In this class, we introduce fundamental bioinformatics technology for analysing sequencing data. Our focus will be on understanding fundamental computer science methods behind direct processing and important downstream analysis. Thus, the class takes about one third of its time to discuss graph algorithms for the assembly of genomes as well as index structure for the mapping of next and 3rd generation sequencing data. We will then introduce methods for annotation, alignment and motif finding as well as spend one unit on phylogenomics. As another focus area, we turn to the downstream analysis of RNA-seq based experiments, in order to reveal the structure and interactions of RNAs. Here, we will dive into combinatorics of RNA structure and interaction prediction, emphasizing their integration with experimental data. Moreover, we discuss applications of machine learning techniques in down-stream analysis, e.g. specialized kernel methods.
- Teaching coordinator: Boury Théo
- Teaching coordinator: Will Sebastian