Bioinformatics 3


Monday, 2:15 pm - 4:00 pm and Friday, 1:15 pm - 3:00 pm, building E2 1, room 007


Monday, 12:00 pm - 2:00 pm, E2 1, room 007


Monday, March 7th, 10:00 am - 01:00 pm, building E1 3, lecture hall 001 - see slide 2 of lecture V24


The re-exam will take place on Friday, April 22nd, 10:00 am in building E2.1, room 007.


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.


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)


Students need to pass the written final exam that will be scheduled near the end of the winter semester or the re-exam that will be scheduled at the beginning of the following summer semester.

Condition for participation in the final exam:

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.


V. Helms, Principles of Computational Cell Biology, Wiley (2008)


9 (4 V + 2 Ü)


This course is taught in English language.


LecturesSlides (pdf)Slides (ppt)AssignmentsSupplements
Lecture 1, October 23pdfpptxAssignment 1Supplement 1
Lecture 2, October 26pdfppt
Lecture 3, October 30pdfpptAssignment 2Supplement 2
November 2No lecture
Lecture 4, November 6pdfpptAssignment 3Supplement 3
Lecture 5, November 9pdfppt
Lecture 6, November 13pdfpptAssignment 4Supplement 4
Lecture 7, November 16pdfppt
Lecture 8, November 20pdfpptAssignment 5Supplement 5
Lecture 9, November 23pdfppt
Lecture 10, November 27pdfpptAssignment 6
Lecture 11, November 30pdfppt
Lecture 12, December 4pdfpptAssignment 7Supplement 7
Lecture 13, December 7pdfppt
Lecture 14, December 11pdfpptAssignment 8
Lecture 15, December 14pdfppt
Lecture 16, December 18pdfpptNo assignment
Lecture 17, January 4pdfpptAssignment 9
(due Jan. 15)
Lecture 18, January 8pdfppt
Lecture 19, January 11pdfppt
Lecture 20, January 15pdfpptAssignment 10Supplement 10
Lecture 21, January 18pdfppt
Lecture 22, January 22pdfppt
Lecture 23, January 25pdfppt
Lecture 24, January 29pdfpptsee slide 2 for
content of
final exam