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

Results of the written exam.

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.

Results of the re-exam.

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