Comparing feature selection and machine learning approaches for predicting methylation from genetic variation.

Journal: Frontiers in neuroinformatics
Published Date:

Abstract

INTRODUCTION: Pharmacogenetics currently supports clinical decision-making on the basis of a limited number of variants in a few genes and may benefit paediatric prescribing where there is a need for more precise dosing. Integrating genomic information such as methylation into pharmacogenetic models holds the potential to improve their accuracy and consequently prescribing decisions. Cytochrome P450 2D6 () is a highly polymorphic gene conventionally associated with the metabolism of commonly used drugs and endogenous substrates. We thus sought to predict epigenetic loci from single nucleotide polymorphisms (SNPs) related to in children from the GUSTO cohort.

Authors

  • Wei Jing Fong
    Computational Biology, National University of Singapore, Singapore, Singapore.
  • Hong Ming Tan
    Computational Biology, National University of Singapore, Singapore, Singapore.
  • Rishabh Garg
    Computational Biology, National University of Singapore, Singapore, Singapore.
  • Ai Ling Teh
    Singapore Institute for Clinical Sciences (SICS), Agency for Science, Technology and Research (A*STAR), Singapore, Singapore.
  • Hong Pan
    Singapore Institute for Clinical Sciences (SICS), Agency for Science, Technology and Research (A*STAR), Singapore, Singapore.
  • Varsha Gupta
    Singapore Institute for Clinical Sciences (SICS), Agency for Science, Technology and Research (A*STAR), Singapore, Singapore.
  • Bernadus Krishna
    Computational Biology, National University of Singapore, Singapore, Singapore.
  • Zou Hui Chen
    Computational Biology, National University of Singapore, Singapore, Singapore.
  • Natania Yovela Purwanto
    Computational Biology, National University of Singapore, Singapore, Singapore.
  • Fabian Yap
    KK Women's and Children's Hospital, Singapore, Singapore.
  • Kok Hian Tan
    KK Women's and Children's Hospital, Singapore, Singapore.
  • Kok Yen Jerry Chan
    KK Women's and Children's Hospital, Singapore, Singapore.
  • Shiao-Yng Chan
    Singapore Institute for Clinical Sciences (SICS), Agency for Science, Technology and Research (A*STAR), Singapore, Singapore.
  • Nicole Goh
    Yale-NUS College, Singapore, Singapore.
  • Nikita Rane
    Institute of Mental Health,Singapore, Singapore.
  • Ethel Siew Ee Tan
    Institute of Mental Health,Singapore, Singapore.
  • Yuheng Jiang
    Institute of Mental Health,Singapore, Singapore.
  • Mei Han
    Computational Biology, National University of Singapore, Singapore, Singapore.
  • Michael Meaney
    Singapore Institute for Clinical Sciences (SICS), Agency for Science, Technology and Research (A*STAR), Singapore, Singapore.
  • Dennis Wang
    Singapore Institute for Clinical Sciences (SICS), Agency for Science, Technology and Research (A*STAR), Singapore, Singapore.
  • Jussi Keppo
    Computational Biology, National University of Singapore, Singapore, Singapore.
  • Geoffrey Chern-Yee Tan
    Computational Biology, National University of Singapore, Singapore, Singapore.

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