Evidence map›Paper›PMID 36202838›Full record

ArticleNature communications2022

The immune factors driving DNA methylation variation in human blood.

Jacob Bergstedt, Sadoune Ait Kaci Azzou, Kristin Tsuo, Anthony Jaquaniello, Alejandra Urrutia, Maxime Rotival, David T S Lin, Julia L MacIsaac, Michael S Kobor, Matthew L Albert and 4 more

Open access · goldAbstract 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 54 papers, 3 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
54citing papers in PubMed, 3 pooled it
6.3field-weighted citation impact, top 2% 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

54 citing papers in PubMed, 3 syntheses or guidelines pooled it, 75 citations in OpenAlex.

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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

14 authors at 12 institutions in 7 countries.

Jacob BergstedtInstitut Pasteur, Université Paris Cité, CNRS UMR2000, Human Evolutionary Genetics Unit, Paris, France. jacob.bergstedt@ki.se.ORCID 0000-0002-9279-6936
Sadoune Ait Kaci AzzouInstitut Pasteur, Université Paris Cité, CNRS UMR2000, Human Evolutionary Genetics Unit, Paris, France.ORCID 0000-0002-6585-335X
Kristin TsuoInstitut Pasteur, Université Paris Cité, CNRS UMR2000, Human Evolutionary Genetics Unit, Paris, France.ORCID 0000-0002-3558-8479
Anthony JaquanielloInstitut Pasteur, Université Paris Cité, CNRS UMR2000, Human Evolutionary Genetics Unit, Paris, France.
Alejandra UrrutiaHI-Bio, South San Francisco, CA, USA.
Maxime RotivalInstitut Pasteur, Université Paris Cité, CNRS UMR2000, Human Evolutionary Genetics Unit, Paris, France.ORCID 0000-0003-2519-8044
David T S LinEdwin S.H. Leong Healthy Aging Program, Centre for Molecular Medicine and Therapeutics, Department of Medical Genetics, University of British Columbia, Vancouver, Canada.
Julia L MacIsaacEdwin S.H. Leong Healthy Aging Program, Centre for Molecular Medicine and Therapeutics, Department of Medical Genetics, University of British Columbia, Vancouver, Canada.
Michael S KoborEdwin S.H. Leong Healthy Aging Program, Centre for Molecular Medicine and Therapeutics, Department of Medical Genetics, University of British Columbia, Vancouver, Canada.ORCID 0000-0003-4140-1743
Matthew L AlbertHI-Bio, South San Francisco, CA, USA.ORCID 0000-0001-7285-6973
Darragh DuffyInstitut Pasteur, Université Paris Cité, Translational Immunology Unit, Institut Pasteur, Paris, France.ORCID 0000-0002-8875-2308
Etienne Patin *Institut Pasteur, Université Paris Cité, CNRS UMR2000, Human Evolutionary Genetics Unit, Paris, France. epatin@pasteur.fr.ORCID 0000-0002-9911-4459
Lluís Quintana-Murci *Institut Pasteur, Université Paris Cité, CNRS UMR2000, Human Evolutionary Genetics Unit, Paris, France. quintana@pasteur.fr.ORCID 0000-0003-2429-6320
Milieu Intérieur Consortium
Centre National de la Recherche Scientifique · FRInserm · FRInstitut Pasteur · FRTrinity College Dublin · IEUniversity of British Columbia · CAConservatoire National des Arts et Métiers · FRMission Bio (United States) · USCollège de France · FRÉcole Polytechnique Fédérale de Lausanne · CHImperial College London · GBKarolinska Institutet · SERoche (France) · FR

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Epigenetic changes are required for normal development, yet the nature and respective contribution of factors that drive epigenetic variation in humans remain to be fully characterized. Here, we assessed how the blood DNA methylome of 884 adults is affected by DNA sequence variation, age, sex and 139 factors relating to life habits and immunity. Furthermore, we investigated whether these effects are mediated or not by changes in cellular composition, measured by deep immunophenotyping. We show that DNA methylation differs substantially between naïve and memory T cells, supporting the need for adjustment on these cell-types. By doing so, we find that latent cytomegalovirus infection drives DNA methylation variation and provide further support that the increased dispersion of DNA methylation with aging is due to epigenetic drift. Finally, our results indicate that cellular composition and DNA sequence variation are the strongest predictors of DNA methylation, highlighting critical factors for medical epigenomics studies.

Indexed as

DNA MethylationEpigenomicsAdultAgingEpigenesis, GeneticHumansImmunologic FactorsImmunologic Factors

Identifiers

PMID36202838
PMCPMC9537159
OpenAlexW4302424591

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.