Molecular Modeling and Proteomics

Catalog description

This course will explore various facets of analyzing protein molecules: separation, identification, quantification, and structure. The separation component will address common protein separation techniques, focusing on different liquid chromatography approaches. For the identification and quantification of proteins, we will take a detailed look at mass spectrometry-based proteomics. The structure component will follow the levels of protein structures, comprising both experimental and computational methods to determine protein structures. The theoretical background on mass spectrometry-based proteomics will be taught in lectures, while the lab component will comprise bioinformatic analyses of whole proteomes and public proteomics datasets, including the modeling of protein properties, chromatographic behavior, and peptide fragmentation. Similarly, tertiary structure determination techniques such as X-ray crystallography, NMR, and cryo-electron microscopy will be covered in the lectures, while bioinformatic tools will be used to visualize and compare experimentally solved protein structures. In addition, different protein structure prediction tools (e.g. homology modeling, machine learning-based modeling) will be explored.