| URL: | http://metasys.insa-toulouse.fr/software/findpath |
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| Description: | is an unified system predicting and ranking the possible pathways according to their metabolic efficiency in cellular context. This tool rely on chemical reactions database to generate all possible metabolic pathways and exploits constraint-based models (CBMs) to identify the synthetic pathway that is the most effective for achieving a desired metabolic function in a given host microorganism. FindPath is compliant with common tools for CBM manipulation and uses the standard SBML format for both input and output files. |
| Year founded: | 2014 |
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| Accessibility: |
Accessible
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| Country/Region: | France |
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| University/Institution: | University of Toulouse |
| Address: | University of Toulouse; INSA, UPS, INP; LISBP, 135 Rangueil Avenue, F-31077 Toulouse, France INRA |
| City: | Toulouse |
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| Country/Region: | France |
| Contact name (PI/Team): | Stephanie Heux |
| Contact email (PI/Helpdesk): | heux@insa-toulouse.fr |
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FindPath: a Matlab solution for in silico design of synthetic metabolic pathways. [PMID: 24994891]
SUMMARY: Several methods and computational tools have been developed to design novel metabolic pathways. A major challenge is evaluating the metabolic efficiency of the designed pathways in the host organism. Here we present FindPath, a unified system to predict and rank possible pathways according to their metabolic efficiency in the cellular system. This tool uses a chemical reaction database to generate possible metabolic pathways and exploits constraint-based models (CBMs) to identify the most efficient synthetic pathway to achieve the desired metabolic function in a given host microorganism. FindPath can be used with common tools for CBM manipulation and uses the standard SBML format for both input and output files. |