Bioinformatics to improve shotgun proteomics analyses. Towards an efficient Maldi-MS pipeline
PhD ceremony: Mr. T.P. Gandhi, 13.15 uur, Doopsgezinde Kerk, Oude Boteringestraat 33, Groningen
Dissertation: Bioinformatics to improve shotgun proteomics analyses. Towards an efficient Maldi-MS pipeline
Promotor(s): prof. B. Poolman, prof. R. Breitling
Faculty: Mathematics and Natural Sciences
Proteins play an overwhelmingly dominant role in living organisms as the work-horses of cells. The term proteomics, coined to serve as an analogy to genomics, is often defined as the comprehensive, quantitative study of protein expression and its changes under the influence of biological perturbations. The goal of a typical proteomics experiment is to juxtapose the set of expressed proteins from a living organism under different conditions such as temperature, mutation, nutrient availability, disease vs. healthy. The idea is to understand a biological system by looking at the differences between two or more states, in case of proteomics in the content, state (qualitative), and levels (quantitative) of proteins. Obviously, before any thorough quantitative analysis of differences can be undertaken, unknown proteins expressed in a biological sample must first be identified. Shotgun proteomics is an indispensible tool in high-throughput analysis of proteins in complex biological samples. Accurate peptide identification from liquid chromatography (LC) coupled with tandem mass spectrometry (MS/MS) forms the cornerstone of such analyses. The work done in this thesis is related to the improvement in the performance of an LC-MALDI-based proteomics pipeline by focusing on several of its components, the outcome of which has resulted into several new algorithms and software solutions.
Last modified: | 13 March 2020 01.12 a.m. |
More news
-
17 July 2025
Veni-grants for eleven UG researchers
The Dutch Research Council (NWO) has awarded a Veni grant of up to €320,000 each to eleven researchers of the University of Groningen and the UMCG: Quentin Changeat, Wen Wu, Femke Cnossen, Stacey Copeland, Bart Danon, Gesa Kübek, Hannah Laurens, Adi...
-
14 July 2025
ERC Proof of Concept grant for Kottapalli and Covi
Professors Ajay Kottapalli and Erika Covi have received Proof of Concept grants from the European Research Council (ERC).
-
10 July 2025
Dutch Research Agenda funding for nanomedicine research
Prof Dr Anna Salvati, Dr Christoffer Åberg and Prof Dr Siewert-Jan Marrink have been granted a National Science Agenda (NWA) funding to further develop life-saving drugs based on nanotechnology with the NanoMedNL consortium.