Evidence map›Paper›PMID 36273230›Full record

ArticleNature communications2022

Epigenetic control of chromosome-associated lncRNA genes essential for replication and stability.

Michael B Heskett, Athanasios E Vouzas, Leslie G Smith, Phillip A Yates, Christopher Boniface, Eric E Bouhassira, Paul T Spellman, David M Gilbert, Mathew J Thayer

Abstract read
In one paragraph

Article in Nature communications, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing 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

11 citing papers in PubMed.

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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

9 authors.

Michael B HeskettStanford Cancer Institute, Stanford University School of Medicine, Stanford, CA, 94305, USA.ORCID 0000-0003-2089-3910
Athanasios E VouzasDepartment of Biological Science, Florida State University, Tallahassee, FL, 32306, USA.
Leslie G SmithDepartment of Chemical Physiology and Biochemistry Oregon Health & Science University, Portland, OR, 97239, USA.
Phillip A YatesDepartment of Chemical Physiology and Biochemistry Oregon Health & Science University, Portland, OR, 97239, USA.
Christopher BonifaceCancer Early Detection Advanced Research Center, Knight Cancer Institute Oregon Health & Science University, Portland, OR, 97239, USA.ORCID 0000-0003-0130-7517
Eric E BouhassiraDepartment of Cell Biology and Department of Medicine, Albert Einstein College of Medicine, Bronx, NY, 10461, USA.
Paul T SpellmanDepartment of Molecular and Medical Genetics Oregon Health & Science University, Portland, OR, 97239, USA.ORCID 0000-0002-4810-0022
David M GilbertSan Diego Biomedical Research Institute, San Diego, CA, 92121, USA.ORCID 0000-0001-8087-9737
Mathew J ThayerDepartment of Chemical Physiology and Biochemistry Oregon Health & Science University, Portland, OR, 97239, USA. thayerm@ohsu.edu.ORCID 0000-0001-6483-1661

Funding

Genome Plasticity during ES Cell Differentiation to Neural LineagesR01GM083337 · NIGMS · SAN DIEGO BIOMEDICAL RESEARCH INSTITUTE · PI David M Gilbert · 2007 to 2026
$6.1M
The role of ASARs in chromosome dynamicsR01GM130703 · NIGMS · OREGON HEALTH & SCIENCE UNIVERSITY · PI THAYER, MATHEW J · 2019 to 2022
$1.2M
Control of genetic and epigenetic instabilities by lincRNA genesR01GM114162 · NIGMS · OREGON HEALTH & SCIENCE UNIVERSITY · PI THAYER, MATHEW J · 2015 to 2018
$1.2M
Integrative Analysis of DNA Replication Timing in CancerK00CA245677 · NCI · STANFORD UNIVERSITY · PI HESKETT, MICHAEL B · 2022 to 2024
$255k
Role of novel cis-acting long non-coding RNAs in DNA replication timing and chromosome stability in cancerF99CA245677 · NCI · OREGON HEALTH & SCIENCE UNIVERSITY · PI HESKETT, MICHAEL B · 2019 to 2020
$92k
NCI NIH HHS F99 CA245677NCI NIH HHS K00 CA245677NIGMS NIH HHS R01 GM083337NIGMS NIH HHS R01 GM114162NIGMS NIH HHS R01 GM130703
6 · The paper itself

Abstract

ASARs are long noncoding RNA genes that control replication timing of entire human chromosomes in cis. The three known ASAR genes are located on human chromosomes 6 and 15, and are essential for chromosome integrity. To identify ASARs on all human chromosomes we utilize a set of distinctive ASAR characteristics that allow for the identification of hundreds of autosomal loci with epigenetically controlled, allele-restricted behavior in expression and replication timing of coding and noncoding genes, and is distinct from genomic imprinting. Disruption of noncoding RNA genes at five of five tested loci result in chromosome-wide delayed replication and chromosomal instability, validating their ASAR activity. In addition to the three known essential cis-acting chromosomal loci, origins, centromeres, and telomeres, we propose that all mammalian chromosomes also contain "Inactivation/Stability Centers" that display allele-restricted epigenetic regulation of protein coding and noncoding ASAR genes that are essential for replication and stability of each chromosome.

Indexed as

RNA, Long NoncodingAnimalsChromosomesDNA Replication TimingEpigenesis, GeneticHumansMammalsRNA, UntranslatedRNA, Long NoncodingRNA, Untranslated

Identifiers

PMID36273230
PMCPMC9588035

What OpenQuestion holds

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Registered trials

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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.