eprintid: 10044779
rev_number: 21
eprint_status: archive
userid: 608
dir: disk0/10/04/47/79
datestamp: 2018-03-07 14:35:02
lastmod: 2021-09-25 23:36:05
status_changed: 2018-03-07 14:35:02
type: article
metadata_visibility: show
creators_name: Lee, FCY
creators_name: Ule, J
title: Advances in CLIP Technologies for Studies of Protein-RNA Interactions
ispublished: pub
divisions: UCL
divisions: B02
divisions: C07
divisions: D07
divisions: F85
keywords: Science & Technology, Life Sciences & Biomedicine, Biochemistry & Molecular Biology, Cell Biology, TRANSCRIPTOME-WIDE IDENTIFICATION, SINGLE-NUCLEOTIDE-RESOLUTION, SMALL NUCLEAR RNAS, BINDING PROTEINS, HITS-CLIP, CROSS-LINKING, IN-VIVO, RIBONUCLEOPROTEIN COMPLEXES, MESSENGER-RNAS, TARGET SITES
note: Crown Copyright © 2018 Published by Elsevier Inc. This version is the author accepted manuscript. For information on re-use, please refer to the publisher’s terms and conditions.
abstract: RNA binding proteins (RBPs) regulate all aspects in the life cycle of RNA molecules. To elucidate the elements that guide RNA specificity, regulatory mechanisms, and functions of RBPs, methods that identify direct endogenous protein-RNA interactions are particularly valuable. UV crosslinking and immunoprecipitation (CLIP) purifies short RNA fragments that crosslink to a specific protein and then identifies these fragments by sequencing. When combined with high-throughput sequencing, CLIP can produce transcriptome-wide maps of RNA crosslink sites. The protocol is comprised of several dozen biochemical steps, and improvements made over the last 15 years have increased its resolution, sensitivity, and convenience. Adaptations of CLIP are also emerging in the epitranscriptomic field to map the positions of RNA modifications accurately. Here, we describe the rationale for each step in the protocol and discuss the impact of variations to help users determine the most suitable option.
date: 2018-02-01
date_type: published
publisher: CELL PRESS
official_url: http://doi.org/10.1016/j.molcel.2018.01.005
oa_status: green
full_text_type: other
language: eng
primo: open
primo_central: open_green
article_type_text: Review
verified: verified_manual
elements_id: 1535707
doi: 10.1016/j.molcel.2018.01.005
lyricists_name: Lee, Flora
lyricists_name: Ule, Jernej
lyricists_id: FCYLE55
lyricists_id: JULEX61
actors_name: Ule, Jernej
actors_id: JULEX61
actors_role: owner
full_text_status: public
publication: Molecular Cell
volume: 69
number: 3
pagerange: 354-369
pages: 16
issn: 1097-4164
citation:        Lee, FCY;    Ule, J;      (2018)    Advances in CLIP Technologies for Studies of Protein-RNA Interactions.                   Molecular Cell , 69  (3)   pp. 354-369.    10.1016/j.molcel.2018.01.005 <https://doi.org/10.1016/j.molcel.2018.01.005>.       Green open access   
 
document_url: https://discovery.ucl.ac.uk/id/eprint/10044779/1/combined%20file.pdf