Protein and Cell Biology

Being integrated into the Proteomics and Mass Spectrometry Core Facility, our research focuses on the study of system-wide protein regulation using (mostly, but not exclusively) mass spectrometry-based technology. We are about to refine a LC-MS/MS based method for the characterization of circulating extracellular vesicles from human plasma. On the same line, we are going to establish a immunopeptidomics/proteogenomics pipeline in order to identify antigenic peptides presented on the MHC-I complex. The idea is to offer a comprehensive diagnostic method for biomedical research in the context of leukemia, cancer, cardiovascular and pneumological disease. Our laboratory is furthermore equipped with a cone-and-plate apparatus setup on which adherent cells, e.g. endothelial cells, can be subjected to defined shear stress of different quality. The idea is to study in-vitro the molecular processes of endothelial biology induced by a variety of stimuli under near physiological conditions.

Bioinformatics

Bioinformatics students possibly interested in joining our lab for a project should sent an email to anne-christine.uldry at unibe.ch and manfred.heller at unibe.ch, stating the following information:

*) Type of project: master thesis, research project…
*) Time frame for the project (start in Sept 2024 for 6 months, etc.)
*) Particular wishes, like skills to learn (neural networks? phosphoproteomics data validation?  downstream data analysis?  etc.)
*) Your programming skills

The poster shown at the genomics day is reproduced here.

In a nutshell: as a core facility, most of the data we produced are not owned by us, but by our clients. Joining on a specific client project is possible, provided the clients give their consent and the project suits their time frame.

Some data however are owned by us, and were produced within the framework of our own particular research interests (phosphoproteomics, immunopeptidomics and extracellular vesicles).  Further data could be produced synthetically, and/or obtained from the public repositories.

We can make a short but concrete proposal once we have the information above, which can be in time further discussed.