BIOINF3310 Phylogeny and Evolution
| Lecturers | Prof. Daniel Huson and team |
| Lectures | Thursdays, 16:15-18:00, in C215 Sand 14, starting 17th October 2024 |
| Assignments | Assignments will be made available every Monday at 8:00 via Ilias. Solutions are due by the following Monday at 8:00. |
| Tutorials | Tutorial A: Monday , 8:15-10:00, C215, Sand 14, starting 21st. October 2024. Tutorial B: TBA Participation is mandatory. |
| Exam | Written exam |
| Audience | Bachelor students, bioinformatics and medical informatics, 6 LP Master students, bioinformatics |
| Language | English |
Links | Alma Ilias |
Contents
This course gives an introduction to the basic concepts and methods of phylogenetics, with an emphasis on phylogenetic networks.
Here is a tentative schedule:
| Date | Topic | Assignments |
|---|---|---|
| 17.10. | 1. Graphs and trees | Assignment 1 |
| 24.10. | 2. Counting trees and tree neighborhoods | Assignment 2 |
| 31.10. | 3. Maximum parsimony (Some overlap with Sequence Bioinformatics) | Assignment 3 |
| 7.11. | 4. A simple model of evolution (Some overlap with Sequence Bioinformatics) | Assignment 4 |
| 14.11. | 5. Maximum-Likelihood (Some overlap with Sequence Bioinformatics) | Assignment 5 |
| 21.11. | 6. Distance-based method (Some overlap with Sequence Bioinformatics) | Assignment 6 |
| 28.11. | 7. Rooted trees and networks | Assignment 7 |
05.12. | continued | Assignment 8 |
| 12.12. | 8. Unrooted trees and networks | Assignment 9 |
| 19.12. | continued | |
| 09.01. | 9. Consensus trees and networks | Assignment 10 |
| 16.01. | 10. Neighbor net | Assignment 11 |
| 23.01. | 11. Phylogenetic outlines | Practice exam |
| 06.02.2025 | EXAM in F119 Sand 6/7 | |
There will be a makeup exam on April 3rd, 10-12h, F119, Sand 6/7 . Please send an email to Prof. Daniel Huson if you intend to participate in this exam.
Recommended textbooks
- Felsenstein, Inferring Phylogenies, Sinauer, 2004
- Huson, Rupp und Scornavacca, Phylogenetic Networks, Cambridge University Press, 2010
How to get credit for this course
- Always participate in the weekly problem sessions and actively present your results. If you miss more than two tutorials, then you will not be allowed to take the exam.
- Assignments are set weekly and are due the following week.
- Obtain at least 50% of all points. If you obtain 70%, 80% or 90% of all possible assignment points, then you will receive bonus points toward your exam.
- Pass the exam.