Daldayan, Daniel (2025) Implementation of GoDig-MS Technology for Spatial Proteomics: A Novel Approach for Efficient Method Developement and Sample Measurement in the Targeted Proteomics Space. Thesis.

Abstract

Spatial proteomics not only enables the identification of protein composition but also allows the mapping of their localization within cells or tissues. This analytical approach is supported by increasingly sensitive and advanced mass spectrometers, which have also led to the development of new acquisition methods. While already established and commonly used techniques do not always provide the required sensitivity and efficiency for the analysis of low-abundance analytes, GoDig technology promises deeper and multiplexed mass spectrometric analyses without the need for internal standards. To evaluate this method, GoDig was benchmarked against Real-time search and a conventional acquisition method using specifically concentrated myoglobin peptides. The myoglobin peptides as well as the generated background spectral library were labeled with TMTpro and analyzed using an Orbitrap Eclipse mass spectrometer. The results show that at higher concentrations, GoDig performs comparably to both reference methods. However, at lower concentrations, GoDig sensitively detects the target peptides at all levels, whereas the reference methods partially fail to detect any signals. Additionally, the cosine similarity scores of the GoDig method show values close to 1.0, indicating high spectral agreement. Further experiments are recommended to continue evaluating the limit of quantification of this method.

Item Type:	Article
Date Deposited:	12 Sep 2025 00:45
Last Modified:	12 Sep 2025 00:45
URI:	https://oak.novartis.com/id/eprint/58087