Practical Course: Bioinformatics Applications in Genome Research

392181 Schulz Block 09.03.2020-20.03.2020 - 9:30-17:30 Uhr in V6-116 ekvv


In this course, practical applications and issues in concrete problem statements and handling real data sets will be addressed. The following topics are intended: assembly, scaffolding, annotation, gene prediction, comparative analysis, etc.

Theoretical knowledge of the students shall be supplemented by practical aspects such as setting up and running existing tools, implementing small own tools, pre- and postprocessing, and critical interpretation of results. A continuously enriched visualization of the data and the obtained results will also guide through the course.

  • Requires participation in the lecture “Algorithms in Genome Research” or similar.
  • Beside regular and active participation in the course, each student gives a short (15min) presentation and presents their results to the other participants.


Date Topic Presentation Solution (for next day)
Mon, 9.3. Metagenomics Tizian: Metagenomics Fabienne
Tue, 10.3. Hi-C Data Analysis Leonard: Hi-C Leonard
Wed, 11.3. Haplotype Inference I Fabienne: WhatsHap Lukas
Thu, 12.3. Haplotype Inference II Lukas: Integer Linear Programs Leonard
Fri, 13.3. Assembly Leonard: Genome Assembly, de Brujin Graphs Fabienne
Mon, 16.3. Finishing Fabienne: BWA Lukas
Tue, 17.3. Genome rearrangements Lukas: Rearrangement distances Fabienne
Wed, 18.3. Hidden Markov Models (HMMs) Leonard: HMMs Lukas
Thu, 19.3. Gene Prediction Lukas: Gene Prediction (software: Glimmer, Prodigal) Leonard
Fri, 20.3. Finishing the Circos plot

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