Abstract
SUMMARYRecently 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.
Highlights
Recent advances in intravital microscopy and multiplexed imaging approaches have revealed that the spatial organization of cell populations in tissues is highly complex and intimately involved in diverse physiological processes, as well as in major pathological conditions, such as infections, autoimmunity, and cancer
We apply cytometric multidimensional analysis pipeline (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 SIRPaÀ 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
Summary
Recent advances in intravital microscopy and multiplexed imaging approaches have revealed that the spatial organization of cell populations in tissues is highly complex and intimately involved in diverse physiological processes, as well as in major pathological conditions, such as infections, autoimmunity, and cancer. Advanced microscopy techniques have only recently revealed these findings in what were previously considered to be relatively well-studied organs, suggesting that further improvements in both microscopy and spatial analytics approaches can yield important insights into how complex biological systems operate This realization has inspired a number of emerging methods for highly multiplexed in situ cellular profiling (Eng et al, 2019; Gerner et al, 2012; Glaser et al, 2019; Gut et al, 2018; Li et al, 2019; Lin et al, 2015; Saka et al, 2019; Schu€rch et al, 2019; Vickovic et al, 2019; Winfree et al, 2017). The lack of readily accessible and easy-to-use analytics tools has hampered the ability of biologists with access to high-dimensional imaging technologies to
Sign-in/Register to view highlights & summary Sign-in/Register to access full text options 
Free) 
Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a call
