Simulation and inference of gene regulatory networks based on transcriptional bursting
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Oct 26, 2025 - Python
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mechanistic-modeling
Here are 8 public repositories matching this topic...
PySB add-on providing domain-specific macros and models for empirical and mechanistic PK/PD modeling.
systems-pharmacology pharmacometrics pharmacokinetics pharmacodynamics pkpd quantitative-systems-pharmacology pkpd-modelling quantitative-systems-toxicology mechanistic-modeling
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Jun 13, 2025 - Jupyter Notebook
The Dig4Bio worskhop series
python machine-learning modeling artificial-intelligence hybrid-modeling digitization digitalization biomanufacturing data-driven-modeling mechanistic-modeling
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Nov 4, 2024 - Jupyter Notebook
Mechanistic Pan-Cancer Signaling Model
cell-cycle sbml proliferation dna-damage cell-biology mcf10a quantitative-systems-pharmacology apoptosis amici cancer-cell antimony mechanistic-modeling
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Feb 17, 2025 - Jupyter Notebook
PySB add-on providing utilities to add units to models and perform dimensional analysis.
systems-biology pysb physics-based-simulation pkpd-modelling mechanistic-modeling reaction-models pysb-modeling
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Jul 5, 2025 - Python
This repository contains the codes for the article: Data-driven mechanistic modeling of oxygen distribution and hypoxia profile in tumor microenvironment
image-processing oxygen elliptic-pdes tumor-heterogeneity finite-difference-method hypoxia mechanistic-modeling reaction-diffusion-model
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Jun 27, 2024 - MATLAB
Nitrogen balance model components and test procedures
python dotnet crop-model mechanistic-models crop-modeling biophysical-modeling mechanistic-modeling nitrogen-balance
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Nov 23, 2025 - Jupyter Notebook
This project studies causal relationship between events in the Adverse Outcome Pathway.
natural-language-processing bioinformatics deep-learning pytorch biological-data-analysis ner causal-inference relation-extraction entity-extraction biomedical-text-mining literature-mining scispacy adverse-outcome-pathways mechanistic-modeling key-event-relationships bc4chemd
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Dec 7, 2025 - Python
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