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Ranking and characterization of established BMI and lipid associated loci as candidates for gene-environment interactions

Author

Listed:
  • Dmitry Shungin
  • Wei Q Deng
  • Tibor V Varga
  • Jian'an Luan
  • Evelin Mihailov
  • Andres Metspalu
  • GIANT Consortium
  • Andrew P Morris
  • Nita G Forouhi
  • Cecilia Lindgren
  • Patrik K E Magnusson
  • Nancy L Pedersen
  • Göran Hallmans
  • Audrey Y Chu
  • Anne E Justice
  • Mariaelisa Graff
  • Thomas W Winkler
  • Lynda M Rose
  • Claudia Langenberg
  • L Adrienne Cupples
  • Paul M Ridker
  • Nicholas J Wareham
  • Ken K Ong
  • Ruth J F Loos
  • Daniel I Chasman
  • Erik Ingelsson
  • Tuomas O Kilpeläinen
  • Robert A Scott
  • Reedik Mägi
  • Guillaume Paré
  • Paul W Franks

Abstract

Phenotypic variance heterogeneity across genotypes at a single nucleotide polymorphism (SNP) may reflect underlying gene-environment (G×E) or gene-gene interactions. We modeled variance heterogeneity for blood lipids and BMI in up to 44,211 participants and investigated relationships between variance effects (Pv), G×E interaction effects (with smoking and physical activity), and marginal genetic effects (Pm). Correlations between Pv and Pm were stronger for SNPs with established marginal effects (Spearman’s ρ = 0.401 for triglycerides, and ρ = 0.236 for BMI) compared to all SNPs. When Pv and Pm were compared for all pruned SNPs, only BMI was statistically significant (Spearman’s ρ = 0.010). Overall, SNPs with established marginal effects were overrepresented in the nominally significant part of the Pv distribution (Pbinomial

Suggested Citation

  • Dmitry Shungin & Wei Q Deng & Tibor V Varga & Jian'an Luan & Evelin Mihailov & Andres Metspalu & GIANT Consortium & Andrew P Morris & Nita G Forouhi & Cecilia Lindgren & Patrik K E Magnusson & Nancy L, 2017. "Ranking and characterization of established BMI and lipid associated loci as candidates for gene-environment interactions," PLOS Genetics, Public Library of Science, vol. 13(6), pages 1-15, June.
    • Handle: RePEc:plo:pgen00:1006812
    DOI: 10.1371/journal.pgen.1006812
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