A review of methods for the reconstruction and analysis of integrated genome-scale models of metabolism and regulation. (17th September 2020)

• Record Type: Journal Article
• Authors: Cruz, Fernando; Faria, José P.; Rocha, Miguel; Rocha, Isabel; Dias, Oscar
• Is Part Of: Biochemical Society transactions. Volume 48:Number 5(2020)
• Page Start: 1889
• Page End: 1903
• Publication Date: 2020-09-17
• Subjects: flux balance analysis -- gene expression and regulation -- genome-scale metabolic models -- genome-scale regulatory networks -- metabolism -- transcriptional regulatory networks; Biochemistry -- Congresses; 572
• DOI: 10.1042/BST20190840
• Languages: English
• ISSNs: 0300-5127

Abstract

Abstract : The current survey aims to describe the main methodologies for extending the reconstruction and analysis of genome-scale metabolic models and phenotype simulation with Flux Balance Analysis mathematical frameworks, via the integration of Transcriptional Regulatory Networks and/or gene expression data. Although the surveyed methods are aimed at improving phenotype simulations obtained from these models, the perspective of reconstructing integrated genome-scale models of metabolism and gene expression for diverse prokaryotes is still an open challenge.