Jordão Bragantini

Single-cell transcriptional dynamics in a living vertebrate

This study measures single-cell transcriptional dynamics in zebrafish embryos using MS2-MCP labeling and light sheet microscopy, revealing discrete transcriptional bursts in the segmentation clock.

inTRACKtive - A Web-Based Tool for Interactive Cell Tracking Visualization

inTRACKtive provides a web-based tool for interactive visualization and sharing of large 3D cell tracking datasets without requiring software installation or data downloads.

Ultrack: pushing the limits of cell tracking across biological scales

Ultrack improves cell tracking across 2D, 3D, and multi-channel time-lapse recordings by integrating multiple segmentations and temporal consistency, achieving state-of-the-art performance on benchmark datasets.

OME-Zarr: a cloud-optimized bioimaging file format with international community support

This paper describes OME-Zarr, a cloud-optimized bioimaging file format developed through community collaboration to improve scalability and data access.

Zebrahub - Multimodal Zebrafish Developmental Atlas Reveals the State Transition Dynamics of Late Vertebrate Pluripotent Axial Progenitors

Zebrafish embryos sequenced individually across ten developmental stages, paired with light-sheet lineage reconstruction, form an atlas and browser for in silico fate mapping.

High-Resolution, Large Imaging Volume, and Multi-View Single Objective Light-Sheet Microscopy

This paper introduces a novel single objective light-sheet microscope that achieves high resolution, large field of view, and multi-view imaging for various biological systems.