CRISPR-assisted detection of RNA–protein interactions in living cells

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

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Author(s)

  • Wenkai Yi
  • Xi Wang
  • Ligang Fan
  • Wenju Sun
  • Linbu Liao
  • Jilin Zhang
  • Xiaoyu Li
  • Jing Ye
  • Fulin Chen
  • Jussi Taipale

Detail(s)

Original languageEnglish
Pages (from-to)685–688
Number of pages4
Journal / PublicationNature Methods
Volume17
Issue number7
Online published22 Jun 2020
Publication statusPublished - Jul 2020

Abstract

We have developed CRISPR-assisted RNA–protein interaction detection method (CARPID), which leverages CRISPR–CasRx-based RNA targeting and proximity labeling to identify binding proteins of specific long non-coding RNAs (lncRNAs) in the native cellular context. We applied CARPID to the nuclear lncRNA XIST, and it captured a list of known interacting proteins and multiple previously uncharacterized binding proteins. We generalized CARPID to explore binders of the lncRNAs DANCR and MALAT1, revealing the method’s wide applicability in identifying RNA-binding proteins.

Citation Format(s)

CRISPR-assisted detection of RNA–protein interactions in living cells. / Yi, Wenkai; Li, Jingyu; Zhu, Xiaoxuan; Wang, Xi; Fan, Ligang; Sun, Wenju; Liao, Linbu; Zhang, Jilin; Li, Xiaoyu; Ye, Jing; Chen, Fulin; Taipale, Jussi; Chan, Kui Ming; Zhang, Liang; Yan, Jian.

In: Nature Methods, Vol. 17, No. 7, 07.2020, p. 685–688.

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal