E-MUSE
Complex microbial Ecosystems MUltiScale modElling:
mechanistic and data driven approaches integration
Dissemination
Communication: | Covers the whole project (including results). | Starts at the beginning of the project. | Multiple audiences: beyond the project's own community, including the media and general public. | Informing and engaging with society, to show how it can benefit from research. |
Dissemination: | Covers project results only. | Happens only when results are available. | Specialist audiences: group that may use the results in their own work, including peer groups, industry, professional organisations, policymakers. | Enabling the assimilation and use of results. |
Publications
ESR3 Hamza Faquir:
Hamza Faquir, Manuel Pajaro, Irene Otero-Muras
"A computational framework for optimal and Model Predictive Control of stochastic gene regulatory networks",
arXiv:2409.11036, q-bio.QM.
DOI: 10.48550/arXiv.2409.11036
ESR6 Mitja Briscik & ESR8 Gabriele Tazza:
Mitja Briscik, Gabriele Tazza, Laszlo Vidacs, Marie-Agnès Dillies, Sébastien Déjean
"Supervised multiple kernel learning approaches for multi-omics data integration",
BioData Mining 17, article 53, 2024.
DOI: 10.1186/s13040-024-00406-9
ESR10 Mahtab Shoukat:
Mahtab Shoukat, Vincent Hervé, Anne-Sophie Sarthou, Anne-Claire Peron, Alice Danel, Dominique Swennen, Pascal Bonnarme, Eric Dugat-Bony
"Iron fortification modifies the microbial community structure and metabolome of a model surface-ripened cheese",
International Journal of Food Microbiology, Volume 427, 110971.
DOI: 10.1016/j.ijfoodmicro.2024.110971
ESR14 Huabin Luo & ESR11 Jian Wang:
Huabin Luo, Jian Wang, Simen Akkermans, Davy Verheyen, Monika Polanska, Jan F. M. Van Impe
"Tuning and modeling cheese flavor",
Comprehensive Reviews in Food Science and Food Safety, 2024, Volume 23, e13420.
DOI: 10.1111/1541-4337.13420
ESR15 Michèle Bou Habib:
Michèle Bou Habib, Emmanuel Bernuau, Benjamín José Sánchez, Dominique Swennen, Ahmad A. Zeidan, Ioan-Cristian Trelea, Jannik Vindeloev
"Mechanistic modeling of the dynamics of phage attack during milk acidification in the cheese-making process",
Journal of Food Engineering, Volume 387, 2025, 112329.
DOI: 10.1016/j.jfoodeng.2024.112329
ESR1 Francesco Moro:
V. Somerville, P. Grigaitis, J. Battjes, F. Moro, B. Teusink
"Use and limitations of genome-scale metabolic models in food microbiology",
Current Opinion in Food Science, 2022, Volume 43, 225-231.
DOI: 10.1016/j.cofs.2021.12.010
ESR6 Mitja Briscik:
Mitja Briscik, Marie-Agnès Dillies, Sébastien Déjean
"Improvement of variables interpretability in kernel PCA"
BMC Bioinformatics, 2023, Volume 24, 282. DOI: 10.1186/s12859-023-05404-y
ESR13 Alina Kyrylenko:
Alina Kyrylenko, Robyn T. Eijlander, Giovanni Alliner, Elly Lucas-van de Bos, Marjon H.J. Wells-Bennik
"Levels and types of microbial contaminants in different plant-based ingredients used in dairy alternatives"
International Journal of Food Microbiology, 2023, Volume 407. DOI: 10.1016/j.ijfoodmicro.2023.110392
Conference papers
ESR2 Geoffrey Roudaut & ESR1 Francesco Moro:
Geoffrey Roudaut, Francesco Moro, Bas Teusink, Eva Balsa-Canto
"Decoding Lactobacillus bulgaricus Metabolism: Insights from a Dynamic Genome-Scale Model",
Proceedings of the 10th IFAC Conference on Foundations of Systems Biology in Engineering.
ESR3 Hamza Faquir:
C. Fernandez, H. Faquir, M. Pajaro, I. Otero-Muras.
"Feedback control of stochastic gene switches using PIDE models",
IFAC-PapersOnLine, 2022, Volume 55, Issue 18, pages 62-67. DOI: 10.1016/j.ifacol.2022.08.031