Analysis of synthetic metabolic pathways solution space

Jurijs Meitalovs, Egils Stalidzans

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

1 Citation (Scopus)

Abstract

The size and the number of available genome scale metabolic models and reconstructions of different organisms is growing rapidly. Various computational methods and tools are developed in the last decades for metabolic network construction, analysis and optimization in the interdisciplinary scientific branches of systems biology and synthetic biology. A software tool SpaceAnalyzer (SAnalyzer) is developed in Matlab environment for automatic generation of pathways to new metabolites. The necessary time for a metabolic pathway supergraph development using reactions from KEGG database is analyzed. The construction of all the up to 15 reactions long pathways for glucose, glycerol and xylose takes about 11 000 seconds involving about 5500 metabolites from totally 17 000 available metabolites in the KEGG data base. Availability: www.biosystems.lv/sanalyzer

Original languageEnglish
Title of host publicationICSSE 2013 - IEEE International Conference on System Science and Engineering.
Subtitle of host publication Proceedings
Pages183-187
Number of pages5
DOIs
Publication statusPublished - 2013
Externally publishedYes
EventIEEE International Conference on System Science and Engineering, ICSSE 2013 - Budapest, Hungary
Duration: 4 Jul 20136 Jul 2013

Publication series

NameICSSE 2013 - IEEE International Conference on System Science and Engineering, Proceedings

Conference

ConferenceIEEE International Conference on System Science and Engineering, ICSSE 2013
Country/TerritoryHungary
CityBudapest
Period4/07/136/07/13

Keywords*

  • metabolic pathway construction
  • metabolism
  • solution space
  • synthetic biology

Field of Science*

  • 2.11 Other engineering and technologies

Publication Type*

  • 3.1. Articles or chapters in proceedings/scientific books indexed in Web of Science and/or Scopus database

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