Evidence map›Paper›PMID 37645793›Full record

ArticleResearch square2023

Competition between transcription and loop extrusion modulates promoter and enhancer dynamics.

Tom Sexton, Angeliki Platania, Cathie Erb, Mariano Barbieri, Bastien Molcrette, Erwan Grandgirard, Marit de Kort, Karen Meabum, Tiegh Taylor, Virlana Shchuka and 8 more

Abstract readPreprint
In one paragraph

Article in Research square, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

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.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

18 authors.

Tom SextonIGBMC (Institute of Genetics and Molecular and Cellular Biology).
Angeliki PlataniaIGBMC (Institute of Genetics and Molecular and Cellular Biology).
Cathie ErbIGBMC (Institute of Genetics and Molecular and Cellular Biology).
Mariano BarbieriUniversity Medical Center Gottingen.
Bastien MolcretteIGBMC (Institute of Genetics and Molecular and Cellular Biology).
Erwan GrandgirardIGBMC (Institute of Genetics and Molecular and Cellular Biology).
Marit de KortMGH.
Karen MeabumGenome Damage and Stability Centre.
Tiegh TaylorUniversity of Toronto.
Virlana ShchukaUniversity of Toronto.
Silvia KocanovaCentre of Integrative Biology.
Guilherme OliveiraIGBMC (Institute of Genetics and Molecular and Cellular Biology).
Jennifer MitchellUniversity of Toronto.ORCID 0000-0002-7147-4604
Evi SoutoglouGenome Damage and Stability Centre.
Tineke LenstraNetherlands Cancer Institute.ORCID 0000-0002-4440-9962
Nacho MolinaIGBMC (Institute of Genetics and Molecular and Cellular Biology).
Argyris PapantonisUniversity Medical Center Goettingen.ORCID 0000-0001-7551-1073
Keratin BystrickyUniversity of Toulouse -CNRS.ORCID 0000-0001-6717-3721

Funding

Computational approaches for comparative regulatory genomics to decipher long-range gene regulationR01HG010045 · NHGRI · UNIVERSITY OF WISCONSIN-MADISON · PI ROY, SUSHMITA · 2018 to 2021
$1.4M
NHGRI NIH HHS R01 HG010045
6 · The paper itself

Abstract

The spatiotemporal configuration of genes with distal regulatory elements, and the impact of chromatin mobility on transcription, remain unclear. Loop extrusion is an attractive model for bringing genetic elements together, but how this functionally interacts with transcription is also largely unknown. We combine live tracking of genomic loci and nascent transcripts with molecular dynamics simulations to assess the spatiotemporal arrangement of the

Indexed as

anomalous diffusionChromatin dynamicsenhancerlive imagingmolecular dynamicstranscription

Identifiers

PMID37645793
PMCPMC10462181

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.