ArticleMethods (San Diego, Calif.)2019
Analysis of spliceosome dynamics by maximum likelihood fitting of dwell time distributions.
Article in Methods (San Diego, Calif.), 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Metastable Folding of Bacillus subtilis glmS Ribozyme Modulates Turnover by RNase J1.Journal of molecular biology · 2026Article
- RNA modifications and Prp24 coordinate Lsm2-8 binding dynamics during S. cerevisiae U6 snRNP assembly.The Journal of biological chemistry · 2025Article
- Disassembly of unstable RNA structures by an E. coli DEAD-box chaperone accelerates ribosome assembly.Nucleic acids research · 2025Article
- Dynamics and evolutionary conservation of B complex protein recruitment during spliceosome activation.Nucleic acids research · 2025Article
- A sequential binding mechanism for 5' splice site recognition and modulation for the human U1 snRNP.Nature communications · 2024Article
- Dynamics and Evolutionary Conservation of B Complex Protein Recruitment During Spliceosome Activation.bioRxiv : the preprint server for biology · 2024Article
- A Sequential Binding Mechanism for 5' Splice Site Recognition and Modulation for the Human U1 snRNP.bioRxiv : the preprint server for biology · 2024Article
- Single-molecule quantitation of RNA-binding protein occupancy and stoichiometry defines a role for Yra1 (Aly/REF) in nuclear mRNP organization.Cell reports · 2023Article
- Identification of transient intermediates during spliceosome activation by single molecule fluorescence microscopy.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Article
- Single-Molecule FRET Studies of RNA Structural Rearrangements and RNA-RNA Interactions.Methods in molecular biology (Clifton, N.J.) · 2022Article
- KERA: analysis tool for multi-process, multi-state single-molecule data.Nucleic acids research · 2021Article
- Dynamics of the DEAD-box ATPase Prp5 RecA-like domains provide a conformational switch during spliceosome assembly.Nucleic acids research · 2019Article
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Authors and funding
5 authors.
Funding
Abstract
Colocalization single-molecule methods can provide a wealth of information concerning the ordering and dynamics of biomolecule assembly. These have been used extensively to study the pathways of spliceosome assembly in vitro. Key to these experiments is the measurement of binding times-either the dwell times of a multi-molecular interaction or times in between binding events. By analyzing hundreds of these times, many new insights into the kinetic pathways governing spliceosome assembly have been obtained. Collections of binding times are often plotted as histograms and can be fit to kinetic models using a variety of methods. Here, we describe the use of maximum likelihood methods to fit dwell time distributions without binning. In addition, we discuss several aspects of analyzing these distributions with histograms and pitfalls that can be encountered if improperly binned histograms are used. We have automated several aspects of maximum likelihood fitting of dwell time distributions in the AGATHA software package.
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