timsTOF Ultra: Immunopeptidomics and single cell proteomics explorations

Recent instrumental breakthroughs in mass spectrometry are a real game-changer and have opened new possibilities for proteomic analysis implying extreme sensitivity at high throughput.

On the one hand single cell proteome analysis has become feasible: we have pushed a timsTOF Ultra instrument to its limits to reach a proteome coverage of around 5.000 proteins identified in a single cell. On the other hand, chromatography and MS acquisition parameters optimizations combined with innovative AI-based data interpretation have enabled us to reach unprecedented coverage in immunopeptidomics with close to 20.000 immunopeptides identified from limited numbers of cells. We will show how fine application-specific optimizations of every step of the proteomics workflow are strongly beneficial to the output results.

Presenter: Christine Carapito (CNRS Research Director, Co-head of the BioOrganic Mass Spectrometry Laboratory, CNRS and University of Strasbourg, France)

Presenter: Jeewan Babu Rijal (Post-doctoral fellow at the BioOrganic Mass Spectrometry Laboratory, CNRS and University of Strasbourg, France)