CytoMAP: A Spatial Analysis Toolbox Reveals Features of Myeloid Cell Organization in Lymphoid Tissues
| Autor: | Michael Y. Gerner, Mario Perro, Caleb R. Stoltzfus, Thomas Pöschinger, Brandy E. Olin, Clarissa L. Paz-Stoltzfus, Courtney R. Plumlee, Joseph M. Leal, Yajun Wu, Jakub Filipek, Benjamin H. Gern, Jessica Y. Huang, Miranda R. Lyons-Cohen, Kevin B. Urdahl |
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| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
0301 basic medicine
Tissue architecture Myeloid Lymphoid Tissue Cell Computational biology Biology Mutually exclusive events Article General Biochemistry Genetics and Molecular Biology Mice 03 medical and health sciences 0302 clinical medicine medicine Animals Myeloid Cells Cluster analysis lcsh:QH301-705.5 Spatial Analysis Tumor microenvironment Innate immune system Toolbox 030104 developmental biology medicine.anatomical_structure lcsh:Biology (General) 030217 neurology & neurosurgery |
| Zdroj: | Cell Reports, Vol 31, Iss 3, Pp-(2020) Cell reports |
| ISSN: | 2211-1247 |
| Popis: | SUMMARY 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 SIRPa dermal DCs, and preferential association of resident DCs with select LN vasculature. The findings provide insights into the organization of myeloid cells in LNs and demonstrate that CytoMAP is a comprehensive analytics toolbox for revealing features of tissue organization in imaging datasets. In Brief Stoltzfus et al. present CytoMAP, a spatial analytics platform that incorporates diverse statistical and visualization modules for analysis of cellular positioning, cell-cell interactions, global tissue structure, and heterogeneity of tissue microenvironments. Exploration of myeloid cell localization in lymph nodes reveals fundamental positional relationships between dendritic cell subsets and local vasculature. Graphical Abstract |
| Databáze: | OpenAIRE |
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