Introduction into genome-scale metabolic modelling/FBA
Trainer: Maria Zimmermann
Overview: This session will introduce the goals of mathematical models of metabolism
Learning outcomes
By the end of this session you will be able to:
- Undestrand how mathematical models are used to describe and interpret complex systems, integrate experimental data and generate hypotheses and predict perturbations effects.
Materials:
- Lecture
Recommended reading:
1) Orth et al., What is flux balance analysis? Nat Biotechnol 28, 245–248 (2010). https://doi.org/10.1038/nbt.1614
2) Machado et al., Fast automated reconstruction of genome-scale metabolic models for microbial species and communities, Nucleic Acids Research (2018) https://doi.org/10.1093/nar/gky537
3) Zorrilla et al., metaGEM: reconstruction of genome scale metabolic models directly from metagenomes, Nucleic Acids Research (2021) https://doi.org/10.1093/nar/gkab815 4) Machado et al., Polarization of microbial communities between competitive and cooperative metabolism. Nat Ecol Evol (2021). https://doi.org/10.1038/s41559-020-01353-4