ArticlePLoS computational biology2011
Modelling reveals kinetic advantages of co-transcriptional splicing.
Article in PLoS computational biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed.
- Article
- Kinetic pathway of HIV-1 TAR cotranscriptional folding.Nucleic acids research · 2024Article
- Position-dependent effects of RNA-binding proteins in the context of co-transcriptional splicing.NPJ systems biology and applications · 2023Article
- Landscape Zooming toward the Prediction of RNA Cotranscriptional Folding.Journal of chemical theory and computation · 2022Article
- Revisiting the window of opportunity for cotranscriptional splicing in budding yeast.RNA (New York, N.Y.) · 2020Article
- Article
- Mathematical modeling identifies potential gene structure determinants of co-transcriptional control of alternative pre-mRNA splicing.Nucleic acids research · 2018Article
- Perfect timing: splicing and transcription rates in living cells.Wiley interdisciplinary reviews. RNA · 2017Review
- Introns regulate the production of ribosomal proteins by modulating splicing of duplicated ribosomal protein genes.Nucleic acids research · 2016Article
- Cutting a Long Intron Short: Recursive Splicing and Its Implications.Frontiers in physiology · 2016Article
- Considering the kinetics of mRNA synthesis in the analysis of the genome and epigenome reveals determinants of co-transcriptional splicing.Nucleic acids research · 2015Article
- Quantification of pre-mRNA escape rate and synergy in splicing.Nucleic acids research · 2014Article
- Kinetic competition during the transcription cycle results in stochastic RNA processing.eLife · 2014Article
- H2B ubiquitylation modulates spliceosome assembly and function in budding yeast.Biology of the cell · 2014Article
- A splicing-dependent transcriptional checkpoint associated with prespliceosome formation.Molecular cell · 2014Article
- Adventures in time and space: splicing efficiency and RNA polymerase II elongation rate.RNA biology · 2014Review
- A rule-based kinetic model of RNA polymerase II C-terminal domain phosphorylation.Journal of the Royal Society, Interface · 2013Article
- From structure to systems: high-resolution, quantitative genetic analysis of RNA polymerase II.Cell · 2013Article
- Nested sampling for parameter inference in systems biology: application to an exemplar circadian model.BMC systems biology · 2013Article
- Complexity of RNA polymerase II elongation dynamics.Biochimica et biophysica acta · 2012Review
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
Messenger RNA splicing is an essential and complex process for the removal of intron sequences. Whereas the composition of the splicing machinery is mostly known, the kinetics of splicing, the catalytic activity of splicing factors and the interdependency of transcription, splicing and mRNA 3' end formation are less well understood. We propose a stochastic model of splicing kinetics that explains data obtained from high-resolution kinetic analyses of transcription, splicing and 3' end formation during induction of an intron-containing reporter gene in budding yeast. Modelling reveals co-transcriptional splicing to be the most probable and most efficient splicing pathway for the reporter transcripts, due in part to a positive feedback mechanism for co-transcriptional second step splicing. Model comparison is used to assess the alternative representations of reactions. Modelling also indicates the functional coupling of transcription and splicing, because both the rate of initiation of transcription and the probability that step one of splicing occurs co-transcriptionally are reduced, when the second step of splicing is abolished in a mutant reporter.
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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.