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DMS-MaPseq for Genome-Wide or Targeted RNA Structure Probing In Vitro and In Vivo.
- Source :
-
Methods in molecular biology (Clifton, N.J.) [Methods Mol Biol] 2021; Vol. 2254, pp. 219-238. - Publication Year :
- 2021
-
Abstract
- DMS-MaPseq is a chemical probing method combined with high throughput sequencing used to study RNA structure. Here we present a flexible protocol for adherent and suspension mammalian cells to analyze RNA structure in vitro or in vivo. The protocol provides instruction on either a targeted sequencing of a lncRNA of interest or a transcriptome-wide approach that provides structural data on all expressed RNAs, including lncRNAs. This technique is particularly useful for comparing in vitro and in vivo structure of RNAs, determining how mutations and polymorphisms with phenotypic effects influence RNA structure and analyzing RNA structure across the entire transcriptome.
- Subjects :
- Animals
Gene Expression Profiling
Gene Expression Regulation
HEK293 Cells
High-Throughput Nucleotide Sequencing
Humans
Nucleic Acid Conformation
RNA, Long Noncoding genetics
RNA, Messenger genetics
Sequence Analysis, RNA
Computational Biology methods
Mutation
RNA, Long Noncoding chemistry
RNA, Messenger chemistry
Subjects
Details
- Language :
- English
- ISSN :
- 1940-6029
- Volume :
- 2254
- Database :
- MEDLINE
- Journal :
- Methods in molecular biology (Clifton, N.J.)
- Publication Type :
- Academic Journal
- Accession number :
- 33326078
- Full Text :
- https://doi.org/10.1007/978-1-0716-1158-6_13