Multimodal Atlas of Zebrafish Development

Zebrahub is a comprehensive atlas of zebrafish embryonic development that combines single-cell RNA sequencing and live light-sheet imaging. Its aim is to provide a complete cartography of cellular lineages in space, time, and molecular domains, an essential step toward understanding how organisms develop.

Our ultimate goal is to create a high-quality multimodal foundational resource of vertebrate development and make it broadly available to the scientific community.

You can find a list of all papers relevant to the Zebrahub resource here.

The atlas includes a high-resolution, single-embryo scRNAseq timecourse dataset covering 10 developmental stages from 10 hours post-fertilization to 10-day-old larvae, as well as image-based lineage reconstructions obtained from high-resolution light-sheet microscopy.

We welcome collaborative interactions on the project analyses, so please contact us.

Zebrahub also provides open source instrument designs, software tools, and experimental protocols to help accelerate the adoption of these technologies and facilitate comprehension of vertebrate development.

The Royer Group leads this work in collaboration with CZ Biohub San Francisco's Platforms for Computational Biology, Genomics, and Bioengineering.

Check here to see the whole team!