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In the Institute for Systems Biology SPb we have been developing kinetic models of E. coli metabolism for the last several years. Thus, we had made the first steps in this field in the 2000-2002 years, when the initial kinetic models of glycolysis, TCA cycle and biosynthesis of basic biochemical building blocks (such as amino acids, purine and pyrimidine nucleotides) had been developed. Further elaboration allowed us to increase our activity in the understanding of E. coli metabolism functioning and expanded a range of metabolic pathways which were taken into model account. By the present time we have developed kinetic models of more then 30 E. coli biochemical pathways and regulatory systems.
In this section of the website we represent several materials related to the E. coli metabolism modeling. Of course, it is a brief and incomplete description. However, we tried to stress an attention on the most obvious and interesting results of this large-scale modeling project. All these results are urged to accentuate the importance of systems biology modeling approaches for the investigation of the metabolism functioning and regulation.
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To what extent is industrial biotechnological process optimally designed? Do the biological entities (enzymes, cells) involved in the biotechnological process operate efficiently? What could be done to improve the efficacy? Answers to the questions are often not quite simple. Primarily, it is dictated by large-scale and expensive experimental investigations characterizing phenomenon from various positions. However, it is only one side of the problem because results of these investigations should be integrated in the sole description and correctly interpreted to address the questions posed.
 The first part of the problem does not usually cause any complications, because lots of experimental information characterizing different biotechnological subjects (strains, enzymes or fermenters) has been collected and published. However, the other part of the problem consisting of integration and interpretation of the data could have serious troubles. For address the issue we propose to apply methods of computational systems biology to analyze biotechnological experimental data.
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 In the last years investigation of resolution phase of inflammatory process take increasing importance. In was shown, that resolution phase is active process, which is regulated by many endogenous factors. Disturbance of the resolution phase is a one of principal reasons of chronic inflammatory diseases. Basing on these investigations new strategy of inflammatory diseases treatment was developed. The strategy is based on pharmacological regulation of resolution inflammatory phase.
Based on this strategy we have proposed new method for screening and development of anti-inflammatory drugs of new generation. At our site you can found short article about new strategy, developed in our group.
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