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. 2017 Jan 4;45(D1):D663-D671.
doi: 10.1093/nar/gkw1016. Epub 2016 Oct 30.

FlyBase at 25: looking to the future

L Sian Gramates  1 , Steven J Marygold  2 , Gilberto Dos Santos  3 , Jose-Maria Urbano  2 , Giulia Antonazzo  2 , Beverley B Matthews  3 , Alix J Rey  2 , Christopher J Tabone  3 , Madeline A Crosby  3 , David B Emmert  3 , Kathleen Falls  3 , Joshua L Goodman  4 , Yanhui Hu  5 , Laura Ponting  2 , Andrew J Schroeder  3 , Victor B Strelets  4 , Jim Thurmond  4 , Pinglei Zhou  3 ; the FlyBase Consortium
Affiliations

FlyBase at 25: looking to the future

L Sian Gramates et al. Nucleic Acids Res. .

Abstract

Since 1992, FlyBase (flybase.org) has been an essential online resource for the Drosophila research community. Concentrating on the most extensively studied species, Drosophila melanogaster, FlyBase includes information on genes (molecular and genetic), transgenic constructs, phenotypes, genetic and physical interactions, and reagents such as stocks and cDNAs. Access to data is provided through a number of tools, reports, and bulk-data downloads. Looking to the future, FlyBase is expanding its focus to serve a broader scientific community. In this update, we describe new features, datasets, reagent collections, and data presentations that address this goal, including enhanced orthology data, Human Disease Model Reports, protein domain search and visualization, concise gene summaries, a portal for external resources, video tutorials and the FlyBase Community Advisory Group.

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Figures

Figure 1.
Figure 1.
(A) The Orthologs tab of the QuickSearch tool, located on the FlyBase homepage. The D. melanogaster gene ‘Blm’ has been entered as the search term, and several species within the DIOPT set have been selected as the output. (B) The results page of that query—see text for details.
Figure 2.
Figure 2.
Human Disease Model Report for Spinocerebellar Ataxia 1. General Information, Overview, Related Diseases. Inset: Ortholog Information.
Figure 3.
Figure 3.
Protein domain visualization in GBrowse. Screenshot of GBrowse in the region 3R:20 819 447..20 825 007. Annotated gene regions are shown in the ‘Gene Span’ track at the top as blue arrows, and transcript annotations are shown in the middle panel in the ‘Transcripts’ track (CDSs shown as orange blocks, UTRs shown as gray blocks and introns as thin lines). The ‘Protein domains (PFAM)’ track depicts the mapping of Pfam domain calls to the genome, with domains encoded by genes on the plus or minus strand shown as orange or red blocks, respectively. Many domain calls span multiple exons, in which case the different exonic portions of the domain call are linked by a thin line that bridges the exon junction. Mousing over a Pfam block brings up the domain name and genomic location in a pop-up window, while clicking on the Pfam block opens a report page at pfam.org.
Figure 4.
Figure 4.
Gene Snapshot for the gene wg.
Figure 5.
Figure 5.
International distribution of the FlyBase Community Advisory Group. Map created using https://mapchart.net/.
See this image and copyright information in PMC

References

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