ArticleBiophysical journal2018
Distribution of Initiation Times Reveals Mechanisms of Transcriptional Regulation in Single Cells.
Article in Biophysical journal, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
9 citing papers in PubMed, 20 citations in OpenAlex.
- Deciphering HIV-1 Transcription Initiation and Elongation from Single-Molecule Imaging Data.Research (Washington, D.C.) · 2025Article
- RNA polymerase sliding on DNA can couple the transcription of nearby bacterial operons.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- RNA polymerase sliding on DNA can couple the transcription of nearby bacterial operons.bioRxiv : the preprint server for biology · 2023Article
- Real-time single-cell characterization of the eukaryotic transcription cycle reveals correlations between RNA initiation, elongation, and cleavage.PLoS computational biology · 2021Article
- Article
- First-principles prediction of the information processing capacity of a simple genetic circuit.Physical review. E · 2020Article
- Probing Mechanisms of Transcription Elongation Through Cell-to-Cell Variability of RNA Polymerase.Biophysical journal · 2020Article
- Short Residence Times of DNA-Bound Transcription Factors Can Reduce Gene Expression Noise and Increase the Transmission of Information in a Gene Regulation System.Frontiers in molecular biosciences · 2020Article
- Constraining the complexity of promoter dynamics using fluctuations in gene expression.Physical biology · 2019Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Transcription is the dominant point of control of gene expression. Biochemical studies have revealed key molecular components of transcription and their interactions, but the dynamics of transcription initiation in cells is still poorly understood. This state of affairs is being remedied with experiments that observe transcriptional dynamics in single cells using fluorescent reporters. Quantitative information about transcription initiation dynamics can also be extracted from experiments that use electron micrographs of RNA polymerases caught in the act of transcribing a gene (Miller spreads). Inspired by these data, we analyze a general stochastic model of transcription initiation and elongation and compute the distribution of transcription initiation times. We show that different mechanisms of initiation leave distinct signatures in the distribution of initiation times that can be compared to experiments. We analyze published data from micrographs of RNA polymerases transcribing ribosomal RNA genes in Escherichia coli and compare the observed distributions of interpolymerase distances with the predictions from previously hypothesized mechanisms for the regulation of these genes. Our analysis demonstrates the potential of measuring the distribution of time intervals between initiation events as a probe for dissecting mechanisms of transcription initiation in live cells.
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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.