300095 VU Metabolic network reconstruction and analysis (2024S)
Continuous assessment of course work
Labels
ON-SITE
Registration/Deregistration
Note: The time of your registration within the registration period has no effect on the allocation of places (no first come, first served).
- Registration is open from Th 08.02.2024 14:00 to Th 22.02.2024 18:00
- Deregistration possible until Fr 15.03.2024 18:00
Details
max. 25 participants
Language: English
Lecturers
Classes (iCal) - next class is marked with N
Thursday
07.03.
09:45 - 11:15
Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Thursday
14.03.
09:45 - 11:15
Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Thursday
21.03.
09:45 - 11:15
Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Thursday
11.04.
09:45 - 11:15
Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Thursday
18.04.
09:45 - 11:15
Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday
24.04.
13:15 - 16:30
Seminarraum 1.1 PC, Biologie Djerassiplatz 1, 1.003, Ebene 1
Thursday
25.04.
09:45 - 11:15
Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Thursday
02.05.
09:45 - 11:15
Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
N
Wednesday
08.05.
13:15 - 16:30
Seminarraum 1.1 PC, Biologie Djerassiplatz 1, 1.003, Ebene 1
Thursday
16.05.
09:45 - 11:15
Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Thursday
23.05.
09:45 - 11:15
Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday
29.05.
13:15 - 16:30
Seminarraum 1.1 PC, Biologie Djerassiplatz 1, 1.003, Ebene 1
Thursday
06.06.
09:45 - 11:15
Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Thursday
13.06.
09:45 - 11:15
Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Wednesday
19.06.
13:15 - 16:30
Seminarraum 1.1 PC, Biologie Djerassiplatz 1, 1.003, Ebene 1
Thursday
20.06.
09:45 - 11:15
Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Thursday
27.06.
09:45 - 11:15
Seminarraum 1.3, Biologie Djerassiplatz 1, 1.005, Ebene 1
Information
Aims, contents and method of the course
Assessment and permitted materials
- Written exam (50%)
- Solutions of computer exercises (50%)
- Solutions of computer exercises (50%)
Minimum requirements and assessment criteria
All partial evaluations must be positive to pass the course. Minimum score to pass is 50% in total.
Examination topics
In the exam, students need to show that they are able to constructively apply and discuss the methods taught in the course.
Reading list
Bernhard O. Palsson: Systems Biology. Constraint-based Reconstruction and Analysis. Cambridge University Press, 2015
Costas D. Maranas, Ali R. Zomorrodi: Optimization Methods in Metabolic Networks. John Wiley & Sons, 2016
The Economic Cell Collective: Economic Principles in Cell Biology. No commercial publisher | Authors open access book, 2024. doi: 10.5281/zenodo.8156386.
Costas D. Maranas, Ali R. Zomorrodi: Optimization Methods in Metabolic Networks. John Wiley & Sons, 2016
The Economic Cell Collective: Economic Principles in Cell Biology. No commercial publisher | Authors open access book, 2024. doi: 10.5281/zenodo.8156386.
Association in the course directory
MES3, M-WZB, MEC-9, MBO 7
Last modified: Fr 01.03.2024 09:07
They will be able to perform a basic computational analysis of such models, and will be able to use them for the prediction of metabolic fluxes with constraint- and optimization-based methods.
They can construct metabolic network models from genetic sequence data and suitable enzyme/reaction databases with suitable software tools.ContentsStructure and properties of metabolic network models
Working with metabolic network models: flux balance analysis, flux variability analysis
Genome-scale models
Reconstruction of models from genetic data