Domain: Proteomics bioinformatics; computational biology; software development

Keywords: peptide and protein quantification; bioinformatics; data analysis

Promotor: Harald Barsnes

Starting date: 1st of September 2024, for a period of 3 years

Location: Proteomics Unit, Department of Biomedicine, University of Bergen, Norway

Funding: HORIZON-MSCA-2022-DN project PROHITS

In this Ph.D. project, you will develop dedicated quantitative data processing algorithms for quantitative thermal proteome profiling data. Furthermore, based on the extensive work performed at the University of Bergen on powerful frameworks for online interactive visualisation of complex quantitative proteomics data (e.g., CSF-PR, and PeptideShaker Online), you will also develop an overall data visualisation system aimed at presenting actionable data on single cell and thermal proteome profiling mass spectrometry data to end users as intuitively and efficiently as possible.

Besides the work in Bergen, you will spend a 1 month secondment at the VIB-UGent Center for Medical Biotechnology (Gent, Belgium) for joint development of computational pipelines and a 2 month secondment to the Department of Biochemistry and Molecular Biology at the University of Debrecen (Debrecen, Hungary) to work on the visualisation of the acquired thermophile data.

The project is part of a computational/experimental EU MSCA-DN project with a total of 10 Ph.D. students and is highly interdisciplinary. Good programming skills (preferably Java) are essential, with experience in developing user-friendly software, ideally in a web-based context, being very desirable. Background knowledge of proteomics and mass spectrometry data analysis is an advantage. Candidates must be motivated to learn about all disciplines relevant to the project.

Candidates must be fluent in English.

Applications must be submitted online in English following the instructions and respecting the conditions at https://bit.ly/prohits. The deadline for applications is 15/03/2024 at 23:59 (CET)

Further general information about the PROHITS project: http://prohits.eu