Toolbox for including enzyme constraints on a genome-scale model.
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Updated
Jul 9, 2024 - MATLAB
Toolbox for including enzyme constraints on a genome-scale model.
STAPLE (Shared Tools for Automatic Personalised Lower Extremity modelling) consists of a collection of methods for generating skeletal models from three-dimensional bone geometries, usually segmented from medical images. The methods are currently being expanded to create complete musculoskeletal models.
A container for all enzyme constrained models created by GECKO.
MATLAB program for microkinetic modeling in catalysis
ThermoGravimetric Analysis (TGA) helps in understanding and optimising pyrolysis process.
Prediction of transition time (kinetics) associated with aromatic ring flipping using infrequent metadynamics
Collection of scripts for enhancing humanGEM based models with kinetic and proteomics constraints and specialized simulation utilities.
We propose a particle MCMC sampler to learn the kinetic parameters of a chemical system, specifically the adsorption and desorption of CO on Pd(111).
Cellular metabolism controls gene expression through allosteric interactions between metabolites and transcription factors. Methods to detect these regulatory interactions are mostly based on in vitro binding assays, but there are no methods to identify them at a genome-scale in vivo. Here we show that dynamic transcriptome and metabolome data i…
A set of Matlab scripts which can simulate temporal traces of DNA using CTMC
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