We are very happy to announce the next OLISSIPO event.
Date: November 23, 2023 - 11:00-12:00
Location: INESC-ID (Lisboa, Portugal), INESC Lisboa Room (Room 9), Floor -1 (ask at the reception)
Lecturer: Denis Schapiro (Heidelberg University Hospital)
Title: From oncology to cardiology: Spatial omics technologies for topographic biomarker discovery.
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.
Dr Denis Schapiro is a Group Leader at the Heidelberg University Hospital focusing on spatial omics technologies and analysis. Before moving to Heidelberg, he was an Independent Fellow at the Laboratory of Systems Pharmacology at Harvard Medical School and the Klarman Cell Observatory at the Broad Institute where he was a Damon Runyon Quantitative Biology Fellow mentored by Prof. Peter Sorger and Prof. Aviv Regev. Previously, he was supported by the SNFS Mobility Fellowship. Denis obtained his PhD from the University of Zurich and ETH Zurich in the laboratory of Prof. Bernd Bodenmiller. Denis is the lead developer of the histology topography cytometry analysis toolbox (histoCAT) and the multiple-choice microscopy pipeline (MCMICRO).
