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Bioinformatics 3 WS 12/13

General Information

Lecturer: Prof. Dr. Volkhard Helms

Tutors: Nadine Schaadt, Christian Spaniol, Ruslan Akulenko

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: Friday, February 1, 2013, 1:00 pm - 3:00 pm, E2 1, room 007

RESULTS of the exam of February 1

RESULTS of the re-exam of Friday, April 19, 2013, 2:15 pm - 4:15 pm, E2 1, 007

FINAL GRADES

Leistungspunkte/Credits:

9 (4 V + 2 Ü)

This course is taught in English language.

 

Lectures:
Lecture 1, October 15
pdf
ppt
Assignment
Supplement
Lecture 2, October 19
pdf
ppt
pdf
tar.gz
Lecture 3, October 22
pdf
ppt


Lecture 4, October 26
pdf
ppt


Lecture 5, October 29
pdf
ppt
pdf
tar.gz
Lecture 6, November 2
pdf
ppt
Results: Short Test #1

Lecture 7, November 5
pdf
ppt
pdf
tar.gz
Lecture 8, November 9
pdf
ppt


Lecture 9, November 12
pdf
ppt


Lecture 10, November 16
pdf
ppt
Lecture from 2:15 pm - 3:15 pm

Lecture 11, November 19
pdf
ppt
NO TUTORIAL TODAY

Lecture 12, November 23
pdf
ppt
Results: Short Test #2,       pdf

Lecture 13, November 26
pdf
ppt


Lecture 14, November 30
pdf
ppt
no tutorial on December 3

Lecture 15, December 10
pdf
ppt


Lecture 16, December 14
pdf
ppt
pdf

Lecture 17, December 17
pdf
ppt


Lecture 18a, January 7


Results: Short Test #3

Lecture 18b, January 11
pdf
ppt
pdf
zip archive
Lecture 19, January 14
pdf
ppt


Lecture 20, January 18
pdf
ppt
pdf

Lecture 21, January 21
pdf
ppt


Lecture 22, January 25


Results: Short Test #4

January 28    


no lecture

Lecture 23, February 1


Final exam

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