European Society for Spatial Biology (ESSB)

European Society for Spatial Biology

Early bird deadline: 31 July 2024

Abstract deadline: 31 August 2024

Spatial Immunology

Chairs: Anja Hauser Sanja Vickovic

Friday, 13.12.2024, 08:30 am

Sanja Vicković

Keynote Speaker: Sanja Vickovic

New York Genome Center, Department of Biomedical Engineering and the Irving Center for Cancer Dynamics at Columbia University, Scilifelab Fellow at Uppsala University



Spatial and molecular characteristics determine tissue function, yet high-resolution methods to capture both concurrently are lacking. In recent years, we developed high-definition spatial transcriptomics and multi-omics technologies, which captures RNA, protein information or microbiota from histological tissue sections on spatially barcoded arrays. Using these approaches, we built a cellular and spatial atlas of the colon across three anatomical regions and 11 age groups, encompassing ~1,500 mouse gut tissues profiled by spatial transcriptomics and ~400,000 single nucleus RNA-seq profiles. We developed a new computational framework, cSplotch, which learns a hierarchical Bayesian model of spatially resolved cellular expression associated with age, tissue region, and sex, by leveraging histological features to share information across tissue samples and data modalities. Using this model, we identified cellular and molecular gradients along the adult colonic tract and across the main crypt axis, and multicellular programs associated with aging in the large intestine. Our multi-modal framework for the investigation of cell and tissue organization can aid in the understanding of cellular roles in tissue-level pathology.



Sanja Vicković, PhD, is a Core Faculty Member and Director, Technology Innovation Lab, at the New York Genome Center. She holds joint appointments as an Assistant Professor at the Fu Foundation School of Engineering and Applied Science and the Herbert and Florence Irving Institute for Cancer Dynamics at Columbia University, and as a Wallenberg Academy Fellow of the Royal Swedish Academy of Sciences and the Royal Swedish Academy of Engineering Sciences at Uppsala University.Dr. Vicković is an experienced and accomplished engineer and an inventor of the spatial transcriptomic technology called “Visium” and now commercialized by 10x Genomics. In addition to being a skilled technologist, Dr. Vicković also has training and experience in mathematics and biological sciences. Prior to joining the NYGC in 2022, Dr. Vicković had already collaborated with the NYGC, playing a crucial role in the first demonstration of the application of spatial transcriptomics to a disease model in collaboration with researchers at the NYGC’s Center for Genomics of Neurodegenerative Disease. Dr. Vicković joined the NYGC from the Broad Institute of MIT and Harvard, where she was a Wallenberg Fellow in Aviv Regev’s lab. She obtained her PhD in Gene Technology from the KTH Royal Institute of Technology, Stockholm.

Camilla Engblom

Karolinska Institutet, Stockholm, Sweden