BIOINF2110 Vorlesung Grundlagen der Bioinformatik
Online lecture
| Lecturers | Prof. Daniel Huson, Anupam Gautam, Timo Lucas, Dr. Monika Zeller and Wenhuan Zeng |
| Lectures | Start date: April 20th, 2020 (Was: Mondays 10:15-12h, Wednesdays 10:15-12h, Hörsaal 2, Sand 6/7) Lectures will be made available via Ilias on Mondays. Assignments will be made available via Ilias on Wednesdays. Prof Daniel Huson is available online Mondays and Wednesday 11:15h for questions about the lecture. |
| Tutorials | Mondays 10-11:15h via Zoom, participation is mandatory. |
| Grading | Your grade will be based on an exam. |
| Admission to exam | You must achieve at least 50% of all assignment points and attend 8 (of 12) tutorials. You can work on and hand in assignment sheets in groups of up to two people. If you attain 60%, 75% oder 90% of all assignment points, then you will be given 2, 5, or 8 (out of 50), respectively, bonus points in the final exam. |
| Language | English |
| Links | Alma Ilias |
Content and script:
This course discusses some of the foundations of bioinformatics, focusing on how "how stuff works". Many of the assignments will involve implementing key algorithms in Java, so knowledge of Java is required to take this course.
Schedule
This is a tentative schedule that might well change during the course.
| Date | Topic | Assignments |
|---|---|---|
| 20.4. | 1. General Introduction and Java setup | |
| 22.4. | 1 | |
| 27.4. | 2. Pairwise Alignment | |
| 29.4. | 2 | |
| 4.5. | 3. Multiple Sequence Alignment | |
| 6.5. | 3 | |
| 11.5. | 4. Phylogenetics | |
| 13.5. | 4 | |
| 18.5. | Phylogenetics continued, 5. Genome comparison | |
| 20.5. | 5 | |
| 25.5. | 6. Blast and 7. RNA secondary structure | |
| 27.5. | 6 | |
| 1.6. | holiday | |
| 3.6. | holiday | |
| 8.6. | 8. Sequencing and Assembly | |
| 10.6. | 7 | |
| 15.6. | 9. HMMs | |
| 17.6. | 8 | |
| 22.6. | HMMs continued, 10. Gene finding | |
| 24.6. | 9 | |
| 29.6. | 11. Protein Secondary Structure | |
| 1.7. | 10 | |
| 6.7. | 12. Protein Tertiary Structure | |
| 8.7. | 11 | |
| 13.7. | 13. Population genetics | |
| 15.7. | Practice exam | |
| 20.7. | Exam preparation | |
| 22.7. | Exam preparation | |
Thur 6. Aug | Final exam 8:30-10:30 in N3 (students in tutorial B, Dr. Monika Zeller's group) and N7 (all other participants) in Morgenstelle Hörsaalgebäude (blue spaces) |
The makeup exam will take place on Monday, 28.9., 10-12h, in N11, Morgenstelle.