DynMicrobiotech: A Software Module for Automatic Reconstruction of Frame-Based Dynamic Models of Microbial Gene Networks

Modern genetic technologies are used in industrial biotechnology to design microbial strains- producers with target characteristics for based on close integration of experimental and informationcomputer approaches. The increasing availability of genomic data and methods of their functional annotation requires the development of new methods of systems biology, in particular, methods of reconstruction of gene networks and metabolic pathways controlling target processes and characteristics of microorganisms based on information about sequenced genomes, as well as methods of building mathematical models of these networks and pathways. This paper presents the DyiiMicrobiotech software module for automatic reconstruction of frame-based mathematical models based on the generalized chemical-kinetic modeling method. The input data for the module are the annotation and markup of the genome, while the output data are the generated model in the form of a system of ordinary differential equations written in SBML format.