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Team: Image


Group Leader

Dr. Denis Schapiro is a Research 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 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 where he worked on Imaging Mass Cytometry and corresponding analysis tools focusing on highly multiplexed image analysis. Denis is the lead developer of the histology topography cytometry analysis toolbox (histoCAT) and the multiple choice microscopy pipeline (MCMICRO).

Prior to this, he received his diploma (Dipl. Biol. (t.o)) at the University of Stuttgart and Harvard Medical School working with Prof. Peter Sorger and Prof. Alfred Goldberg. He was also an intern at the Complex Systems Modeling Group at Bayer AG in Leverkusen focusing on PBPK modeling.

Team: TeamMember





Florian joined the lab as a Postdoc in January 2022 to work on spatial omics technologies in the context of cardiovascular diseases. He acquired his PhD from the University of Muenster working with the group of Dr. Gregor Aldenfinger at the CHU Ste Justine research center in Montreal, Canada, with a focus on the genetics of congenital heart diseases. He recently finished a Postdoc with Guillaume Lettre at the Montreal heart institute, where he studied the genetics of complex cardiovascular diseases. Florian has extensive experience in working with single-cell omics technologies, rare and complex human genetic diseases and bioinformatics data analysis.




Victor received his BSc in Physics at UNAM, Mexico and an MSc in biophysics at TU Dresden.  He did his PhD research in the group of Prof. Dr. Ernst H.K. Stelzer in Frankfurt  working on the topics of super-resolution fluorescence microscopy and image reconstruction.  He joined our lab after acquiring experience in industry at BASF where he developed several image analysis and image acquisition workflows to accelerate and standardize data extraction routines.  His aim in the group is to establish standard analysis pipelines to classify spatial landmarks in highly-multiplexed images of stained tumors.  Classification of these landmarks, which include cell-cell interactions and location/composition of cell niches, should lead to tumor profiling and the exploration of more efficient therapeutic approaches adapted to the spatial-omics profile of the tumor.



PhD candidate

Miguel received a BSc in Genomics at UNAM, Mexico, and an MSc in Life Science Informatics at University Bonn, Germany.  He has worked at the Center for Genomic Sciences (UNAM), Southeast Center for Integrative Metabolomics at (University of Florida), Fraunhofer Institute for Algorithms and Scientific Computing SCAI, and at the Institute for Genomics Statistics and Bioinformatics (University of Bonn). Miguel specialises in the development and optimisation of pipelines with clean computer code for data and image analysis. He is a curious person by nature, and passionate about technology and he believes modern biology requires a multitude of backgrounds and comprehensive cooperation among them to solve - the not so easy questions - that come our way. This is what motivated him to join the Schapiro lab for his Ph.D..



Master Student

Margot is currently a Molecular Biosciences masters student at the Heidelberg University with a focus on Systems Biology. She has a bachelor's degree in Biosciences from Heidelberg University which provides her with a strong background in biology as well as computational sciences.



Master Student

Kresimir is currently a masters student of Molecular Biosciences at Heidelberg University majoring in Systems biology. He obtained his BSc degree in Molecular biology in his hometown Zagreb, Croatia. Kresimir is interested in exploring new computational and mathematical approaches to answer biological questions.



Master Student

Chiara is a current masters student of Molecular Biosciences at Heidelberg University focusing on bioinformatics. She has a bachelor’s degree in Molecular Biomedicine from the University of Bonn, Germany. Her desire to further expand her biological knowledge and computational skills led her to join this interdisciplinary group.



Staff Scientist

Aroj received a BSc in Biotechnology at Kathmandu University, Nepal, and an Erasmus Mundus Joint Master’s Degree in MedicAl Imaging and Applications (MAIA). He has joined the Schapiro lab as a Staff Scientist under the AI-Health Innovation Cluster. Aroj has experience in working with Microscopy Image analysis using Computer Vision, Machine Learning, and Deep Learning. Because of his background in Biotech and Medical Imaging, he aspires to work in between AI and Biology, especially along the lines of Spatial omics and Imaging Genetics.

Team: Our Team



Internship - Alumni


Internship - Alumni


Visiting Researcher

Team: Our Team
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