The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts [PAR-CLIP]

ABSTRACT: Protein-RNA interactions are fundamental to core biological processes, such as mRNA splicing, localization, degradation and translation. We developed a photoreactive nucleotide-enhanced UV crosslinking and oligo(dT) purification approach to identify the mRNA-bound proteome using quantitative proteomics and to display the protein occupancy on mRNA transcripts by next-generation sequencing. Application to a human embryonic kidney cell line identified close to 800 proteins. Close to one third of these proteins, were neither previously annotated nor could be functionally predicted to bind RNA. Protein occupancy profiling provides a transcriptome-wide catalog of potential cis-regulatory regions on mammalian mRNAs and showed that large stretches in 3' UTRs can be contacted by the mRNA-bound prot

ORGANISM(S): Homo sapiens

SUBMITTER: Markus Landthaler 

PROVIDER: E-GEOD-38201 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress