ArticleNature communications2017
Nanopore electric snapshots of an RNA tertiary folding pathway.
Article in Nature communications, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- Structural and Kinetic Profiling of Rolling Circle Amplification via Solid-State Nanopore Sensing Using miR-21 as a Model.ACS sensors · 2025Article
- Advancing synthesis-free and enzyme-free rewritable DNA memory through frameshift encoding and nanopore duplex interruption decoding.PNAS nexus · 2025Article
- T-S2Inet: Transformer-based sequence-to-image network for accurate nanopore sequence recognition.Bioinformatics (Oxford, England) · 2024Article
- Real-time label-free detection of dynamic aptamer-small molecule interactions using a nanopore nucleic acid conformational sensor.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Active learning for efficient analysis of high-throughput nanopore data.Bioinformatics (Oxford, England) · 2023Article
- [Unsupervised deep learning for identifying the OSheng wu yi xue gong cheng xue za zhi = Journal of biomedical engineering = Shengwu yixue gongchengxue zazhi · 2022Article
- Promising Assays for Examining a Putative Role of Ribosomal Heterogeneity in COVID-19 Susceptibility and Severity.Life (Basel, Switzerland) · 2022Review
- Biomotors, viral assembly, and RNA nanobiotechnology: Current achievements and future directions.Computational and structural biotechnology journal · 2022Review
- Modeling Noncanonical RNA Base Pairs by a Coarse-Grained IsRNA2 Model.The journal of physical chemistry. B · 2021Article
- Structural-profiling of low molecular weight RNAs by nanopore trapping/translocation using Mycobacterium smegmatis porin A.Nature communications · 2021Article
- IsRNA1:Journal of chemical theory and computation · 2021Article
- RNA Pore Translocation with Static and Periodic Forces: Effect of Secondary and Tertiary Elements on Process Activation and Duration.The journal of physical chemistry. B · 2021Article
- Programmed -1 ribosomal frameshifting from the perspective of the conformational dynamics of mRNA and ribosomes.Computational and structural biotechnology journal · 2021Review
- A Bayes-inspired theory for optimally building an efficient coarse-grained folding force field.Communications in information and systems · 2021Article
- Ribosome Fingerprinting with a Solid-State Nanopore.ACS sensors · 2020Article
- Molecular mechanisms underlying the extreme mechanical anisotropy of the flaviviral exoribonuclease-resistant RNAs (xrRNAs).Nature communications · 2020Article
- Modeling Loop Composition and Ion Concentration Effects in RNA Hairpin Folding Stability.Biophysical journal · 2020Article
- Label-free single-molecule identification of telomere G-quadruplexes with a solid-state nanopore sensor.RSC advances · 2020Article
- Exploration of solid-state nanopores in characterizing reaction mixtures generated from a catalytic DNA assembly circuit.Chemical science · 2019Article
- A Nanopore Phosphorylation Sensor for Single Oligonucleotides and Peptides.Research (Washington, D.C.) · 2019Article
Corrections and comments
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Authors and funding
10 authors.
Funding
Abstract
The chemical properties and biological mechanisms of RNAs are determined by their tertiary structures. Exploring the tertiary structure folding processes of RNA enables us to understand and control its biological functions. Here, we report a nanopore snapshot approach combined with coarse-grained molecular dynamics simulation and master equation analysis to elucidate the folding of an RNA pseudoknot structure. In this approach, single RNA molecules captured by the nanopore can freely fold from the unstructured state without constraint and can be programmed to terminate their folding process at different intermediates. By identifying the nanopore signatures and measuring their time-dependent populations, we can "visualize" a series of kinetically important intermediates, track the kinetics of their inter-conversions, and derive the RNA pseudoknot folding pathway. This approach can potentially be developed into a single-molecule toolbox to investigate the biophysical mechanisms of RNA folding and unfolding, its interactions with ligands, and its functions.
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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.