ArticleProceedings of the National Academy of Sciences of the United States of America2009
Elongation dynamics shape bursty transcription and translation.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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Who cites it
54 citing papers in PubMed, 134 citations in OpenAlex.
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- Bayesian inference of polymerase dynamics over the exclusion process.Royal Society open science · 2023Article
- Inferring transcriptional bursting kinetics from single-cell snapshot data using a generalized telegraph model.Royal Society open science · 2023Article
- Ultradeep characterisation of translational sequence determinants refutes rare-codon hypothesis and unveils quadruplet base pairing of initiator tRNA and transcript.Nucleic acids research · 2023Article
- Collective polymerase dynamics emerge from DNA supercoiling during transcription.Biophysical journal · 2022Article
- Dynamic gene expression and growth underlie cell-to-cell heterogeneity inProceedings of the National Academy of Sciences of the United States of America · 2022Article
- Timing RNA polymerase pausing with TV-PRO-seq.Cell reports methods · 2021Article
- RNA polymerase backtracking results in the accumulation of fission yeast condensin at active genes.Life science alliance · 2021Article
- A hierarchical regulatory network analysis of the vitamin D induced transcriptome reveals novel regulators and complete VDR dependency in monocytes.Scientific reports · 2021Article
- The effects of codon bias and optimality on mRNA and protein regulation.Cellular and molecular life sciences : CMLS · 2021Review
- 3Genome biology · 2021Article
- Fruit ripening in Lycium barbarum and Lycium ruthenicum is associated with distinct gene expression patterns.FEBS open bio · 2020Article
- Stochastic allelic expression as trigger for contractile imbalance in hypertrophic cardiomyopathy.Biophysical reviews · 2020Review
- Probing Mechanisms of Transcription Elongation Through Cell-to-Cell Variability of RNA Polymerase.Biophysical journal · 2020Article
- Transcriptomic and metabolomic analyses of Lycium ruthenicum and Lycium barbarum fruits during ripening.Scientific reports · 2020Article
- Constraining the complexity of promoter dynamics using fluctuations in gene expression.Physical biology · 2019Article
- Expression patterns of kiss2 and gpr54-2 in Monopterus albus suggest these genes may play a role in sex reversal in fish.FEBS open bio · 2019Article
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2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Cells in isogenic populations may differ substantially in their molecular make up because of the stochastic nature of molecular processes. Stochastic bursts in process activity have a great potential for generating molecular noise. They are characterized by (short) periods of high process activity followed by (long) periods of process silence causing different cells to experience activity periods varying in size, duration, and timing. We present an analytically solvable model of bursts in molecular networks, originally developed for the analysis of telecommunication networks. We define general measures for model-independent characterization of bursts (burst size, significance, and duration) from stochastic time series. Inspired by the discovery of bursts in mRNA and protein production by others, we use those indices to investigate the role of stochastic motion of motor proteins along biopolymer chains in determining burst properties. Collisions between neighboring motor proteins can attenuate bursts introduced at the initiation site on the chain. Pausing of motor proteins can give rise to bursts. We investigate how these effects are modulated by the length of the biopolymer chain and the kinetic properties of motion. We discuss the consequences of those results for transcription and translation.
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