Author ORCID Identifier

0009-0000-0630-2200

Document Type

Dataset

Grant Number

20/FFPP/8517

Start Date

2023

Disciplines

Biochemistry and molecular biology, Biophysics

End Date

2024

Publication Details

This dataset is associated with the article: Mirveis, Z., Patil, N., & Byrne, H. J. (2024). Experimental and computational investigation of the kinetic evolution of the glutaminolysis pathway and its interplay with the glycolysis pathway. FEBS Open Bio, first published 12 June 2024. https://doi.org/10.1002/2211-5463.13841

Abstract

This dataset contains a kinetic model developed in MATLAB SimBiology to simulate the metabolic dynamics of glycolysis and glutaminolysis and their interconnection. The model was used in the study ‘Experimental and computational investigation of the kinetic evolution of the glutaminolysis pathway and its interplay with the glycolysis pathway’ (Mirveis et al., 2024). The dataset includes the original SimBiology project file together with the experimental data used for model training. These resources enable reproduction of the simulations reported in the publication and provide a reusable framework for further computational exploration of metabolic pathway kinetics.

DOI

https://doi.org/10.1002/2211-5463.13841

Methodology

The kinetic model was developed in MATLAB SimBiology using ordinary differential equations to represent key reactions in glycolysis and glutaminolysis. Parameters and reaction rates were fitted to match lactate production rates obtained from experimental data using the biochemical PhXtra glycolysis assay, performed on LLC-MK2 cells exposed to four different conditions (glucose alone, glucose plus glutamine, the mixture with oligomycin as a stimulator, and the mixture with 2DG as an inhibitor) over a 0–120 min time course.

Related Content

https://doi.org/10.1002/2211-5463.13841

Language

English

Code Lists

2DG = 2-deoxy-D-glucose

Oligomycin = ATP synthase inhibitor

LLC-MK2 = rhesus monkey kidney epithelial cells

File Format

.m , .sbproj

Viewing Instructions

The SimBiology project file (.sbproj) and MATLAB script (.m) can be opened in MATLAB SimBiology

Data Owner

yes

Funder

Science Foundation Ireland

Creative Commons License

Creative Commons Attribution 4.0 International License
This work is licensed under a Creative Commons Attribution 4.0 International License.

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