Translational informatics for human microbiota: data resources, models and applications

Abstract

With the rapid development of human intestinal microbiology and diverse microbiome-related studies and investigations, a large amount of data have been generated and accumulated. Meanwhile, different computational and bioinformatics models have been developed for pattern recognition and knowledge discovery using these data. Given the heterogeneity of these resources and models, we aimed to provide a landscape of the data resources, a comparison of the computational models and a summary of the translational informatics applied to microbiota data. We first review the existing databases, knowledge bases, knowledge graphs and standardizations of microbiome data. Then, the high-throughput sequencing techniques for the microbiome and the informatics tools for their analyses are compared. Finally, translational informatics for the microbiome, including biomarker discovery, personalized treatment and smart healthcare for complex diseases, are discussed.

The significance of gut microbiota in the etiology of autoimmune hepatitis: a narrative review

“…Advances in genome sequencing technology, bioinformatics, and culturomics have led to a further understanding of the characterization and function of the gut microbiota (Macori and Fanning, 2023;Shen et al, 2023). The gut microbiota is composed of bacteria, archaea, eukaryotes, viruses, and parasites (Weiner et al, 2023).…”