The complex and dynamic nature of human physiology, as exemplified by metabolism, has often been overlooked due to the lack of quantitative and systems approaches. Recently, systems biology approaches have pushed the boundaries of our current understanding of complex biochemical, physiological, and environmental interactions, enabling proactive medicine in the near future. From this perspective, we review how state-of-the-art computational modelling of human metabolism, i.e., genome-scale metabolic modelling, could be used to identify the metabolic footprints of diseases, to guide the design of personalized treatments, and to estimate the microbiome contributions to host metabolism. These state-of-the-art models can serve as a scaffold for integrating multi-omics data, thereby enabling the identification of signatures of dysregulated metabolism by systems approaches. For example, increased plasma mannose levels due to decreased uptake in the liver have been identified as a potential biomarker of early insulin resistance by multi-omics approaches. In addition, we also review the emerging axis of human physiology and the human microbiome, discussing its contribution to host metabolism and quantitative approaches to study its variations in individuals.
Citations
Citations to this article as recorded by
Innovative Therapeutic Approaches in Non-Alcoholic Fatty Liver Disease: When Knowing Your Patient Is Key Marta Alonso-Peña, Maria Del Barrio, Ana Peleteiro-Vigil, Carolina Jimenez-Gonzalez, Alvaro Santos-Laso, Maria Teresa Arias-Loste, Paula Iruzubieta, Javier Crespo International Journal of Molecular Sciences.2023; 24(13): 10718. CrossRef
Oxymatrine Alleviates High-Fat-High-Fructose-Induced Fatty Liver in Rats: Understanding the Molecular Mechanism Through an Untargeted Metabonomics Study Huan Li, Chang Wang, Qing Wang, Xuehua Liu, Juanjuan Zhang, He Zhang, Wenjie Fei, Hang Zhao, Luping Ren Diabetes, Metabolic Syndrome and Obesity.2023; Volume 16: 4013. CrossRef
Research progress on inosine monophosphate deposition mechanism in chicken muscle Zengwen Huang, Juan Zhang, Yaling Gu, Zhengyun Cai, Xiaofang Feng, Chaoyun Yang, Guosheng Xin Critical Reviews in Food Science and Nutrition.2022; 62(4): 1062. CrossRef
Advances in Microbiome-Derived Solutions and Methodologies Are Founding a New Era in Skin Health and Care Audrey Gueniche, Olivier Perin, Amina Bouslimani, Leslie Landemaine, Namita Misra, Sylvie Cupferman, Luc Aguilar, Cécile Clavaud, Tarun Chopra, Ahmad Khodr Pathogens.2022; 11(2): 121. CrossRef
Multi-omics research strategies in ischemic stroke: A multidimensional perspective Wentao Li, Chongyu Shao, Huifen Zhou, Haixia Du, Haiyang Chen, Haitong Wan, Yu He Ageing Research Reviews.2022; 81: 101730. CrossRef
Combating Childhood Infections in LMICs: evaluating the contribution of Big Data Big data, biomarkers and proteomics: informing childhood diarrhoeal disease management in Low- and Middle-Income Countries Karen H. Keddy, Senjuti Saha, Iruka N. Okeke, John Bosco Kalule, Farah Naz Qamar, Samuel Kariuki EBioMedicine.2021; 73: 103668. CrossRef