Projektbeschreibung
Innovative Proteomikdatenanalyse zur umfassenden Identifizierung von Protein-Isoformen
Protein-Isoformen, d. h. verschiedene Versionen eines Proteins aus einem einzigen Gen, tragen zur molekularen Vielfalt des Lebens bei. Allerdings fehlen umfassende Erkenntnisse über Protein-Isoformen auf Proteinebene, da bis zu 80 % aller Proteomikdaten bei der Analyse ungenutzt bleiben. Zur Bewältigung dieser Herausforderung schlägt das ERC-finanzierte Projekt ORIGIN einen neuen Ansatz vor, der auf der Entdeckung der deterministischen mehrdimensionalen Fingerabdrücke beruht, die Protein-Isoformen bei proteomischen Messungen erzeugen. Im Rahmen des Projekts werden Protein-Isoformen systematisch bestimmt, indem eine neuartige, auf der Massenspektrometrie basierende Strategie zur Analyse von Proteomikdaten eingesetzt wird. Bei diesem Ansatz werden tiefe neuronale Netze trainiert, um deterministische mehrdimensionale Fingerabdrücke vorherzusagen, die anschließend zur Erkennung und Quantifizierung von Protein-Isoformen verwendet werden.
Ziel
Did you know that ~80% of all proteomic data is not utilized? Proteins play a vital role in all biological processes and organisms. We believe that different versions of a single gene product – protein isoforms – shape the molecular diversity of life. However, comprehensive evidence on protein-level is not available. Chromatography-coupled tandem mass spectrometry (LC-MS/MS) is the de-facto standard for measuring proteomes, but it is not good at identifying isoforms because at least 80% of the recorded information is never used. I argue that isoforms leave a deterministic multi-dimensional fingerprint (ORIGINs) representing their physicochemical properties in each proteomic measurement. Therefore, the central aim of this project is to discover and quantify protein isoforms systematically by a novel MS-based proteomics data analysis strategy. By tapping into the wealth of data the proteomics community has already amassed, I will train deep neural networks that allow the prediction of ORIGINs. Second, I will implement an innovative data analysis strategy that utilizes ORIGINs to identify and quantify isoforms. Third, I will demonstrate that ORIGINs can be used to substantially broaden our understanding of the molecular diversity of life by showcasing its application on four emerging and challenging questions in proteome research of varying biological and technical complexity. This will allow me to address a fundamental open question in biology: to which extent and prevalence isoforms are actually translated and what functional roles they might be associated with. ORIGINs will improve the sensitivity, biological resolution and accuracy at which proteins and their isoforms can be identified and quantified. Beyond this, the concept of ORIGINs can be applied to and improve any proteomics experiments, and thus holds the potential to revolutionize MS-based proteomics as a technology and elevate the whole field of protein-based research.
Wissenschaftliches Gebiet
- natural sciencescomputer and information sciencesdata science
- natural sciencesbiological sciencesbiochemistrybiomoleculesproteinsproteomics
- natural scienceschemical sciencesanalytical chemistrymass spectrometry
- natural sciencescomputer and information sciencesartificial intelligencecomputational intelligence
Schlüsselbegriffe
Programm/Programme
- HORIZON.1.1 - European Research Council (ERC) Main Programme
Thema/Themen
Finanzierungsplan
HORIZON-ERC - HORIZON ERC GrantsGastgebende Einrichtung
80333 Muenchen
Deutschland