Integrated multi-omics with machine learning to uncover the intricacies of kidney disease

• Published in: Briefings in bioinformatics 2024-07, Vol.25 (5)
• Main Authors: Liu, Xinze, Shi, Jingxuan, Jiao, Yuanyuan, An, Jiaqi, Tian, Jingwei, Yang, Yue, Zhuo, Li
• Format: Article
• Language: English
• Subjects: Complexity; Computational Biology - methods; Decision making; Digital imaging; Genomics - methods; Global health; Health risks; Humans; Internal dimensions; Kidney diseases; Kidney Diseases - genetics; Kidney Diseases - metabolism; Kidneys; Learning algorithms; Machine Learning; Molecular modelling; Multiomics; Pathology; Proteomics - methods; Public health; Review; Statistical methods
• ISSN: 1467-5463; 1477-4054; 1477-4054
• DOI: 10.1093/bib/bbae364

Abstract The development of omics technologies has driven a profound expansion in the scale of biological data and the increased complexity in internal dimensions, prompting the utilization of machine learning (ML) as a powerful toolkit for extracting knowledge and understanding underlying biological patterns. Kidney disease represents one of the major growing global health threats with intricate pathogenic mechanisms and a lack of precise molecular pathology-based therapeutic modalities. Accordingly, there is a need for advanced high-throughput approaches to capture implicit molecular features and complement current experiments and statistics. This review aims to delineate strategies for integrating multi-omics data with appropriate ML methods, highlighting key clinical translational scenarios, including predicting disease progression risks to improve medical decision-making, comprehensively understanding disease molecular mechanisms, and practical applications of image recognition in renal digital pathology. Examining the benefits and challenges of current integration efforts is expected to shed light on the complexity of kidney disease and advance clinical practice.