Evidence map›Paper›PMID 41372765›Full record

ArticleGenome biology2025

RAMEN: Dissecting individual, additive and interactive gene-environment contributions to DNA methylome variability in cord blood.

Erick I Navarro-Delgado, Darina Czamara, Karlie Edwards, Maggie P Fu, Sarah M Merrill, Chaini Konwar, Julie L MacIsaac, David T S Lin, Piush Mandhane, Elinor Simons and 9 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Genome biology, 2025. 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

19 authors.

Erick I Navarro-DelgadoEdwin S. H. Leong Centre for Healthy Aging, Faculty of Medicine, University of British Columbia, Vancouver, BC, Canada.
Darina CzamaraDepartment of Genes and Environment, Max-Planck-Institute of Psychiatry, Munich, 80804, Germany.
Karlie EdwardsEdwin S. H. Leong Centre for Healthy Aging, Faculty of Medicine, University of British Columbia, Vancouver, BC, Canada.
Maggie P FuEdwin S. H. Leong Centre for Healthy Aging, Faculty of Medicine, University of British Columbia, Vancouver, BC, Canada.
Sarah M MerrillBritish Columbia Children's Hospital Research Institute, Vancouver, BC, Canada.
Chaini KonwarEdwin S. H. Leong Centre for Healthy Aging, Faculty of Medicine, University of British Columbia, Vancouver, BC, Canada.
Julie L MacIsaacEdwin S. H. Leong Centre for Healthy Aging, Faculty of Medicine, University of British Columbia, Vancouver, BC, Canada.
David T S LinBritish Columbia Children's Hospital Research Institute, Vancouver, BC, Canada.
Piush MandhaneUniversity of Alberta, Edmonton, AB, Canada.
Elinor SimonsDepartment of Pediatrics & Child Health, University of Manitoba, Winnipeg, MB, Canada.
Padmaja SubbaraoTranslational Medicine Program, The Hospital for Sick Children, Toronto, ON, Canada.
Theo J MoraesTranslational Medicine Program, The Hospital for Sick Children, Toronto, ON, Canada.
Jari LahtiDepartment of Psychology and Logopedics, Faculty of Medicine, University of Helsinki, Helsinki, Finland.
Gregory E MillerDepartment of Psychology and Institute for Policy Research, Northwestern University, Evanston, IL, United States.
Elisabeth B BinderDepartment of Genes and Environment, Max-Planck-Institute of Psychiatry, Munich, 80804, Germany.
Katri RäikkönenDepartment of Psychology, Faculty of Medicine, University of Helsinki, Helsinki, 00014, Finland.
Stuart E TurveyBritish Columbia Children's Hospital Research Institute, Vancouver, BC, Canada.
Keegan KorthauerBritish Columbia Children's Hospital Research Institute, Vancouver, BC, Canada. Keegan.Korthauer@bcchr.ca.
Michael S KoborEdwin S. H. Leong Centre for Healthy Aging, Faculty of Medicine, University of British Columbia, Vancouver, BC, Canada. michael.kobor@ubc.ca.

Funding

BC Children's Hospital Research Institute Establishment AwardMitacs Graduate Globalink FellowshipSocial Exposome Cluster Society to Cell Clyde Hertzman Memorial Fellowship
6 · The paper itself

Abstract

Genetic variation and environmental exposures are amongst the main factors associated with inter-individual DNA methylation variability. However, the prevalence and genomic context of individual, additive, and interactive gene-environment effects remains unclear. We present RAMEN, an R package that dissects genome-exposome contributions to microarray Variably Methylated Loci using machine learning and statistical techniques. Analyzing cord blood samples from CHILD and PREDO (overall n = 1662), we identify genetic variants as key contributors to DNA methylation variability, usually in additive and interactive combinations with the environment. We provide a detailed catalogue of cord blood Variably Methylated Loci and the gene-environment contribution to their variability.

Indexed as

DNA MethylationEpigenomeFetal BloodGene-Environment InteractionSoftwareFemaleGenetic VariationHumansMachine LearningDNA methylationDNA methylome variabilityGene-environment contributionGene-environment interactionGxEMulti-omics integrationPrenatal exposomeR packageSoftware

Identifiers

PMID41372765
PMCPMC12690895

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.