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bioRxiv · 10.1101/2023.10.28.564355

Modulation of NK cell migration by IL-15 defined using a new tool for data-driven clustering of heterogeneous cell behaviour trajectories

Shannon, M. J.·Eisman, S. E.·Lowe, A. R.·Sloan, T.·Mace, E. M.
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Abstract

Advances in imaging, cell segmentation, and cell tracking now routinely produce microscopy datasets of a size and complexity comparable to transcriptomics or proteomics. New tools are required to process this phenomics type data. Cell PLasticity Analysis TOol (cellPLATO) is a Python-based analysis software designed for measurement and classification of diverse cell behaviours based on clustering of parameters of cell morphology and motility. cellPLATO is used after segmentation and tracking of cells from live cell microscopy data. The tool extracts morphological and motility metrics from each cell per timepoint, before being using them to segregate cells into behavioural subtypes with dimensionality reduction. Resultant cell tracks have a behavioural ID for each cell per timepoint corresponding to their changing behaviour over time in a sequence. Similarity analysis allows the grouping of behavioural sequences into discrete trajectories with assigned IDs. Trajectories and underlying behaviours generate a phenotypic finger-print for each experimental condition, and representative cells are mathematically identified and graphically displayed for human understanding of each subtype. Here, we use cellPLATO to investigate the role of IL-15 in modulating NK cell migration on ICAM-1 or VCAM-1. We find 8 behavioural subsets of NK cells based on their shape and migration dynamics, and 4 trajectories of behaviour. Therefore, using cellPLATO we show that IL-15 increases plasticity between cell migration behaviours and that different integrin ligands induce different forms of NK cell migration.

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Shannon, M. J., Eisman, S. E., Lowe, A. R., Sloan, T., Mace, E. M.. 2023-10-29. Modulation of NK cell migration by IL-15 defined using a new tool for data-driven clustering of heterogeneous cell behaviour trajectories. https://doi.org/10.1101/2023.10.28.564355

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