» Articles » PMID: 35936554

AI/ML-driven Advances in Untargeted Metabolomics and Exposomics for Biomedical Applications

Overview
Publisher Cell Press
Date 2022 Aug 8
PMID 35936554
Authors
Affiliations
Soon will be listed here.
Abstract

Metabolomics describes a high-throughput approach for measuring a repertoire of metabolites and small molecules in biological samples. One utility of untargeted metabolomics, unbiased global analysis of the metabolome, is to detect key metabolites as contributors to, or readouts of, human health and disease. In this perspective, we discuss how artificial intelligence (AI) and machine learning (ML) have promoted major advances in untargeted metabolomics workflows and facilitated pivotal findings in the areas of disease screening and diagnosis. We contextualize applications of AI and ML to the emerging field of high-resolution mass spectrometry (HRMS) exposomics, which unbiasedly detects endogenous metabolites and exogenous chemicals in human tissue to characterize exposure linked with disease outcomes. We discuss the state of the science and suggest potential opportunities for using AI and ML to improve data quality, rigor, detection, and chemical identification in untargeted metabolomics and exposomics studies.

Citing Articles

Research on Lipidomic Profiling and Biomarker Identification for Osteonecrosis of the Femoral Head.

Yan Y, Wang J, Wang Y, Wu W, Chen W Biomedicines. 2025; 12(12.

PMID: 39767733 PMC: 11673004. DOI: 10.3390/biomedicines12122827.


Emerging Biomarkers in Metabolomics: Advancements in Precision Health and Disease Diagnosis.

Vo D, Trinh K Int J Mol Sci. 2024; 25(23).

PMID: 39684900 PMC: 11642057. DOI: 10.3390/ijms252313190.


Techniques, Databases and Software Used for Studying Polar Metabolites and Lipids of Gastrointestinal Parasites.

Wangchuk P, Yeshi K Animals (Basel). 2024; 14(18).

PMID: 39335259 PMC: 11428429. DOI: 10.3390/ani14182671.


Artificial Intelligence in Metabolomics: A Current Review.

Chi J, Shu J, Li M, Mudappathi R, Jin Y, Lewis F Trends Analyt Chem. 2024; 178.

PMID: 39071116 PMC: 11271759. DOI: 10.1016/j.trac.2024.117852.


The Millennia-Long Development of Drugs Associated with the 80-Year-Old Artificial Intelligence Story: The Therapeutic Big Bang?.

Crouzet A, Lopez N, Riss Yaw B, Lepelletier Y, Demange L Molecules. 2024; 29(12).

PMID: 38930784 PMC: 11206022. DOI: 10.3390/molecules29122716.


References
1.
van der Hooft J, Mohimani H, Bauermeister A, Dorrestein P, Duncan K, Medema M . Linking genomics and metabolomics to chart specialized metabolic diversity. Chem Soc Rev. 2020; 49(11):3297-3314. DOI: 10.1039/d0cs00162g. View

2.
OShea K, Misra B . Software tools, databases and resources in metabolomics: updates from 2018 to 2019. Metabolomics. 2020; 16(3):36. DOI: 10.1007/s11306-020-01657-3. View

3.
Chetnik K, Petrick L, Pandey G . MetaClean: a machine learning-based classifier for reduced false positive peak detection in untargeted LC-MS metabolomics data. Metabolomics. 2020; 16(11):117. PMC: 7895495. DOI: 10.1007/s11306-020-01738-3. View

4.
Picard M, Scott-Boyer M, Bodein A, Perin O, Droit A . Integration strategies of multi-omics data for machine learning analysis. Comput Struct Biotechnol J. 2021; 19:3735-3746. PMC: 8258788. DOI: 10.1016/j.csbj.2021.06.030. View

5.
Baygi S, Kumar Y, Barupal D . IDSL.IPA Characterizes the Organic Chemical Space in Untargeted LC/HRMS Data Sets. J Proteome Res. 2022; 21(6):1485-1494. PMC: 9177784. DOI: 10.1021/acs.jproteome.2c00120. View