The OLISSIPO Lecture: “From oncology to cardiology: Spatial omics technologies for topographic biomarker discovery” by Dr Denis Schapiro (University Hospital Heidelberg), was held on November 23, 2023 at INESC-ID, Lisbon.

From oncology to cardiology: Spatial omics technologies for topographic biomarker discovery

November 23, 2023 | LECTURE
11:00-12:00 (WET – Lisbon)

Location: INESC-ID (Lisboa, Portugal), Room 9

Abstract: With improvements in speed and amount of data that can be collected from tissues, data processing and analysis have become major challenges. Therefore, we developed the open-source histology topography cytometry analysis toolbox (histoCAT), which became the first software specifically tailored to analyse highly multiplexed images. HistoCAT includes advanced machine learning approaches and basic statistical methods integrated in an interactive desktop application. Recently, we have developed a scalable and modular computational pipeline (MCMICRO) enabling the analysis of a variety of highly multiplexed spatial technologies for proteomics (antibody-based) and transcriptomics. We demonstrated the use of MCMICRO on dozens of tissue and tumor images acquired using multiple imaging platforms, thereby providing a solid foundation for the continued development of tissue imaging software. In the second part of my talk, I will cover the Minimum Information about Highly Multiplexed Tissue Imaging (MITI) standard as well as our spatial power analysis framework to improve experimental design strategies. Lastly, I will highlight how we utilized the developed tools to process data with a focus on myocardial infarction.