Matches in SemOpenAlex for { <https://semopenalex.org/work/W2084254758> ?p ?o ?g. }
Showing items 1 to 95 of
95
with 100 items per page.
- W2084254758 endingPage "85" @default.
- W2084254758 startingPage "76" @default.
- W2084254758 abstract "RNA-binding proteins (RBPs) are intimately involved in all aspects of RNA processing and regulation and are linked to neurodegenerative diseases and cancer. Therefore, investigating the relationship between RBPs and their RNA targets is critical for a broader understanding of post-transcriptional regulation in normal and disease processes. The majority of approaches to study RNA–protein interactions interrogate only individual RBPs. However, there are hundreds of these proteins encoded in the human genome, and each cell type expresses a different repertoire, greatly limiting the ability of current methods to capture the global landscape of RNA–protein interactions. To address this gap, we and others have recently developed methods to globally identify regions of RNAs that are bound by proteins in an unbiased manner. Here, we describe a detailed protocol for performing our ribonuclease-mediated protein footprint sequencing approach, termed protein interaction profile sequencing (PIP-seq). In this protocol, RNA–protein interactions are stabilized by cross-linking, and unbound regions are digested with ribonucleases (RNases), leaving only the protein-bound regions intact. To control for RNase insensitive regions, proteins are first denatured and degraded, then protein-depleted RNAs are subjected to RNase treatment. After high-throughput sequencing of the remaining fragments, peak calling is performed to identify protein-protected sites (PPSs). We describe the application of this protocol to a human embryonic kidney cell line (HEK293T) and perform basic quality control, reproducibility, and benchmarking analyses. Finally, we delineate the landscape of protein-interactions in HEK293T cells, underscoring the value of this approach. Future applications of this method to study the dynamics of RNA–protein interactions in developmental and disease processes will help to further uncover the role of RBPs in post-transcriptional regulation." @default.
- W2084254758 created "2016-06-24" @default.
- W2084254758 creator A5027736631 @default.
- W2084254758 creator A5028356265 @default.
- W2084254758 date "2015-01-01" @default.
- W2084254758 modified "2023-10-18" @default.
- W2084254758 title "Transcriptome-wide ribonuclease-mediated protein footprinting to identify RNA–protein interaction sites" @default.
- W2084254758 cites W1964303464 @default.
- W2084254758 cites W1966985603 @default.
- W2084254758 cites W1967703437 @default.
- W2084254758 cites W1970827552 @default.
- W2084254758 cites W1978883675 @default.
- W2084254758 cites W1981898947 @default.
- W2084254758 cites W1983612365 @default.
- W2084254758 cites W1986911150 @default.
- W2084254758 cites W1994910752 @default.
- W2084254758 cites W2008410413 @default.
- W2084254758 cites W2034815247 @default.
- W2084254758 cites W2039357236 @default.
- W2084254758 cites W2040481343 @default.
- W2084254758 cites W2041440237 @default.
- W2084254758 cites W2050108172 @default.
- W2084254758 cites W2053003053 @default.
- W2084254758 cites W2053998703 @default.
- W2084254758 cites W2073424121 @default.
- W2084254758 cites W2079517684 @default.
- W2084254758 cites W2102619694 @default.
- W2084254758 cites W2105694586 @default.
- W2084254758 cites W2108191354 @default.
- W2084254758 cites W2108234281 @default.
- W2084254758 cites W2114532236 @default.
- W2084254758 cites W2120579499 @default.
- W2084254758 cites W2134045916 @default.
- W2084254758 cites W2138296380 @default.
- W2084254758 cites W2140729960 @default.
- W2084254758 cites W2159249646 @default.
- W2084254758 cites W2161845758 @default.
- W2084254758 cites W2551589685 @default.
- W2084254758 cites W3106930452 @default.
- W2084254758 doi "https://doi.org/10.1016/j.ymeth.2014.10.021" @default.
- W2084254758 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/25448484" @default.
- W2084254758 hasPublicationYear "2015" @default.
- W2084254758 type Work @default.
- W2084254758 sameAs 2084254758 @default.
- W2084254758 citedByCount "12" @default.
- W2084254758 countsByYear W20842547582015 @default.
- W2084254758 countsByYear W20842547582016 @default.
- W2084254758 countsByYear W20842547582018 @default.
- W2084254758 countsByYear W20842547582019 @default.
- W2084254758 countsByYear W20842547582021 @default.
- W2084254758 countsByYear W20842547582022 @default.
- W2084254758 crossrefType "journal-article" @default.
- W2084254758 hasAuthorship W2084254758A5027736631 @default.
- W2084254758 hasAuthorship W2084254758A5028356265 @default.
- W2084254758 hasConcept C104317684 @default.
- W2084254758 hasConcept C10879258 @default.
- W2084254758 hasConcept C2778021871 @default.
- W2084254758 hasConcept C41282012 @default.
- W2084254758 hasConcept C54355233 @default.
- W2084254758 hasConcept C67705224 @default.
- W2084254758 hasConcept C70721500 @default.
- W2084254758 hasConcept C86339819 @default.
- W2084254758 hasConcept C86803240 @default.
- W2084254758 hasConceptScore W2084254758C104317684 @default.
- W2084254758 hasConceptScore W2084254758C10879258 @default.
- W2084254758 hasConceptScore W2084254758C2778021871 @default.
- W2084254758 hasConceptScore W2084254758C41282012 @default.
- W2084254758 hasConceptScore W2084254758C54355233 @default.
- W2084254758 hasConceptScore W2084254758C67705224 @default.
- W2084254758 hasConceptScore W2084254758C70721500 @default.
- W2084254758 hasConceptScore W2084254758C86339819 @default.
- W2084254758 hasConceptScore W2084254758C86803240 @default.
- W2084254758 hasFunder F4320306076 @default.
- W2084254758 hasFunder F4320337354 @default.
- W2084254758 hasLocation W20842547581 @default.
- W2084254758 hasLocation W20842547582 @default.
- W2084254758 hasOpenAccess W2084254758 @default.
- W2084254758 hasPrimaryLocation W20842547581 @default.
- W2084254758 hasRelatedWork W1685412793 @default.
- W2084254758 hasRelatedWork W2076611050 @default.
- W2084254758 hasRelatedWork W2520875945 @default.
- W2084254758 hasRelatedWork W2984813144 @default.
- W2084254758 hasRelatedWork W3080365360 @default.
- W2084254758 hasRelatedWork W3130271948 @default.
- W2084254758 hasRelatedWork W3161953310 @default.
- W2084254758 hasRelatedWork W3186293671 @default.
- W2084254758 hasRelatedWork W3200936978 @default.
- W2084254758 hasRelatedWork W4285078464 @default.
- W2084254758 hasVolume "72" @default.
- W2084254758 isParatext "false" @default.
- W2084254758 isRetracted "false" @default.
- W2084254758 magId "2084254758" @default.
- W2084254758 workType "article" @default.