The course will be given in English. The sessions will take place on Monday from 1:15pm to 5:30pm Paris time at ENS Paris-Saclay in room 1N82, and online for remote participants. Classes start on September 15, 2025.
For on-campus partication, please register through your department or contact us. For online participation, please fill out the registration form.
No previous knowledge of biology or chemistry is required. The following will be helpful, however:
Bioengineering is a rising discipline with applications in bioproduction, pharma, environmental sciences, and medicine. It inherently requires skills from biology, computer science, control theory, and other fields of engineering. The course will feature experimental data from spectroscopy and microscopy, mathematical modeling, compilation, control, and optimization of an example process.
| session | date | topic | notebook | recording |
|---|---|---|---|---|
| 0 | Preparation | Coding Setup | (html) (ipynb) (zip) | |
| 1 | September 15, 2025 | Introduction | (html) (ipynb) (zip) | (video) |
| 2 | September 22, 2025 | Chemical Reaction Networks | (html) (ipynb) (zip) | (video) |
| 3 | September 29, 2025 | Distributed Algorithms, Majority Consensus | (html) (ipynb) (zip) | (video) |
| 4 | October 6, 2025 | Genetic Control | (html) (ipynb) (zip) | (video) |
| 5 | October 13, 2025 | Logic Gates | (html) (ipynb) (zip) | (video) |
| 6 | October 20, 2025 | Oscillators | (html) (ipynb) (zip) | (video) |
| 7 | November 3, 2025 | CRN Modeling with MobsPy | (html) (ipynb) (zip) | (video) |
| 8 | November 10, 2025 | Stochastic Simulation | (html) (ipynb) (zip) | (video) |
| 9 | November 17, 2025 | Plasmid Design | (html) (ipynb) (zip) | (video) |
| 10 | November 24, 2025 | Parameter Estimation | (html) (ipynb) (zip) | (video) |
| 11 | December 1, 2025 | Measurements | (html) (ipynb) (zip) | (video) |
| 12 | December 8, 2025 | Computer Vision for Microscopy | (html) (ipynb) (zip) | (video) |
| 13 | December 15, 2025 | TBA | (html) (ipynb) (zip) | (video) |
| 14 | January 5, 2026 | TBA | (html) (ipynb) (zip) | (video) |
| session | problem | notes |
|---|---|---|
| 1 | Modeling | (html) (ipynb) (zip) |
| 2 | Birth-Death Processes | (html) (ipynb) (zip) |
| 3 | Majority Consensus | (html) (ipynb) (zip) |
| 4 | Genetic Control | (html) (ipynb) |
| 5 | Logic Gates | (html) (ipynb) |
| 6 | Oscillators | (html) (ipynb) (zip) |
| 7 | CRN Modeling with MobsPy | (html) (ipynb) (zip) |
| 9 | Plasmid Design | (html) (ipynb) (zip) |
| 10 | Parameter Estimation | (html) (ipynb) (zip) |
| 11 | Measurements | (html) (ipynb) (zip) |
| number | due date | notes |
|---|