Bioinformatik 3 WS 08/09
General Information
Lecturer: Prof. Dr. Volkhard Helms
Tutors: Sikander Hayat, Peter Walter
Lecture: Tuesday and Thursday, 2:00 pm  4:00 pm, building E1 3, room 0.16
Tutorial: Monday, 2:00 pm  4:00 pm, building E1 3, room 0.15
The first tutorial will be on Tuesday, Oct. 30 at 2:00 pm in building E1 3, room 0.16 (instead of lecture). On Monday, Nov. 3 there will be lecture.
Requirements: familiarity with contents of Bioinformatik I and II. This course can be taken as part of the Master course (SPO 2006).
Contents: the course will cover methodological aspects of integrated biology and systems biology:
 proteinprotein interaction networks (mathematical graphs, Bayesian networks)
 analysis of protein complexes (density fitting, Fourier transformation)
 transcriptional regulatory networks (Boolean networks)
 dynamic simulation of cellular processes (differential equation solvers, stochastic simulations)
 metabolic networks (linear algebra)
 and modern applications in synthetic biology
Condition for certification: There will be four 45minutes 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 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 Thursday´s lecture or until 11 am at room 1.05 building C 7.1. In addition each student has to solve one of these problems on the blackboard.
Points after assignment 19 > All exercise groups passed the limit for the participation in the final exam.
OVERVIEW admissions to the exam here!
Hints and solutions for assignments 19 are available here! Update for hints for assignment 1; hints for assignment 10
Textbook: V. Helms, Principles of Computational Cell Biology, Wiley (2008)
Date of the examination: Tuesday, February 24, 10:00 am  12:00 am, building E1 3, room 0.15
RESULTS of the exam of February 24
RESULTS of the SECOND CHANCE EXAM of April 16
Leistungspunkte/Credits: 9 (4 V + 2 Ü)
This course is taught in English language.
Lectures:
1st Lecture, October 21  ppt  Assignment 1 

2nd Lecture, October 23  ppt  
3rd Lecture, October 28  ppt  

4th Lecture, October 30  ppt  Assignment 2, supplement 

5th Lecture, November 4  ppt  
6th Lecture, November 6  ppt  
7th Lecture, November 11  results test 1  Assignment 3 

8th Lecture, November 13  ppt  pdf 

9th Lecture, November 18  ppt  
10th Lecture, November 20  ppt  Assignment 4, supplement 

11th Lecture, November 25  ppt  
12th Lecture, November 27  ppt  
13th Lecture, December 2  ppt  pdf 

14th Lecture, December 4  results test 2/ppt  
15th Lecture, December 9  ppt  Assignment 5, supplement 

16th Lecture, December 11  ppt  
17th Lecture, December 16  ppt  
December 18 
Christmas lecture 

18th Lecture, January 6  ppt  Assignment 6 

19th Lecture, January 8  ppt  
20th Lecture, January 13  results test 3/ ppt  pdf 
Assignment 7, supplement Program for force directed layout of graphs 
January 15  no lecture 

21st Lecture, January 20  ppt 
pdf 

22nd Lecture, January 22  ppt  pdf 
Assignment 8 
23rd Lecture, January 27  ppt  
24th Lecture, January 29  ppt  Assigment 9 

25th Lecture, February 3 
ppt  pdf 

26th Lecture, February 5  ppt  
27th Lecture, February 10  ppt 
pdf 
test 4 
no lecture on February 12  results test 4  pdf 
Assignment 10, supplement 