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 language | English |
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| Title of host publication | ICSSE 2013 - IEEE International Conference on System Science and Engineering. |
| Subtitle of host publication | Proceedings |
| Pages | 183-187 |
| Number of pages | 5 |
| DOIs | |
| Publication status | Published - 2013 |
| Externally published | Yes |
| Event | IEEE International Conference on System Science and Engineering - Budapest, Hungary Duration: 4 Jul 2013 → 6 Jul 2013 https://ieeexplore.ieee.org/xpl/conhome/6599034/proceeding |
Publication series
| Name | ICSSE 2013 - IEEE International Conference on System Science and Engineering, Proceedings |
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Conference
| Conference | IEEE International Conference on System Science and Engineering |
|---|---|
| Abbreviated title | ICSSE 2013 |
| Country/Territory | Hungary |
| City | Budapest |
| Period | 4/07/13 → 6/07/13 |
| Internet address |
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