Eunice Lee is a fourth-year undergraduate student at Duke University, pursuing a major in statistical science (data science concentration) and minors in chemistry and computational biology & bioinformatics. Her research focuses on creating computational frameworks bridging single-cell and spatial omics to model and visualize cell-cell communication, with the goal of advancing biological discovery in tumor microenvironments and disease progression.
InterSCellar: Surface-Based Cell Neighborhood and Interaction Volume Analysis in 3D Spatial Omics
November 18, 2025
Virtual
We present InterSCellar, a Python package for surface-based cell-cell interaction analysis in 3D spatially resolved omics images. Taking cell segmentation masks and raw expression profiles as input, InterSCellar (1) constructs cell-neighborhood graphs based on surface-based detection of adjacent cell pairs and (2) computes interaction spaces between each neighbor as physical volumes. Quantitative and volumetric output results are utilized for downstream analysis to answer biological questions and can be interactively visualized.