AmPtool contains Matlab functions for analysis of patterns in (functions of) parameter values of the Add-my-Pet collection.

This Python program translates R123 dye fluorescence signals into mitochondrial membrane potential (in mV). The tool provides a streamlined and accurate approach for researchers to quantify membrane potential based on dye intensity, aiding in mitochondrial function studies.

Analysis and visualization of bioenergetic pathways in human gut microbiome datasets.

A calculator to adjust equilibrium constants in the Creatine Kinase Bioenergetic Clamp. Also, a calculator to adjust the Gibbs Energy of ATP Hydrolysis, the Creatine Kinase Equilibrium constant, and the Adenylate Kinase equilibrium constant for temperature, ionic strength, pH, and free magnesium.

An R Shiny App to adjust and visualize the Gibbs Energy of ATP Hydrolysis for temperature, ionic strength, pH, and free magnesium.

This repository contains codes and data needed to reproduce the analyses and figures of the manuscript: García-Gómez, G., Hirst A., Spencer, M., and Atkinson, D. (2023). Responses of intraspecific metabolic scaling to temperature and activity differ between water- and air-breathing ectothermic vertebrates.

Spatiotemporal bioenergetics in the cardiac cell

Manifesto for Human Transformation — by Paweł Jurewicz. An open declaration for integrative, evidence-informed practice of human change.

CDFD Part II: Origins of Life and Tri-Regime Bioenergetics

CLI-first CDFD Runtime for CDFL execution, domain adapters, optional Runtime Studio, VS Code language support, experiments, and papers. DOI: 10.5281/zenodo.20343160

Code and synthetic data for "Physics-Informed Neural Networks for Parameter Estimation in a Two-Compartment Bioenergetic Model of Critical Power"

CDFD Part III: Adaptive Flux Limitation Biology and Medicine