Lecturer: Prof. Dr. Volkhard Helms
Lecture: Monday, 2:15 pm – 4:00 pm and Friday, 1:15 pm – 3:00 pm, building E2 1, room 007
Tutorial: Monday, 12:00 pm – 14:00 pm, E2 1, room 007
Requirements: familiarity with contents of Bioinformatik I and II. The students will have to complete programming assignments with Python. This course can be taken as part of the Master program Bioinformatics.
Contents: the course will cover methodological aspects of integrated biology and systems biology:
- protein-protein interaction networks (mathematical graphs, Bayesian networks)
- analysis of protein complexes (density fitting, Fourier transformation)
- transcriptional regulatory networks (Boolean networks) including epigenetic processes and micro RNAs
- dynamic simulation of cellular processes (differential equation solvers, stochastic simulations)
- metabolic networks (linear algebra)
Condition for certification: There will be four 45-minutes tests on different parts of the lecture. An averaged score will be computed from the best three results of the four tests. This score will count 50% for the grade of certification (“Schein”). The other 50% are taken from the mark in the final exam (120 min) that will (mostly) cover the material of the assignments.
Condition for the participation in the final exam: (a) successful participation in 3 out of the 4 tests, (b) at least half of the points of the assignments. Solutions have to be returned at the beginning of the following Friday´s lecture. In addition each student has to solve one of these problems on the blackboard.
Textbook: V. Helms, Principles of Computational Cell Biology, Wiley (2008)
Date of the examination: Monday, February 3, at 2:15 pm in E2 1, 007
Leistungspunkte/Credits:
9 (4 V + 2 Ü)
This course is taught in English language.
Lectures:
| Lecture 1, October 18 | ppt | Assignment 1 | Supplementary 1 | |
| Lecture 2, October 21 | ppt | |||
| Lecture 3, October 25 | ppt | Assignment 2 | Supplementary 2 | |
| Lecture 4, October 28 | ppt | |||
| Lecture 5, November 4 | ppt | |||
| Lecture 6, November 8 | ppt | Assignment 3 | Supplementary 3 | |
| Lecture 7, November 11 | Minitest 1 |
ppt | ||
| Lecture 8, November 15 | ppt | Assignment 4 | ||
| Lecture 9, November 18 | ppt | |||
| Lecture 10, November 22 | ppt | Assignment 5 | ||
| Lecture 11, November 25 | ppt | |||
| Lecture 12, November 29 | Minitest 2 |
ppt | ||
| Lecture 13, December 2 | ppt | Assignment 6 | Supplementary 6 | |
| Lecture 14, December 6 | ppt | |||
| Lecture 15, December 9 | ppt | |||
| Lecture 16, December 13 | ppt | Assignment 7 | ||
| Lecture 17, December 16 | Minitest 3 (no proofs from V13 + V14) |
ppt | ||
| Lecture 18, January 6 | ppt | |||
| Lecture 19, January 10 | ppt | |||
| Lecture 20, January 13 | ppt | Assignment 8 | ||
| Lecture 21, January 17 | ppt | |||
| Lecture 22, January 20 | ppt | |||
| Lecture 23, January 24 | Minitest 4 (only V18-V22, not slides 1-21 from V22) |
Assignment 9 | Supplementary 9 | |
| Lecture 24, February 3 | final exam (about assignments) |
last tutorial: January 31 at 3:00 pm |