Organismal Systems Biology
Location
The course takes place on Tuesdays, 15:15-17:00, lecture hall: IBMM EG Raum 001 (Gewo5_001)
Reading material
The course builds on the Systems Biology book by Uri Alon, which is highly recommended.
Recommended further study material:
online courses covering related topics:
Jeff Gore: MIT open courseware
For more advanced studies of dynamical systems read Steven Strogatz' s book and lecture.
The booklet "Optima for animals" by R. McNeill Alexander provides a beautiful introduction to optimality principles in animal development and behaviour.er
27.9. Negative and positive autoregulation
11.10. no lecture
18. 10. Toggle Switch and bi-stability
25. 10. design principles in cellular signalling
1.11. Oscillations and body size control
15.11. cell size and transcription
22.11. trade-offs and optimality
13.12. synthetic biology
20.12. Q&A, recap
Schedule
Evaluation/Exam
- There will be a written exam at the end of the semester on 10th January, 15:15-17:00
Exam location: EG16, DCBP.
closed book exam. no additional materials allowed, except 3 pens in 3 colors. (no calculator).
- 5 out of 6 home work assignments must be completed and handed-in on time
Forum
Unless hyper urgent, post your questions in the forum rather than sending emails (and check if your question is already answered). That way, other students can learn from you as well, and students may be able to provide an answer. Aaditya and myself will regularly check the forum.
The forum is password protected to prevent bots from spamming us. password is provided in the first lecture.
Assignments
Assignments are due on Tueday, 15.00, two weeks after the respective lecture.
Submit them by email to: systemsbiology2022bern@gmail.com or drop them in my post box in Baltzerstrasse 4.
Important: Provide your solutions as a single pdf (scan or take a photo if you have hand written solutions): Convert files to pdf, combine to one file, name as follows: First_Last_assignmentnumber.pdf, e.g., Benjamin_Towbin_1.pdf
Proven effort to solve 5 out of 6 assignments correctly is required to pass the course.
For each assignment, there will be a Q&A session with our teaching assistant Aaditya Saxena via google meet (https://meet.google.com/rze-qjzp-vqd) on Thursdays 12:00-13:00 before the respective assignment deadline.
python notebook code (only needed if not using Mathematica)
python notebook code (only needed if not using Mathematica)
no python code (on paper exercsises or written from scratch)
no python code (on paper exercsises or written from scratch)