Beschreibung der Lehr- und Lernformen
Before the course starts, students will receive a pre-test with questions about basic knowledge that are required for the course (for example, basic knowledge of mass spectrometry and proteomics). Relevant literatures will be provided together with the pre-test. Students have a week to answer the questions and submit their answers by a defined deadline. During the course, students will be distributed randomly into six teams of three students each, keeping internationalisation, diversity and gender balanced as much as possible. The course is highly interactive and will be taught in presence, both digital and in person. Lectures and seminars (digital, week 1): Introduction lectures provide an overview of structural proteomics before students start their focused study. Students will then focus on the three key techniques of structural proteomics (TPP, Lip-MS, CLMS) by reading and presenting one paper for each topic. The papers will be provided at the start of the course and each team will prepare for each paper a 10-min literature seminar, in which they cover one of six aspects that will be pre-discussed in the course. The slides will be prepared collectively within each team for all three topics, while each team member will present one of the topics orally to the course and a field expert. International experts will join the topic discussions. PhD students from the department of Bioanalytics will present their ongoing projects in structural proteomics and answer career related questions. Practical section (in person+digital, weeks 2-4) In the practical section, the student teams from week 1 will combine affinity purification, shotgun proteomics and crosslinking mass spectrometry to isolate and characterize human 26S proteasomes in solution. Week 2 will be wet-lab work (in person). For each day’s task, in advance (via ISIS), students will receive protocols and instruction videos, with associated questions about key steps. Students will discuss the experimental procedures and the experimental setup together with the instructors before operations in the lab. The research project style requires instant analysis and discussions on experimental results such as SDS-PAGE and protein concentration assays. Decision-making by students will be required for proceeding to subsequent experimental steps. Towards the end of the week, students will acquire mass spectrometry data on the in-course samples. Week 3 will be data analysis (digital). Students will learn about the principles behind protein identification and identification of crosslinks through a series of short seminars. They will be guided to analysing their mass spectrometry data using a leading proteomics software, MaxQuant, and crosslink-specific tools, xiSEARCH & xiVIEW. They will also retrieve structures from the Protein Data Bank (PDB) and interrogate crosslinks in the context of these structural models. In week 4, all students will design and prepare a mutual presentation on their in-course work. This project presentation will be divided into six aspects of the work each being prepared and presented in a 20-minute talk by one of the six teams. The preparation of the presentation will be online, assisted by the instructors. On the last day, teams will gather and present the project in person.
