Deep learning and Bayesian approach applied to enzyme turnover number for the improvement of enzyme-constrained genome-scale metabolic models (ecGEMs) reconstruction

Toolbox for including enzyme constraints on a genome-scale model.

Enzyme-constrained genome-scale models in python

A constraint-based method for prediction of metabolic engineering targets using ecModels of metabolism

PRESTO: Correction of turnover numbers in enzyme-constraint metabolic models

Collection of scripts for enhancing humanGEM based models with kinetic and proteomics constraints and specialized simulation utilities.

Code and data for in silico strain design for enhanced production of +100 typical bio-products with yeast as a cell-factory. Predictions are based on the ecYeastGEM model avaiable at ecModels.

KMG060 Systems Biology course - repo for students

Impose constraints on enzyme abundances ratios in enzyme-constraint metabolic models

GitHub repository to support the development of the thesis "Development of microbial community simulation methods to characterize and analyze the effects of metal concentrations on pathogen silencing/promotion".

Collection of scripts for reproduction of simulation results in "Reconstruction of a catalogue of genome-scale metabolic models with enzymatic constraints using GECKO 2.0".