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Advancing microbiome research with machine learning
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Orientador(es)
Resumo(s)
The rapid development of machine learning (ML) techniques has opened up the data-dense field of microbiome research for novel therapeutic, diagnostic, and prognostic applications targeting a wide range of disorders, which could substantially improve healthcare practices in the era of precision medicine. However, several challenges must be addressed to exploit the benefits of ML in this field fully. In particular, there is a need to establish “gold standard” protocols for conducting ML analysis experiments and improve interactions between microbiome researchers and ML experts. The Machine Learning Techniques in Human Microbiome Studies (ML4Microbiome) COST Action CA18131 is a European network established in 2019 to promote collaboration between discovery-oriented microbiome researchers and data-driven ML experts to optimize and standardize ML approaches for microbiome analysis. This perspective paper presents the key achievements of ML4Microbiome, which include identifying predictive and discriminatory ‘omics’ features, improving repeatability and comparability, developing automation procedures, and defining priority areas for the novel development of ML methods targeting the microbiome. The insights gained from ML4Microbiome will help to maximize the potential of ML in microbiome research and pave the way for new and improved healthcare practices.
Descrição
Funding Information: The author(s) declare financial support was received for the research, authorship, and/or publication of this article. This study is based upon work from COST Action ML4Microbiome “Statistical and machine learning techniques in human microbiome studies” (CA18131), supported by COST (European Cooperation in Science and Technology), www.cost.eu . MB acknowledges support through the Metagenopolis grant ANR-11-DPBS-0001. IM-I acknowledges support by the “Miguel Servet Type II” program (CPII21/00013) of the ISCIII-Madrid (Spain), co-financed by the FEDER. Publisher Copyright: Copyright © 2023 D’Elia, Truu, Lahti, Berland, Papoutsoglou, Ceci, Zomer, Lopes, Ibrahimi, Gruca, Nechyporenko, Frohme, Klammsteiner, Pau, Marcos-Zambrano, Hron, Pio, Simeon, Suharoschi, Moreno-Indias, Temko, Nedyalkova, Apostol, Truică, Shigdel, Telalović, Bongcam-Rudloff, Przymus, Jordamović, Falquet, Tarazona, Sampri, Isola, Pérez-Serrano, Trajkovik, Klucar, Loncar-Turukalo, Havulinna, Jansen, Bertelsen and Claesson.
Palavras-chave
artificial intelligence best practices machine learning microbiome standards Microbiology Microbiology (medical) SDG 3 - Good Health and Well-being