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Data for 3'-5' crosstalk contributes to transcriptional bursting
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Cavallaro, Massimo, Walsh, Mark David, Jones, Matt, Teahan, James, Tiberi, Simone, Finkenstädt, Bärbel and Hebenstreit, Daniel (2021) Data for 3'-5' crosstalk contributes to transcriptional bursting. [Dataset]
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Official URL: http://doi.org/10.5281/zenodo.4304833
Abstract
Transcription in mammalian cells is a complex stochastic process involving shuttling of polymerase between genes and phase-separated liquid condensates. It occurs in bursts, which results in vastly different numbers of an mRNA species in isogenic cell populations. Several factors contributing to “transcriptional bursting” have been identified, usually classified as intrinsic, i.e., local to single genes, or extrinsic, relating to the macroscopic state of the cell. However, each factor only accounts partially for the observed phenomenon, and some possible contributors have not been explored yet. We investigate processes at the 3’ and 5’ ends of a gene that enable reinitiation of transcription upon termination. Using an interdisciplinary approach, we measured the transcriptional bursting at a set of inducible transgenes with sufficient accuracy and precision to unveil significant patterns. We find that perturbation of polymerase shuttling typically reduces the average burst size and increases the burst frequency, thus limiting transcriptional noise. The observed noise patterns are reproduced by a generative model that captures major characteristics of the polymerase flux between a gene and a phase-separated compartment.
| Item Type: | Dataset | |||||||||
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| Subjects: | Q Science > QA Mathematics Q Science > QH Natural history |
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| Divisions: | Faculty of Science > Mathematics | |||||||||
| Type of Data: | Experimental data | |||||||||
| Library of Congress Subject Headings (LCSH): | Gene regulatory networks -- Mathematical models, Gene expression, Monte Carlo method, Bayesian statistical decision theory | |||||||||
| Publisher: | Zenodo | |||||||||
| Official Date: | 10 March 2021 | |||||||||
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| Status: | Not Peer Reviewed | |||||||||
| Publication Status: | Published | |||||||||
| Media of Output: | .csv .fcs .txt .tar.gz | |||||||||
| Access rights to Published version: | Open Access | |||||||||
| Copyright Holders: | University of Warwick | |||||||||
| Description: | Data record consists of gzip archives and raw data in csv format. This repository contains supporting data to reference [1]. Please cite [1] if you find this repository useful. The data include: |
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