Workshop with hands-on training for PhD students, PostDocs (and PIs) involved in the CRC projects.
The workshop, organised by Friedel Drepper and Pitter Huesgen, will take place:
March 07, 2024, 2:00-6:00 p.m., Institute for Biology II, Schänzlestr. 1
Abstract:
Mass spectrometry (MS)-based proteomics help to investigate dynamic protein machineries and their cellular functions. Tailored proteomics workflows allow studying their subunit composition and protein-protein interactions, or detect abundance changes of proteins and posttranslational modifications in response to stimuli.
The workshop will briefly review the most common workflows used in the CRC and explain how the samples are analyzed by mass spectrometry (data dependent and data independent acquisition). We will discuss critical steps during sample preparation, such as cell lysis, protein digestion, labeling, enrichment and clean-up on data quality. Examples will help you to understand the data analysis workflows, including scoring, false discovery rates, protein assembly as well as label-free and label-based quantification.
In a hands-on training you will use the web-based interactive viewer, developed in project Z1 for the CRC MS platform, to analyse protein interactomes, quantitative proteome changes, BN and SDS gel profiles as well as posttranslational modifications. We will discuss the roles of data normalization, filtering, imputation, and statistical analysis for the interpretation of observed abundance changes. Future directions and need for tools and evaluation pipelines will be discussed.
The workshop primarily targets participants who have already performed mass spectrometry experiments, or are in active discussion to conduct such experiments.
If you are interested in participation, please contact the SFB coordination office (sfb1381@biochemie.uni-freiburg.de)
