Biomolecular control group
Systems & Synthetic Biology at the University of Edinburgh
what we do
Our team develops computational methods to study molecular processes in living cells. We use mathematics to understand natural networks and to design novel systems for biotechnology and biomedicine. We employ a wide range of methods, such as machine learning, control theory, stochastic analysis and network theory. Large parts of our work are in collaboration with Systems and Synthetic Biology labs in the UK and abroad.
who we are
The group lead is Diego Oyarzún and includes research students and postdocs. Together we gather expertise in many disciplines like machine learning, mathematics, biochemistry and bioinformatics.
where we work
We are very lucky to be located at the School of Informatics and the School of Biological Sciences of the University of Edinburgh, in one of the most vibrant European capitals. We are members of the Edinburgh Centre for Engineering Biology.
recent papers
- Integration of kinetic and genome-scale metabolic models
- Impact of DNA representations on sequence-to-expression models
- Graph neural networks for predicting gene essentiality
- Improved chemical production with active learning and metabolomics
- Discovery of anti-senescence compounds with machine learning.
Media coverage The Times, Sky News, The Conversation, Deutsche Welle - Bayesian optimization of biological circuits
news
| Apr 18, 2024 | Michael’s paper on protein structure and in vivo function is out in preprint, congrats for this very insightful work! |
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| Apr 12, 2024 | Diego will be speaking at the workshop AI Methods/Models for BioCatalysis and Synthetic Biology, University of Montpellier, France. |
| Apr 9, 2024 | Charlotte’s paper on dynamic host-pathway interactions is out in preprint, congrats! |
| Apr 5, 2024 | A warm welcome to Jeremy Boyle, who has joined the lab as PhD student in collaboration with the Regan and Orosa labs. |
| Mar 15, 2024 | Diego will be speaking at the 5th Next Generation Synthetic Biology in Ghent, Belgium. |
| Mar 6, 2024 | Ramin’s paper on graph neural networks for gene essentiality prediction has been published in npj Systems Biology and Applications. Many congrats! |
| Feb 28, 2024 | Ricardo’s paper on active learning for chemical production has been published in Computational and Structural Biotechnology Journal. Many congrats! |
| Feb 23, 2024 | Diego has been appointed Director of the UKRI Centre for Doctoral Training in Biomedical AI. |
| Feb 7, 2024 | Yuxin’s paper on generalization performance of sequence-to-expression models is out in preprint, congrats! |
| Jan 15, 2024 | Diego gave a talk at the Congreso Futuro 2024, sponsored by the Senate of Chile. You can check the talk here (in Spanish). |