Max-Planck-Institut für Informatik
max planck institut
mpii logo Minerva of the Max Planck Society
Computational Biology / Bioinformatics II (SS 2010)

Computational Biology / Bioinformatics II (SS 2010)


  • 2010-09-20  Second exam takes place on Thursday, November, 4th, 13:00h-16:00h, in room 003 (ground floor, at the entrance left) in E2.1.
  • 2010-06-15  Tutorial this week postponed to Thursday, June, 17th, 16:15, Rotunda, 5. floor.
  • 2010-05-26  The corrected version of Handout 6 is online now.
  • 2010-05-25  There is a misleading explanation in Handout 6. Therefore, we put it offline until it is corrected. We plan to have the corrected version online on 2010-05-26.
  • 2010-05-25  For Handout 6 there was a corrupt version of the file handout_6_2_absence_presence.txt online before 2010-05-25, 4pm. Please make sure you have the current version.
  • 2010-05-20  The tutorial on 2010-05-21 is cancelled.
  • 2010-04-20  The lecture on Thursday, April 22th is postponed to Wednesday, April 28th, 16:15h - 18:00h.
  • 2010-04-20  The room for the exam changed. The exam takes place in HS 001 in E2.1.
  • 2010-04-01  The first lecture is on April, 15th 2010.


Lecturer: Prof. Dr. Dr. Thomas Lengauer
Tutor: Bastian Beggel

Course Details

Language: English
Credit Points: 9 LP (V4 U2)
Module-Identifier: BI-B-3
Modules: "Vorlesungen der Bioinformatik" (Bachelors Program Bioinformatics)

Times and Locations

Lecture: Tuesday and Thursday, 14:15h - 16:00h, in Building E1 4 (MPI Building), Room 024
Starting Tuesday, April 15th and ending Thursday, July 22

Tutorials: Friday, 14:15h - 16:00h, Building E1 4 (MPI Building), Room 021
Starting Friday, April 16th, the last tutorial is on Friday July, 16th, 14:15h - 16:00h

Exams: July 22th, 13:00h - 16:00h in building E2 1 (Bioinformatics) lecture room 001(HS 001).
Second Exam: November, 4th, 13:00h-16:00h in room 003 (ground floor, at the entrance left) in E2.1.


The course focus is on protein bioinformatics and on bioinformatics problems concerned with the diagnosis and therapy of diseases. Problems that are covered include protein structure comparison, protein structure prediction, protein domain and protein family analysis, protein function analysis, analysis of protein interactions (docking), drug comparison and drug screening, analysis of mRNA expression data, analysis of metabolic and regulatory networks, analysis of genetic variations, analysis of resistance patterns in infectious diseases.


The course is obligatory for students in the Bachelor program on bioinformatics and is targeted at students in the 4th semester. The course is the sequel to the course 'Bioinformatik I'. Students who did not take that course will have to work up on their own some of the basic material on sequence alignment and phylogeny. We strongly suggest that students should also have attended "Mathematik fuer Informatiker I", "Mathematik fuer Informatiker II", and "Programmierung II".

Requirements for the Course Certificate

To obtain the certificates, students have to solve homework assignments and pass the final exam. The final grade is based on the exam alone. Homework assignments will be made available every Tuesday on this page. Please return your solutions within one week, the deadline is the following Tuesday 14:00h (before the Tuesday lecture). All students who achieve at least 50% of possible points in the assignments qualify for the written exam. It is permitted to submit solutions in groups of up to two persons. Remember that you have to register for the final exam according to the regulations that apply to your program of study. Also, do not forget to bring your student's ID card to the exam.

Requirements for the Homework Assignments

The complete solution (incl. source code & command line syntax, if necessary) must be submitted in written form to the mailbox in front of room 502 on the 5th floor of Building E1 4 (MPI Building). In addition, for all programming exercises a runnable version of the program must be sent to The subject line of the email must contain the string '[BI2-#]', where '#' should be replaced with the number of the homework assignment. Remember to write your full name in the email body. We strongly encourage that you submit computer printed solutions. In case you plan to hand in hand-written text please observe that we can only grade neat and easily readable sheets. Please read the assignment sheets carefully - there may be deviations from these rules for some assignments as the tutors will change during the course. The solutions to the assignments will be discussed in weekly tutorials. The tutorials will deal with the assignments that have been handed in the week before the tutorial date.

Office Hours

Thomas Lengauer: Thursday, 13:30-14:00h, Building E1 4 (MPI Building), Room 501 and after each lecture in the lecture hall
Bastian Beggel: Thursday, 16-17h, Building E1 4 (MPI Building), Room 516