ReviewCold Spring Harbor perspectives in biology2018
The RNA Base-Pairing Problem and Base-Pairing Solutions.
Review in Cold Spring Harbor perspectives in biology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
20 citing papers in PubMed.
- RAP-RNA: A Methodological Approach to Study Base-Pairing Between Endogenous RNAs.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Decryption of sequence, structure, and functional features of SINE repeat elements in SINEUP non-coding RNA-mediated post-transcriptional gene regulation.Nature communications · 2024Article
- A Hitchhiker's guide to RNA-RNA structure and interaction prediction tools.Briefings in bioinformatics · 2023Review
- RNA structure determination: From 2D to 3D.Fundamental research · 2023Review
- Tudor-dimethylarginine interactions: the condensed version.Trends in biochemical sciences · 2023Review
- RNAcanvas: interactive drawing and exploration of nucleic acid structures.Nucleic acids research · 2023Article
- RNA levers and switches controlling viral gene expression.Trends in biochemical sciences · 2023Review
- Chemical RNA Cross-Linking: Mechanisms, Computational Analysis, and Biological Applications.JACS Au · 2023Review
- Chemical crosslinking and ligation methods for in vivo analysis of RNA structures and interactions.Methods in enzymology · 2023Article
- Classification and clustering of RNA crosslink-ligation data reveal complex structures and homodimers.Genome research · 2022Article
- Chemical reversible crosslinking enables measurement of RNA 3D distances and alternative conformations in cells.Nature communications · 2022Article
- Promising Assays for Examining a Putative Role of Ribosomal Heterogeneity in COVID-19 Susceptibility and Severity.Life (Basel, Switzerland) · 2022Review
- Role of Nuclear Non-Canonical Nucleic Acid Structures in Organismal Development and Adaptation to Stress Conditions.Frontiers in genetics · 2022Review
- Identifying proximal RNA interactions from cDNA-encoded crosslinks with ShapeJumper.PLoS computational biology · 2021Article
- Review
- Direct Mapping of Higher-Order RNA Interactions by SHAPE-JuMP.Biochemistry · 2021Article
- Computational modelling of flavivirus dynamics: The ins and outs.Methods (San Diego, Calif.) · 2021Review
- Structural modularity of the XIST ribonucleoprotein complex.Nature communications · 2020Article
- Intrinsic Regulatory Role of RNA Structural Arrangement in Alternative Splicing Control.International journal of molecular sciences · 2020Review
- A New View of Genome Organization Through RNA Directed Interactions.Frontiers in cell and developmental biology · 2020Article
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
RNA molecules are folded into structures and complexes to perform a wide variety of functions. Determination of RNA structures and their interactions is a fundamental problem in RNA biology. Most RNA molecules in living cells are large and dynamic, posing unique challenges to structure analysis. Here we review progress in RNA structure analysis, focusing on methods that use the "cross-link, proximally ligate, and sequence" principle for high-throughput detection of base-pairing interactions in living cells. Beginning with a comparison of commonly used methods in structure determination and a brief historical account of psoralen cross-linking studies, we highlight the important features of cross-linking methods and new biological insights into RNA structures and interactions from recent studies. Further improvement of these cross-linking methods and application to previously intractable problems will shed new light on the mechanisms of the "modern RNA world."
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.