DANIO-CODE: consortium for the functional annotation of the zebrafish (Danio rerio) genome

DANIO-CODE is an international effort to annotate the functional elements of the zebrafish genome.

Published and unpublished genomics data of 39 labs were annotated to GRCz10 and GRCz11 and reanalyzed by standardised pipelines to create a track hub. The public track hub is gradually expanded from the data held in this DANIO-CODE data coordination center. Its current database contains over 1300 genome-wide datasets generated by 17 assay types (e.g. ChIP-seq, RNA-seq, ATAC-seq, CAGE-seq etc.) from 38 stages of development. All stages are named according to ZFIN recommendations. Tracks include stage name and short name of contributing laboratory.

You can find further information on methods, data source and analysis pipelines and contributors in this Data Coordination Center.

Organisation, curation and creation of the track hub and DCC

Damir Baranasic, Abdul Kadir Murrakam, Matthias Hörtenhuber, Marcus Stoiber, Irene Stevens, Michaël Dong, Ben James Brown

Additional data processing

Samuel Ross, Rafael Dominguez Acemel, Benjamín Hernández-Rodríguez, Piotr Balwierz

Contributing previously unpublished data

Ada Jimenez Gonzalez, Yavor Hadzhiev, Joseph Wragg, Silvia Naranjo, Fiona Wardle, Ozren Bogdanovic, Cecilia Winata, Sinnakaruppan Mathavan, Antonio Giraldez, Daria Onichtchouk, Juanma Vaquerizas, Jose Luis Gómez Skarmeta

Server Infrastructure

Ryan Martin, Monte Westerfield

Corresponding authors

Carsten Daub, Boris Lenhard, Ferenc Müller