Teaching

Summer semerster 2012:
Computational Biology of Transcriptional Gene Regulation	[Kickoff meeting/first class meeting: April 25, 2pm, room 007, ZBI building: E2.1 - 2 SWS class + 1 SWS tutorials, classes: Wednesdays, 2-4pm, ] [Classes: Wednesdays, 2-4pm, room 007, ZBI building: E2.1, Tutorials: Mondays, 4-5pm, room 007, ZBI building: E2.1] The class is dedicated to Master students of Computer Science or Bioinformatics. We will discuss the following topics: transcription factor identification, binding site prediction, de novo motif discovery, CHiP-seq data analysis, regulatory network databases, regulatory network visualization, statistical network properties, regulatory network evolution and conservation, combined analysis of networks and gene expression data, and modeling of regulatory networks Slides: 1, 2, 3, 4 Exercises: 1, 2, 3 Examn: July 4, 2012, E2.1, room 007, 2pm-4pm
Winter semerster 2011/2012:
Reconstruction and analysis of gene regulatory networks	[Kickoff meeting: Oct 25, 10am, room 001, ZBI building: E2.1] The seminar is ment to be supplementary to the homonymous class from last semester. However, attendance of the class is no prerequisite. It will cover sequence analysis methods and network analysis methods as well as databases for gene regulatory interactions.
Clustering in bioinformatics	[Kickoff meeting: Oct 25, 2pm, room 001, ZBI building: E2.1] This seminar will concentrate on all kinds of clustering approaches with typical applications in bioinformatics (protein homology detection, microarray data clustering). We'll start with more basic approaches, such as k-means, and finally discuss more advanced techniques, like Markov Clustering, Spectral Clustering or Transitivity Clustering. A basic understanding in algorithmics is necessary for this course. You will learn how to read, understand and present complex algorithmic problems and possible solutions.
Summer semerster 2011:
Reconstruction and analysis of gene regulatory networks	[Kickoff meeting/first class meeting: April 20, 2pm, room 007, ZBI building: E2.1 - 2 SWS class + 1 SWS tutorials] The class is dedicated to Master students of Computer Science or Bioinformatics. We will discuss the following topics: transcription factor identification, binding site prediction, de novo motif discovery, CHiP-seq data analysis, regulatory network databases, regulatory network visualization, statistical network properties, regulatory network evolution and conservation, combined analysis of networks and gene expression data, and modeling of regulatory networks
Winter semerster 2010/2011:
Reconstruction and analysis of gene regulatory networks	[Kickoff meeting: Oct 26, 10am, room 001, ZBI building] The seminar will cover sequence analysis methods (transcription factor binding site prediction, regulatory modules) and network analysis methods (evolution of gene regulatory networks, conserved network models, over-represented network motifs), and databases for gene regulatory interactions (RegulonDB, CoryneRegNet, TransFac). Generally, this Seminar is going to be more applied.
Clustering in bioinformatics	[Kickoff meeting: Oct 26, 2pm, room 001, ZBI building] Here, we'll concentrate on all kinds of clustering approaches with typical applications in bioinformatics (protein homology detection, microarray data clustering). We'll start with more basic approaches, such as k-means, and finally discuss more advanced techniques, like Markov Clustering, Spectral Clustering or Transitivity Clustering. A basic understanding in algorithmics is necessary for this course. You will learn how to read, understand and present complex algorithmic problems and possible solutions.