A system architecture for parallel analysis of flux-balanced metabolic pathways
In this paper, a system architecture is proposed that approximately models the functionality of metabolic networks. The AND/OR graph model is used to represent the metabolic network and each processing element in the system emulates the functionality of a metabolite. The system is implemented on a g...
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| creator | Arabzadeh, Mona Sedighi, Mehdi Morteza Saheb Zamani Sayed-Amir Marashi |
| description | In this paper, a system architecture is proposed that approximately models the functionality of metabolic networks. The AND/OR graph model is used to represent the metabolic network and each processing element in the system emulates the functionality of a metabolite. The system is implemented on a graphics processing unit (GPU) as the hardware platform using CUDA environment. The proposed architecture takes advantage of the inherent parallelism in the network structure in terms of both pathway and metabolite traversal. The function of each element is defined such that it can find flux-balanced pathways. Pathways in both small and large metabolic networks are applied to the proposed architecture and the results are discussed. |
| doi_str_mv | 10.48550/arxiv.1804.02867 |
| format | Article |
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| subjects | Computer architecture Graphics processing units Metabolism Metabolites Quantitative Biology - Molecular Networks |
| title | A system architecture for parallel analysis of flux-balanced metabolic pathways |
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