Bioinformatics 3

Tutors

Markus Hollander, Thorsten Will, Nicolas Künzel, Andreas Denger, Dr. Pratiti Bhadra

Lecture:

Tuesday and Thursday, 2:15 pm - 4:00 pm, building E2 1, room 001

Tutorial:

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

Exam:

Tuesday, February 11th, 10:00 am - 1:00 pm, E1 3, HS 001

Exam results

Because of university´s closure, no exam review is possible at the moment.

Re-exam

The re-exam will take place as an oral exam in building E2 1, conference room 1.06. Possible dates are April 27, April 28, May 06, and May 07, 2020.  Please contact Kerstin Gronow-Pudelek until Thursday, April 23rd, 2020, 12:00 (noon) for fixing the exam date and time.

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.

Content:

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)

Schein/Certification:

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.

Textbook:

V. Helms, Principles of Computational Cell Biology, Wiley (2019)

Leistungspunkte/Credits:

9 (4 V + 2 Ü)

Language

This course is taught in English language.

Lectures:

Lecture Slides (pdf) Slides (ppt) Assignments Supplements
Lecture 1, October 18  pdf ppt Assignment 1 Supplement
Lecture 2, October 21 pdf ppt
Lecture 3, October 25 pdf ppt  Assignment 2  Supplement 2
Lecture 4, October 29 (Tuesday) pdf ppt
Lecture 5, October 31 (Thursday) pdf ppt  Assignment 3 Supplement 3 
Lecture 6, November 5 pdf ppt
Lecture 7, November 7 pdf ppt Assignment 4 Supplement 4
Lecture 8, November 12 pdf ppt
Lecture 9, November 14 pdf ppt Assignment 5 Supplement 5
Lecture 10, November 19 pdf ppt
no lecture on November 21
Lecture 11, November 26 pdf ppt
Lecture 12, November 28 pdf ppt Assignment 6 Supplement 6
Lecture 13, December 3 pdf ppt
Lecture 14, December 5 pdf ppt Assignment 7 Supplement 7
Lecture 15, December 10 pdf ppt
Lecture 16, December 12 pdf ppt Assignment 8  Supplement 8
Lecture 17, December 17 pdf ppt
Lecture 18, December 19 pdf ppt Relevant slides
Lecture 19, January 7 pdf ppt
Lecture 20, January 9 pdf ppt  Assignment 9
Lecture 21, January 14 pdf ppt
Lecture 22, January 16 pdf ppt  Assignment 10
Lecture 23, January 21 pdf ppt
Lecture 24, January 23 pdf ppt
 Lecture 25, January 28 pdf ppt
Lecture 26, January 30 pdf ppt