Mapping In Vivo RNA Structures and Interactions
Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
Author(s)
Related Research Unit(s)
Detail(s)
| Original language | English |
|---|---|
| Pages (from-to) | 555-556 |
| Number of pages | 2 |
| Journal / Publication | Trends in Biochemical Sciences |
| Volume | 44 |
| Issue number | 6 |
| Online published | 7 Mar 2019 |
| Publication status | Published - Jun 2019 |
Link(s)
Abstract
RNA folds to form diverse secondary and tertiary structures and often interacts with other biomolecules to function in cells. The technologies developed to map in vivo RNA structures and interactions can be broadly classified into four categories.
(i) RNA structure probing: Methods based on chemical probing to modify RNA, followed by reverse transcriptase (RT) stop or mutation readout.
(ii) RNA–RNA interaction (RRI) mapping: Methods based on chemical crosslinking agents to capture direct RNA base pairs, followed by proximity ligation and reverse crosslinking.
(iii) RNA–DNA interaction mapping: Methods based on antisense hybridization probes to capture RNA-interacting DNA, bivalent linkers to ligate DNA with RNA in the vicinity, or split-pool tagging to label RNA–DNA interactions with specific barcodes.
(iv) RNA–protein interaction mapping: RNA-centric methods based on the combination of mass spectrometry with antisense hybridization probe pulldown or nucleoside analog labeling.
(i) RNA structure probing: Methods based on chemical probing to modify RNA, followed by reverse transcriptase (RT) stop or mutation readout.
(ii) RNA–RNA interaction (RRI) mapping: Methods based on chemical crosslinking agents to capture direct RNA base pairs, followed by proximity ligation and reverse crosslinking.
(iii) RNA–DNA interaction mapping: Methods based on antisense hybridization probes to capture RNA-interacting DNA, bivalent linkers to ligate DNA with RNA in the vicinity, or split-pool tagging to label RNA–DNA interactions with specific barcodes.
(iv) RNA–protein interaction mapping: RNA-centric methods based on the combination of mass spectrometry with antisense hybridization probe pulldown or nucleoside analog labeling.
Research Area(s)
- RNA structure, RNA interactions, next-generation sequencing, mass spectroscopy
Citation Format(s)
Mapping In Vivo RNA Structures and Interactions. / Zhao, Jieyu; Qian, Xingyang; Yeung, Pui Yan et al.
In: Trends in Biochemical Sciences, Vol. 44, No. 6, 06.2019, p. 555-556.Research output: Journal Publications and Reviews (RGC: 21, 22, 62) › 21_Publication in refereed journal › peer-review
