d wild-type mouse testes.
Project description:UV cross-linking and immunoprecipitation (CLIP) methodologies enable the identification of RNA binding sites of RNA-binding proteins (RBPs). Despite improvements in the library preparation of RNA fragments, the current enhanced CLIP (eCLIP) protocol still requires ~4 days of hands-on time and lacks the ability to scale. We present a new method termed antibody barcode CLIP (ABC) that utilizes DNA-barcoded antibodies to multiplex CLIP detection methods. We demonstrate the scalability and simplicity of ABC by performing CLIP on multiple RBPs simultaneously, minimizing sample-to-sample variation, and maintaining the same material requirement for a single eCLIP experiment.
Project description:Here we use DamID to identify Esg binding sites in Drosophila testes in order to investigate how it maintains somatic cyst stem cells.
Project description:We produced enhanced cross-linking immunoprecipitation (eCLIP) sequencing data of the RNA binding proteins (RBP) TDP-43, NOVA1, NOVA2 and RBFOX2 in iPSC motor neurons of two healthy control individuals, respectively.
Project description:We report the application of the Cross-Linking and cDNA (CRAC) technique to identify binding sites of Npa1, ribosome assembly factors, on RNAs in vivo.