3D-SpermFlagella: 3D+t human sperm flagellum centerline dataset

Summary The 3D-SpermFlagella dataset contains the three-dimensional (3D) coordinates of sperm flagellum centerlines over time (t), derived from the spatiotemporal (3D+t) image dataset 3D-SpermVid. It comprises 135 human sperm cells, each tracked for 1–3.5 seconds. The number of time points varies depending on the specific acquisition. The centerline coordinates for each cell are provided in both micrometers and voxels. Experimental conditions Cells were incubated under two experimental conditions: 49 under non-capacitating conditions (NCC) and 86 under capacitating conditions (CC). For each time point (i.e., each volumetric image), the flagellum centerline is represented as a sequence of 3D coordinates, resulting in a spatiotemporal reconstruction of flagellar motion. The image dataset was constructed using samples from 10 different donors. The 20210702 and 20210730 samples correspond to one donor, while the 20181026 and 20181030 samples correspond to another donor. All remaining samples come from different individual donors. Supplementary material Supplementary videos showing the 3D centerlines can be found at https://doi.org/10.5281/zenodo.18434653. Citation If you use this dataset in your work, kindly cite the following publication: Hernández-Herrera, P., Hernández, H.O., Bribiesca-Sanchez, A. et al. 3D+t human sperm flagellum centerline dataset. Sci Data (2026). https://doi.org/10.1038/s41597-026-06876-2