ArticleNature communications2018
uvCLAP is a fast and non-radioactive method to identify in vivo targets of RNA-binding proteins.
Article in Nature communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 29 citations in OpenAlex.
- Signal or noise? RNA-binding proteins and the challenges of binding site assignments.Nucleic acids research · 2026Review
- Proteoform medicine: characterizing and targeting protein forms in human disease.Nature reviews. Genetics · 2026Review
- Progress and challenges in profiling protein-RNA and protein-associated RNA-RNA interactions.RNA (New York, N.Y.) · 2026Review
- Denaturing purifications demonstrate that PRC2 and other widely reported chromatin proteins do not appear to bind directly to RNA in vivo.Molecular cell · 2024Article
- Advantages and limitations of UV cross-linking analysis of protein-RNA interactomes in microbes.Molecular microbiology · 2023Review
- RNA splicing analysis using heterogeneous and large RNA-seq datasets.Nature communications · 2023Article
- RNA and Protein Interactomes of an RNA-Binding Protein Tagged with FLAG Epitopes Using Combinatory Approaches of Genome Engineering and Stable Transfection.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Phospho-RNA sequencing with circAID-p-seq.Nucleic acids research · 2022Article
- Comparison of viral RNA-host protein interactomes across pathogenic RNA viruses informs rapid antiviral drug discovery for SARS-CoV-2.Cell research · 2022Article
- The Landscape of RNA-Protein Interactions in Plants: Approaches and Current Status.International journal of molecular sciences · 2021Review
- Galaxy CLIP-Explorer: a web server for CLIP-Seq data analysis.GigaScience · 2020Article
- FLASH: ultra-fast protocol to identify RNA-protein interactions in cells.Nucleic acids research · 2020Article
- RNAInter in 2020: RNA interactome repository with increased coverage and annotation.Nucleic acids research · 2020Article
- RNA-protein interactions: disorder, moonlighting and junk contribute to eukaryotic complexity.Open biology · 2019Review
- Beyond CLIP: advances and opportunities to measure RBP-RNA and RNA-RNA interactions.Nucleic acids research · 2019Review
- CAPRI enables comparison of evolutionarily conserved RNA interacting regions.Nature communications · 2019Article
- Catching a SPY: Using the SpyCatcher-SpyTag and Related Systems for Labeling and Localizing Bacterial Proteins.International journal of molecular sciences · 2019Review
- lncRedibly versatile: biochemical and biological functions of long noncoding RNAs.The Biochemical journal · 2019Review
- SpyCLIP: an easy-to-use and high-throughput compatible CLIP platform for the characterization of protein-RNA interactions with high accuracy.Nucleic acids research · 2019Article
- A mutually exclusive stem-loop arrangement in roX2 RNA is essential for X-chromosome regulation inGenes & development · 2017Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
RNA-binding proteins (RBPs) play important and essential roles in eukaryotic gene expression regulating splicing, localization, translation, and stability of mRNAs. We describe ultraviolet crosslinking and affinity purification (uvCLAP), an easy-to-use, robust, reproducible, and high-throughput method to determine in vivo targets of RBPs. uvCLAP is fast and does not rely on radioactive labeling of RNA. We investigate binding of 15 RBPs from fly, mouse, and human cells to test the method's performance and applicability. Multiplexing of signal and control libraries enables straightforward comparison of samples. Experiments for most proteins achieve high enrichment of signal over background. A point mutation and a natural splice isoform that change the RBP subcellular localization dramatically alter target selection without changing the targeted RNA motif, showing that compartmentalization of RBPs can be used as an elegant means to generate RNA target specificity.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.