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CytoMAP: A Spatial Analysis Toolbox Reveals Features of Myeloid Cell Organization in Lymphoid Tissues

2020; Cell Press; Volume: 31; Issue: 3 Linguagem: Inglês

10.1016/j.celrep.2020.107523

2639-1856

Caleb Stoltzfus, Jakub Filipek, Benjamin H. Gern, Brandy Olin, Joseph M. Leal, Yajun Wu, Miranda R. Lyons‐Cohen, Jessica Huang, Clarissa L. Paz-Stoltzfus, Courtney R. Plumlee, Thomas Pöschinger, Kevin B. Urdahl, Mario Perro, Michael Y. Gerner,

Cell Image Analysis Techniques

Recently developed approaches for highly multiplexed imaging have revealed complex patterns of cellular positioning and cell-cell interactions with important roles in both cellular- and tissue-level physiology. However, tools to quantitatively study cellular patterning and tissue architecture are currently lacking. Here, we develop a spatial analysis toolbox, the histo-cytometric multidimensional analysis pipeline (CytoMAP), which incorporates data clustering, positional correlation, dimensionality reduction, and 2D/3D region reconstruction to identify localized cellular networks and reveal features of tissue organization. We apply CytoMAP to study the microanatomy of innate immune subsets in murine lymph nodes (LNs) and reveal mutually exclusive segregation of migratory dendritic cells (DCs), regionalized compartmentalization of SIRPα