PRBB-CRG Sessions Ben Raphael

13/09/202412:00MARIE CURIEPRBB-CRG SessionsBen RaphaelPrinceton University"Quantifying tissue organization in space and time"Host: Donate WeghornAbstract:Tissues contain multiple cell types whose spatial arrangement facilitates specific biological functions. Recent spatial transcriptomics technologies measure RNA expression at thousands of locations in a 2D tissue slice quantifying the spatial distribution of cell types and spatial variation in gene expression. Due to limitations in technology and cost, these measurements are typically sparse with high rates of missing data. I will present algorithms that overcome these technical limitations by modeling the latent geometry of individual tissue slices and by integrating measurements from multiple slices. We use these algorithms to analyze variation of cell types and gene expression in normal tissues; derive gene expression gradients in the tumor microenvironment; reconstruct 3D tissues; and describe spatiotemporal changes in expression during development.