Genome-scale model of Yarrowia lipolytica.
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Updated
Jul 30, 2021 - MATLAB
Genome-scale model of Yarrowia lipolytica.
MOOMIN is a tool for analysing differential expression data
TRIMER is a package for building integrated metabolic–regulatory models base on Bayesian network. TRIMER can be used for knockout phenotype prediction and knock flux prediction.
Diversity-based enumeration of optimal context-specific metabolic networks
Bi-level regularized flux balance analysis of Synechococcus spp. PCC 7002
Improved annotation through genome-scale metabolic modeling of Aspergillus oryzae
A new computational pipeline that can be used to convert expression (RNA-seq) data into predicted flux potentials that indicate metabolic function
Code for the paper Hashemi et al. (2021). Identification of flux trade-offs in metabolic networks. Scientific Reports, 11(1), 1-10.
Code for the paper Hashemi et al. Relative flux trade-offs and optimization of metabolic network functionalities. Computational and Structural Biotechnology Journal 20 (2022): 3963-3971.
Code for Model-based Design of Bistable Cell Factories for Metabolic Engineering
Search for and find thermodynamic advantages for product synthesis using metabolic single-species community models
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