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Course details 2012-2013  
Course Code :2001WETBIN
Study domain:Biology
Semester:Semester: 2nd semester
Contact hours:30
Study load (hours):84
Contract restrictions: Exam contract not possible
Language of instruction :Dutch
Exam period:exam in the 2nd semester
Lecturer(s)Kris Laukens


1. Prerequisites

At the start of this course the student should have acquired the following competences:
An active knowlegde of :
  • Dutch
A passive knowledge of :
  • English
English handouts and extra material will be provided. A number of lessons may be given in English, due to the involvement of foreign researchers.
  • General knowledge of the use of a PC and the Internet

General notion of the basic concepts of:
molecular biology
Specific prerequisites for this course:
Students without basic background in (molecular) biology will be invited to follow (about 3) introductory lessons. 

2. Learning outcomes

- Acquiring insight in handling and analysis of molecular biologica data using computational techniques.

- Understanding the background principles of a selection of computational techniques and models that are frequently used in bioinformatics.

- Being able to select the appropriate technique for a given problem, and being able to apply it.

- Knowing how to use, access, search the most important public molecular biological databases.

3. Course contents

The bioinformatics course aims to give students essential insights in the most important computational techniques used for the analysis of molecular (system) biological data. The student will also learn how to select the right strategy for a given task.

1. Structure:
- DNA & protein sequence databases and formats
- sequence search algorithms
- pairwise an multiple sequence alignment
- motifs & profiles
- introduction to phylogenetics and genome analysis
- secundary and tertiary structure prediction of proteins

2. Function:
- gen-prediction,
- protein & gene classification
- gene ontologies

3. Systems:
- handling transcriptome & proteome data
- data integration
- networks: pathways, interaction-networks,
- introduction to systems modeling

The practical sessions give students a chance to apply some of the discussed algorithms to solve a concrete problem.

4. Teaching method

Class contact teaching:
  • Lectures
  • Practice sessions

  • Personal work:
  • Exercises
  • Assignments:In group

  • 5. Assessment method and criteria

  • Oral without written preparation
  • Open book

  • 6. Study material

    Required reading

    Course material and handouts will be provided.

    Optional reading

    The following study material can be studied on a voluntary basis:
    Interesting books and websites will be mentioned during the lessons and in the handouts.

    7. Contact information

    The teacher is available under following coordinates, preferentially after appointment by email. 

    Intelligent Systems Laboratory (ISLab)
    University of Antwerp
    Middelheimlaan 1, G.219, B-2020 
    Antwerpen, Belgium 

    T   +32 (0)3 265 33 10

    Biomedical Informatics research center Antwerpen (biomina)
    Wilrijkstraat 10, 
    B-2650 Edegem

    T   +32 (0)3 821 59 47

    (+)last update: 30/07/2012 10:52 jan.vos