Deep in the Bowel: Highly Interpretable Neural Encoder-Decoder Networks Predict Gut Metabolites from Gut Microbiome.

Journal: BMC genomics
Published Date: Jul 20, 2020

Abstract

BACKGROUND: Technological advances in next-generation sequencing (NGS) and chromatographic assays [e.g., liquid chromatography mass spectrometry (LC-MS)] have made it possible to identify thousands of microbe and metabolite species, and to measure their relative abundance. In this paper, we propose a sparse neural encoder-decoder network to predict metabolite abundances from microbe abundances.

Authors

  • Vuong Le
    Applied AI Institute, Deakin University, Geelong, Australia. vuong.le@deakin.edu.au.
  • Thomas P Quinn
    Centre for Pattern Recognition and Data Analytics, Deakin University, Geelong, Australia.
  • Truyen Tran
    Centre for Pattern Recognition and Data Analytics, School of Information Technology, Deakin University, Geelong, Victoria, Australia.
  • Svetha Venkatesh
    Applied Artificial Intelligence Institute, Deakin University, Melbourne, Australia.

Keywords

External Resources

Popular Topics
Recent Journals