Special-topic Lecture: Mathematics of Cellular Networks

Lecturer: Prof. Dr. Volkhard Helms

Tutor: Maryam Nazarieh, Thorsten Will

Lecture: Tuesday, 10:15 am - 11:45 am, building E2 1, room 007
Tutorial: Tuesday, April 22, 12:45 am - 1:30 pm, building E2 1, room 007; from Tuesday, April 29 on at 4:00 pm

Information: This course can be used as a "Spezialvorlesung der Bioinformatik/Special-topic Lecture Bioinformatics"

Leistungspunkte/Credits:

5 (2 V + 1 Ü)

This course is taught in English language.

Conditions for certification: Students need to get at least 50% of the points from the assignments to qualify for the final exam. 

Suggested date of final exam: Tuesday, August 5, 10:00 am, E2 1, 007

Schein/Certification: Successful completion of the course is equivalent to passing the written final exam that will take place near the end of the semester (end of July/beginning of August). The grade for the Schein will be equal to the grade of the final exam.

A second-chance exam will be offered at the beginning of the next winter semester.

There will be about six bi-weekly assignments and weekly tutorial sessions.

Content:

(a) topological properties of networks (after Mark Newman: Networks - An Introduction)

  • centrality measures (chapter 7)
  • graph partitioning (chapter 11)
  • epidemics on networks (chapter 17)

(b) probabilistic networks (after Daphne Koller & Nir Friedman; Probabilistic Graphical Models

...

(c) reconstructing gene-regulatory networks

  • ... examples from the current literature ...

Requirements:

no formal requirements,

prior participation in bioinformatics III lecture is helpful but not required,

solid programming experience is recommended for completing the assignments.

Lectures:

Lecture 1, April 15 pptx pdf  
Lecture 2, April 22 pptx pdf Assignment 1
Lecture 3, April 29 pptx pdf  
Lecture 4, May 6 pptx pdf Assignment 2
required_data
Lecture 5, May 13 pptx pdf  
Lecture 6, May 20 pptx pdf Assignment 3
Lecture 7, May 27 pptx pdf  
Lecture 8, June 3 pptx pdf Assignment 4
README.txt
test.tsv
training.tsv
Lecture 9, June 10 pptx pdf  
Lecture 10, June 17 pptx pdf Assignment 5
cancer_bn
samples
Lecture 11, June 24 pptx pdf  
Lecture 12, July 1

pptx

tutorial
today at 4 pm!

pdf Assignment 6
Supplement.zip
July 8 no lecture    
Lecture 13, July 15 pptx pdf  
Lecture 14, July 22 no lecture