The Drosophila DNase I Footprint Database was reported in Bergman, Carlson and Celniker (2005) Bioinformatics 21:1747-1749 and provided access to results of the systematic curation and genome annotation of 1,365 DNase I footprints for the fruitfly D. melanogaster reported. These data were extracted from 201 primary references and provided a non-redundant set of high quality binding site information for 87 transcription factors and 101 target genes in one of the most important model systems. Unlike previous work, this dataset was generated from a single experimental data type, represented all available developmental stages (including anterior-posterior, mesoderm and imaginal disk patterning), and was linked explicitly to finished genome sequence coordinates. This dataset provided a useful resource for computational analyses of transcription factor binding site biology in the genus Drosophila.
In 2007, the Drosophila DNAse I footprint database was fully merged with the REDfly database to provide a one-stop portal for cis-regulatory data in Drosophila. REDfly aims to provide a single integrated database containing extensive annotation of empirically validated cis-regulatory modules and their constituent binding sites in Drosophila that serves as a powerful resource for both computational and experimental studies of transcriptional regulation. The FlyReg website remained as a static legacy resource until 2021, when it was retired because of the burden of maintaining this legacy web resource. For the most up-to-date cis-regulatory annotations and genome mappings of cis-regulatory sequences in Drosophila, please visit at REDfly at http://redfly.ccr.buffalo.edu.
