ArticleMethods in molecular biology (Clifton, N.J.)2021
Purification and Structural Characterization of the Long Noncoding RNAs.
Article in Methods in molecular biology (Clifton, N.J.), 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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Who cites it
4 citing papers in PubMed, 7 citations in OpenAlex.
- LncRNA SChLAP1 Promotes Cancer Cell Proliferation and Invasion Via Its Distinct Structural Domains and Conserved Regions.Journal of molecular biology · 2025Article
- LncRNA-Protein Interactions: A Key to Deciphering LncRNA Mechanisms.Biomolecules · 2025Review
- Biomolecules Interacting with Long Noncoding RNAs.Biology · 2025Review
- A novel partnership between lncTCF7 and SND1 regulates the expression of the TCF7 gene via recruitment of the SWI/SNF complex.Scientific reports · 2024Article
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Long noncoding RNAs (lncRNAs) are now accepted as key players in diverse cellular functions, yet the structure-function relationships of these novel RNAs remain mostly unknown. Homogenous purification of lncRNAs is a necessary first-step for downstream structural studies. The large size of lncRNAs (often more than 1 kb) presents many unique challenges during the purification process. Here, we detail the purification of lncRNAs, including strategies to identify proper folding conditions of the target lncRNA. Next, we discuss two recently developed RNA structure probing techniques, SHAPE-MaP (SHAPE probing followed by mutational profiling) and DMS-MaP (DMS probing followed by mutational profiling). These techniques couple traditional RNA chemical probing methods with next-generation sequencing and allow high-throughput determination of RNA structures. Using the datasets resulting from these orthogonal probing experiments, we lay out the steps to determine and validate the secondary structure of the target lncRNA. Overall, this chapter details an adaptable protocol that can lead to a better understanding of the structure-function relationships of lncRNAs.
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Registered trials
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