ArticleBiophysical journal2008
Fluctuations, pauses, and backtracking in DNA transcription.
Article in Biophysical journal, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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Who cites it
37 citing papers in PubMed.
- Analysis of a detailed multi-stage model of stochastic gene expression using queueing theory and model reduction.Mathematical biosciences · 2024Article
- Stochastic modeling of the mRNA life process: A generalized master equation.Biophysical journal · 2023Article
- Inference on autoregulation in gene expression with variance-to-mean ratio.Journal of mathematical biology · 2023Article
- Basic mechanisms and kinetics of pause-interspersed transcript elongation.Nucleic acids research · 2021Review
- Probing Mechanisms of Transcription Elongation Through Cell-to-Cell Variability of RNA Polymerase.Biophysical journal · 2020Article
- Effects of mRNA Degradation and Site-Specific Transcriptional Pausing on Protein Expression Noise.Biophysical journal · 2018Article
- A DNA-centered explanation of the DNA polymerase translocation mechanism.Scientific reports · 2017Article
- Crowding-induced transcriptional bursts dictate polymerase and nucleosome density profiles along genes.Nucleic acids research · 2017Article
- Multiplexed gene control reveals rapid mRNA turnover.Science advances · 2017Article
- Stochastic Kinetics of Nascent RNA.Physical review letters · 2016Article
- Transcription Dynamics in Living Cells.Annual review of biophysics · 2016Review
- Time-Delayed Models of Gene Regulatory Networks.Computational and mathematical methods in medicine · 2015Review
- Article
- Noise in biology.Reports on progress in physics. Physical Society (Great Britain) · 2014Review
- Studying genomic processes at the single-molecule level: introducing the tools and applications.Nature reviews. Genetics · 2013Review
- Nascent RNA structure modulates the transcriptional dynamics of RNA polymerases.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- Live imaging of nascent RNA dynamics reveals distinct types of transcriptional pulse regulation.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- A systems view of the protein expression process.Systems and synthetic biology · 2011Article
- Modelling reveals kinetic advantages of co-transcriptional splicing.PLoS computational biology · 2011Article
- Development of a "modular" scheme to describe the kinetics of transcript elongation by RNA polymerase.Biophysical journal · 2011Article
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4 authors.
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Abstract
Transcription is a vital stage in the process of gene expression and a major contributor to fluctuations in gene expression levels for which it is typically modeled as a single-step process with Poisson statistics. However, recent single molecule experiments raise questions about the validity of such a simple single-step picture. We present a molecular multistep model of transcription elongation that demonstrates that transcription times are in general non-Poisson-distributed. In particular, we model transcriptional pauses due to backtracking of the RNA polymerase as a first passage process. By including such pauses, we obtain a broad, heavy-tailed distribution of transcription elongation times, which can be significantly longer than would be otherwise. When transcriptional pauses result in long transcription times, we demonstrate that this naturally leads to bursts of mRNA production and non-Poisson statistics of mRNA levels. These results suggest that transcriptional pauses may be a significant contributor to the variability in transcription rates with direct implications for noise in cellular processes as well as variability between cells.
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