An in vivo microscopy dataset of immune cells for the characterization of apoptotic cell death

Apoptotic cell death is pivotal for multiple biological processes including tissue homeostasis, embryological development, and host defense. Recent advancements in intravital microscopy have enabled the study of apoptosis in vivo under a variety of experimental conditions, such as infection and cancer. However, the limited throughput of this technology, together with a lack of openly accessible datasets, circumscribes the extent of cell death research in vivo. This problem affects the development of algorithms for the automatic detection and characterization of apoptosis, which requires the integration of extensive and curated datasets. To address these needs, we present a dataset of apoptotic immune cells carefully selected to advance the field of apoptosis classification and detection. This dataset includes apoptotic events of immune cells, such as neutrophils, eosinophils, and dendritic cells, acquired within the spleen and lymph node of mice under inflammatory conditions. Moreover, ..., , , # An *in vivo* microscopy dataset of immune cells for the characterization of apoptotic cell death

[https://doi.org/10.5061/dryad.w9ghx3fxk](https://doi.org/10.5061/dryad.w9ghx3fxk)

The presented dataset contains 4D time-lapses (x, y, z, t, c) of leukocytes undergoing apoptosis in vivo. The movies have been generated using two-photon intravital microscopy (2P-IVM), and they capture dendritic cells, eosinophils, and neutrophils either in the spleen or popliteal lymph node of anesthetized mice.

## Description of the data and file structure

The videos included in the dataset consist of unprocessed raw microscopy footage, each one comprehensive of a unique identifier (ID) and essential metadata information. The videos contain multiple channels and span five dimensions: spatial coordinates (x, y, z), time (t), and multiple channels (c). Raw videos are available in HDF5 format (Imaris) and divided according to the cell type in three different folders:

* Dendritics_movies
* Eosinophi...