Overview of data preprocessing for machine learning applications in human microbiome research

E Ibrahimi, MB Lopes, X Dhamo, A Simeon… - Frontiers in …, 2023 - frontiersin.org
Although metagenomic sequencing is now the preferred technique to study microbiome-host
interactions, analyzing and interpreting microbiome sequencing data presents challenges …

Microbiome Dynamics: A Paradigm Shift in Combatting Infectious Diseases

M Kamel, S Aleya, M Alsubih, L Aleya - Journal of Personalized Medicine, 2024 - mdpi.com
Infectious diseases have long posed a significant threat to global health and require
constant innovation in treatment approaches. However, recent groundbreaking research has …

Advancing microbiome research with machine learning: key findings from the ML4Microbiome COST action

D D'Elia, J Truu, L Lahti, M Berland… - Frontiers in …, 2023 - frontiersin.org
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 …

Explainable artificial intelligence for microbiome data analysis in colorectal cancer biomarker identification

P Novielli, D Romano, M Magarelli, PD Bitonto… - Frontiers in …, 2024 - frontiersin.org
Background Colorectal cancer (CRC) is a type of tumor caused by the uncontrolled growth
of cells in the mucosa lining the last part of the intestine. Emerging evidence underscores an …

The salivary microbiome as a diagnostic biomarker of periodontitis: a 16S multi-batch study before and after the removal of batch effects

A Regueira-Iglesias, B Suárez-Rodríguez… - Frontiers in Cellular …, 2024 - frontiersin.org
Introduction Microbiome-based clinical applications that improve diagnosis related to oral
health are of great interest to precision dentistry. Predictive studies on the salivary …

Climate change and soil health: Explainable artificial intelligence reveals microbiome response to warming

P Novielli, M Magarelli, D Romano, L de Trizio… - Machine Learning and …, 2024 - mdpi.com
Climate change presents an unprecedented global challenge, demanding collective action
to both mitigate its effects and adapt to its consequences. Soil health and function are …

MicroHDF: predicting host phenotypes with metagenomic data using a deep forest-based framework

K Shi, Q Liu, Q Ji, Q He, XM Zhao - Briefings in Bioinformatics, 2024 - academic.oup.com
The gut microbiota plays a vital role in human health, and significant effort has been made to
predict human phenotypes, especially diseases, with the microbiota as a promising indicator …

A comprehensive review of the Dairy Pasteurization Process using machine learning models

P Singh, S Pandey, S Manik - Food Control, 2024 - Elsevier
Abstract Machine learning (ML) is an efficacious tool that can be employed to enhance the
pasteurization process through several means. This paper provides an analysis of the …

[HTML][HTML] Supervised machine learning for microbiomics: bridging the gap between current and best practices

NK Dudek, M Chakhvadze, S Kobakhidze… - Machine Learning with …, 2024 - Elsevier
Abstract Machine learning (ML) is poised to drive innovations in clinical microbiomics, such
as in disease diagnostics and prognostics. However, the successful implementation of ML in …

[HTML][HTML] Personalized identification of autism-related bacteria in the gut microbiome using explainable artificial intelligence

P Novielli, D Romano, M Magarelli, D Diacono… - Iscience, 2024 - cell.com
Autism spectrum disorder (ASD) affects social interaction and communication. Emerging
evidence links ASD to gut microbiome alterations, suggesting that microbial composition …