Integrating Machine Learning in Metabolomics: A Path to Enhanced Diagnostics and Data Interpretation.

Journal: Small methods
PMID:

Abstract

Metabolomics, leveraging techniques like NMR and MS, is crucial for understanding biochemical processes in pathophysiological states. This field, however, faces challenges in metabolite sensitivity, data complexity, and omics data integration. Recent machine learning advancements have enhanced data analysis and disease classification in metabolomics. This study explores machine learning integration with metabolomics to improve metabolite identification, data efficiency, and diagnostic methods. Using deep learning and traditional machine learning, it presents advancements in metabolic data analysis, including novel algorithms for accurate peak identification, robust disease classification from metabolic profiles, and improved metabolite annotation. It also highlights multiomics integration, demonstrating machine learning's potential in elucidating biological phenomena and advancing disease diagnostics. This work contributes significantly to metabolomics by merging it with machine learning, offering innovative solutions to analytical challenges and setting new standards for omics data analysis.

Authors

  • Yudian Xu
    Department of Traditional Chinese Medicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, 200127, P. R. China.
  • Linlin Cao
    State Key Laboratory for Oncogenes and Related Genes, Division of Cardiology, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, 160 Pujian Road, Shanghai, 200127, P. R. China.
  • Yifan Chen
    Adam Smith Business School, University of Glasgow, Scotland, United Kingdom.
  • Ziyue Zhang
    School of Computer Science and Engineering, Nanjing University of Science and Technology, Nanjing, China.
  • Wanshan Liu
    State Key Laboratory for Oncogenes and Related Genes, School of Biomedical Engineering and Institute of Medical Robotics, Shanghai Jiao Tong University, Shanghai, 200030, P. R. China.
  • He Li
    National Soybean Processing Industry Technology Innovation Center, Beijing Advanced Innovation Center for Food Nutrition and Human Health, Beijing Technology and Business University Beijing 100048 China lihe@btbu.edu.cn liuxinqi@btbu.edu.cn.
  • Chenhuan Ding
    Department of Traditional Chinese Medicine, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai, 200127, P. R. China.
  • Jun Pu
    Center for the Science of Therapeutics, Broad Institute of Harvard and MIT , 7 Cambridge Center, Cambridge, Massachusetts 02142, United States.
  • Kun Qian
    Key Laboratory of Brain Health Intelligent Evaluation and Intervention (Beijing Institute of Technology), Ministry of Education, Beijing, China.
  • Wei Xu
    College of Food and Bioengineering, Henan University of Science and Technology, Luoyang, 471023 China.