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<p>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 <i>n</i> = 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.</p>

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

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2025年12月10日

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  • 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,
  • Padmaja Subbarao,
  • Theo J. Moraes,
  • Jari Lahti,
  • Gregory E. Miller,
  • Elisabeth B. Binder,
  • Katri Räikkönen,
  • Stuart E. Turvey,
  • Keegan Korthauer,
  • Michael S. Kobor

摘要

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.