0000000000372769
AUTHOR
Daniel Hebenstreit
Additional file 2 of 3 ′-5 ′ crosstalk contributes to transcriptional bursting
Additional file 2 Review history.
Genome-wide chromosomal association of Upf1 is linked to Pol II transcription in Schizosaccharomyces pombe
© The Author(s) 2021. Published by Oxford University Press on behalf of Nucleic Acids Research. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
Genome-wide chromosomal association of Upf1 is linked to Pol II transcription in Schizosaccharomyces pombe
AbstractAlthough the RNA helicase Upf1 has hitherto been examined mostly in relation to its cytoplasmic role in nonsense mediated mRNA decay (NMD), here we report high-throughput ChIP data indicating genome-wide association of Upf1 with active genes in Schizosaccharomyces pombe. This association is RNase sensitive and it correlates with Pol II transcription and mRNA expression levels. While changes in Pol II occupancy were detected at only some genes in a Upf1-deficient (upf1Δ) strain, there is an increased Ser2 Pol II signal at all highly transcribed genes examined by ChIP-qPCR. Furthermore, upf1Δ cells are hypersensitive to the transcription elongation inhibitor 6-azauracil and display Po…
3 ′-5 ′ crosstalk contributes to transcriptional bursting
Abstract Background 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, in other words local to single genes, or extrinsic, relating to the macroscopic state of the cell. However, some possible contributors have not been explored yet. Here, we focus on processes at the 3 ′ and 5 ′ ends of a gene that enable reinitiation of transcription upon termination. Results Using Bay…
Additional file 1 of 3 ′-5 ′ crosstalk contributes to transcriptional bursting
Additional file 1 “Supporting Information to: “3’-5’ crosstalk contributes to transcriptional bursting”.
Supporting data to M. Cavallaro, et al., 3'-5' crosstalk contributes to transcriptional bursting, 2019
This repository contains supporting data to reference [1]. Please cite [1] if you find this repository useful. The data include: Flow cytometry data of HBB and HIV transgenes' expression in `.fcs` format. NanoString data for HIV expression. smFISH data for HBB and Akt1 gene expression. [1] M. Cavallaro, et al., 3'-5' interactions contribute to transcriptional bursting, bioR$\chi$iv 514174. https://doi.org/10.1101/514174
mcavallaro/gLoop: Supporting software to M. Cavallaro, et al., 3'-5' crosstalk contributes to transcriptional bursting, 2020
This repository contains supporting software to reference [1]. Please cite [1] if you find this repository useful. [1] M. Cavallaro, et al., 3'-5' interactions contribute to transcriptional bursting, bioR$\chi$iv 514174. https://doi.org/10.1101/5141