Evidence map›Paper›PMID 36640351›Full record

ArticleCell reports2023

Activating and repressing gene expression between chromosomes during stochastic fate specification.

Elizabeth A Urban, Chaim Chernoff, Kayla Viets Layng, Jeong Han, Caitlin Anderson, Daniel Konzman, Robert J Johnston

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell reports, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
0.4field-weighted citation impact, top 40% of its field
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

4 citing papers in PubMed, 7 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Transcriptional priming and chromatin regulation during stochastic cell fate specification.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2024
    Review
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

7 authors at 1 institution in 1 country.

Elizabeth A UrbanDepartment of Biology, Johns Hopkins University, 3400 N. Charles Street, Baltimore, MD 21218, USA.
Chaim ChernoffDepartment of Biology, Johns Hopkins University, 3400 N. Charles Street, Baltimore, MD 21218, USA.
Kayla Viets LayngDepartment of Biology, Johns Hopkins University, 3400 N. Charles Street, Baltimore, MD 21218, USA.
Jeong HanDepartment of Biology, Johns Hopkins University, 3400 N. Charles Street, Baltimore, MD 21218, USA.
Caitlin AndersonDepartment of Biology, Johns Hopkins University, 3400 N. Charles Street, Baltimore, MD 21218, USA.
Daniel KonzmanDepartment of Biology, Johns Hopkins University, 3400 N. Charles Street, Baltimore, MD 21218, USA.
Robert J JohnstonDepartment of Biology, Johns Hopkins University, 3400 N. Charles Street, Baltimore, MD 21218, USA. Electronic address: robertjohnston@jhu.edu.
Johns Hopkins University · US

Funding

Mechanisms controlling stochastic gene expression during eye developmentR01EY025598 · NEI · JOHNS HOPKINS UNIVERSITY · PI Robert John Johnston · 2015 to 2026
$4.9M
Determining how noisy gene expression controls stochastic fate choices during developmentF31EY031963 · NEI · JOHNS HOPKINS UNIVERSITY · PI URBAN, ELIZABETH · 2020 to 2021
$92k
Determining the role of 3D nuclear architecture in stochastic gene expressionF31EY026786 · NEI · JOHNS HOPKINS UNIVERSITY · PI VIETS, KAYLA CHELSEA · 2016 to 2018
$88k
NEI NIH HHS F31 EY026786NEI NIH HHS F31 EY031963NEI NIH HHS R01 EY025598
6 · The paper itself

Abstract

DNA elements act across long genomic distances to regulate gene expression. During transvection in Drosophila, DNA elements on one allele of a gene act between chromosomes to regulate expression of the other allele. Little is known about the biological roles and developmental regulation of transvection. Here, we study the stochastic expression of spineless (ss) in photoreceptors in the fly eye to understand transvection. We determine a biological role for transvection in regulating expression of naturally occurring ss alleles. We identify DNA elements required for activating and repressing transvection. Different enhancers participate in transvection at different times during development to promote gene expression and specify cell fates. Bringing a silencer element on a heterologous chromosome into proximity with the ss locus "reconstitutes" the gene, leading to repression. Our studies show that transvection regulates gene expression via distinct DNA elements at specific timepoints in development, with implications for genome organization and architecture.

Indexed as

Drosophila melanogasterDrosophila ProteinsAnimalsChromosomesDrosophilaGene ExpressionGene Expression RegulationDrosophila ProteinsCP: Molecular biologyDrosophilaenhancerflypairingR7retinasilencerspinelessstochastictransvection

Identifiers

PMID36640351
PMCPMC9976292
OpenAlexW4313334621

What OpenQuestion holds

Textmetadata
LicenceTDM
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.