Conceptualization: Loïc A. Royer, Merlin Lange, Angela Oliveira Pisco, Alejandro Granados
Methodology: Merlin Lange, Shruthi VijayKumar, Alejandro Granados, Yang-Joon Kim, Jordao Bragantini
Cell-type annotation: Merlin Lange, Shruthi VijayKumar, Xiang Zhao, Keir Balla, Adrian Jacobo, Rachel Banks, Tiger Lao, Angela Oliveira Pisco
Data Analysis: Alejandro Granados, Sarah Ancheta, Erin McGeever, Hirofumi Kobayashi, Sreejith Santhosh, Jordao Bragantini
Software: Hirofumi Kobayashi, Robert Haase, Ahmet Can Solak, Jordao Bragantini
Instruments: Bin Yang, Yang Liu, Rafael Gomez-Sjoberg, Merlin Lange
Data portal: Kyle Awayan, Samuel D’Souza, Loïc A. Royer
Experiments: Merlin Lange, Shruthi VijayKumar, Michael Borja
Sequencing: Sheryl Paul, Honey Mekonen, Angela Detweiler, Norma Neff
Data Curation: Merlin Lange, Alejandro Granados, Loïc A. Royer
3D Visualizations: Hirofumi Kobayashi, Kyle Awayan, Samuel D’Souza, Lachlan W. Whitehead, Alexandre Dizeux, Jordao Bragantini, Loïc A. Royer
Mentorship: Sandra Schmid, Joseph DeRisi
Supervision: Loïc A. Royer, Angela Oliveira Pisco, Norma Neff, Mattia Serra
Organization: Loïc A. Royer, Merlin Lange
Funding: Chan Zuckerberg Biohub
Thanks to the CZI Science Tech team for creating CZ CELLxGENE, the tool that makes the visualization of this research possible. Thanks to Jeremy Maitin-Shepard and Viren Jain for developping the neuroglancer online image viewer and helping with troubleshooting.
For the 3D rotating UMAPs on this website, we use the deck.gl library. The static renderings of 3D rotating UMAPs and other animations of 3D+t microscopy data were made using the napari viewer and in particular the napari animation plugin. We also used spimagine for some of the microscopy renderings. Some of the figures, and all images of zebrafish embryos and larvae on this website, were created with BioRender. Manual curation of cell tracks was done using mastodon. Some of the scRNAseq analysis was done using scanpy.
Finally, we thank the Chan Zuckerberg Biohub and its donors Priscilla Chan and Mark Zuckerberg for funding this work.