Bioinformatics 3

Tutors

Markus Hollander, Trang Do Hoang Thu, Andreas Denger, Dr. Pratiti Bhadra

Lecture:

Tuesday and Thursday, 2:15 pm - 4:00 pm, online via MS Teams

Tutorial:

Thursday, 12:00 -2:00 pm, online via MS Teams

Information:

For organizational reasons, if you want to participate, please register by email to Kerstin Gronow-Pudelek.

Exam:

Tuesday, August 10th, 10:00 am - 1:00 pm, lecture halls 002 and 001, building E1 3

Please find the results of the written exam here.

The exam review will take place on Thursday, August 26, 2021, from 10 am to 12 noon in E2 1, room 314.

Re-exam

The written re-exam will take place on Friday, October 22nd, 2021, 2:00 pm - 5:00 pm, HS 002 in E1 3.

Please regard that registration at LSF until October 15th, 2021, is mandatory.

Please find the results of the re-exam here.

Requirements:

Familiarity with contents of Bioinformatik I and II. The students will have to complete programming assignments e.g. 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 modifications 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 summer semester or the re-exam that will be scheduled at the beginning of the following winter 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 Thursday`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:

The lecture slides are available in the Microsoft Teams group.

Lecture Assignments Supplements
Lecture 1, April 13
Lecture 2, April 15 Assignment 1 Supplement 1
Solution Template
Solution Template (LaTeX)
Lecture 3, April 20
Lecture 4, April 22 Assignment 2 Supplement 2
Lecture 5, April 27
Lecture 6, April 29 Assignment 3 Supplement 3
Lecture 7, May 4
Lecture 8, May 6 Assignment 4 Supplement 4
Lecture 9, May 11
Lecture 10, May 18
Lecture 11, May 20 Assignment 5 Supplement 5
Lecture 12, May 25
Lecture 13, May 27 Assignment 6 Supplement 6
Lecture 14, June 1
Lecture 15, June 8 Assignment 7 Supplement 7
Lecture 16, June 10
Lecture 17, June 15 Assignment 8 Supplement 8
Lecture 18, June 17
Lecture 19, June 22 Assignment 9

to submit by June 29th, 12:00

Lecture 20, June 24
Lecture 21, June 29
Lecture 22, July 1 Assignment 10
Lecture 23, July 6
Lecture 23, July 8
Lecture 24, July 13
 Lecture 25, July 15