Publications by authors named "Ilan Theodoro"
Elucidating organismal developmental processes requires a comprehensive understanding of cellular lineages in the spatial, temporal, and molecular domains. In this study, we introduce Zebrahub, a dynamic atlas of zebrafish embryonic development that integrates single-cell sequencing time course data with lineage reconstructions facilitated by light-sheet microscopy. This atlas offers high-resolution and in-depth molecular insights into zebrafish development, achieved through the sequencing of individual embryos across ten developmental stages, complemented by reconstructions of cellular trajectories.
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- Tracking live cells in various imaging scenarios is essential for studying biological processes, but it’s challenging in complex tissues due to ambiguous segmentation.
- Ultrack is a new cell-tracking method that integrates multiple segmentation algorithms and uses temporal consistency to improve tracking accuracy, especially in crowded environments.
- The method has been tested on large datasets from different organisms and outperforms existing techniques, and it's available as a free Python package with plugins for easy use in research settings.