FlyBase

Department of Genetics, University of Cambridge, Downing Street, Cambridge, CB2 3EH, UK; The Biological Laboratories, Harvard University, 16 Divinity Avenue, Cambridge, MA 02138, USA; Department of Biology, Indiana University, Bloomington, IN 47405, USA

FlyBase is supported by a grant from the National Human Genome Research Institute at the U.S. National Institutes of Health U41HG000739. Support is also provided by the British Medical Research Council, the Indiana Genomics Initiative, and the National Science Foundation through XSEDE resources provided by Indiana University.

• (Attrill et al., 2015) FlyBase: establishing a Gene Group resource for Drosophila melanogaster. Nucleic acids research.
  PMID: 26467478
• (Crosby et al., 2015) Gene Model Annotations for Drosophila melanogaster: The Rule-Benders. G3.
  DOI: 10.1534/g3.115.018937
• (Matthews et al., 2015) Gene Model Annotations for Drosophila melanogaster: Impact of High-Throughput Data. G3.
  DOI: 10.1534/g3.115.018929
• (Gene Ontology, 2015) Gene Ontology Consortium: going forward. Nucleic acids research.
  PMID: 25428369
• (dos Santos et al., 2015) FlyBase: introduction of the Drosophila melanogaster Release 6 reference genome assembly and large-scale migration of genome annotations. Nucleic acids research.
  PMID: 25398896
• (Mao et al., 2014) Overview of the gene ontology task at BioCreative IV. Database.
  PMID: 25157073
• (Van Auken et al., 2014) BC4GO: a full-text corpus for the BioCreative IV GO task. Database.
  PMID: 25070993
• (Alam-Faruque et al., 2014) Representing kidney development using the gene ontology. PloS one.
  PMID: 24941002
• (Cejuela et al., 2014) tagtog: interactive and text-mining-assisted annotation of gene mentions in PLOS full-text articles. Database.
  PMID: 24715220
• (St Pierre et al., 2014) FlyBase 102--advanced approaches to interrogating FlyBase. Nucleic acids research.
  PMID: 24234449
• (Costa et al., 2013) The Drosophila anatomy ontology. Journal of biomedical semantics.
  PMID: 24139062
• (Osumi-Sutherland et al., 2013) The Drosophila phenotype ontology. Journal of biomedical semantics.
  PMID: 24138933
• (Vasilevsky et al., 2013) On the reproducibility of science: unique identification of research resources in the biomedical literature. PeerJ.
  PMID: 24032093
• (Hoehndorf et al., 2013) Systematic analysis of experimental phenotype data reveals gene functions. PloS one.
  PMID: 23626672
• (Gene Ontology et al., 2013) Gene Ontology annotations and resources. Nucleic acids research.
  PMID: 23161678
• (Marygold et al., 2013) FlyBase: improvements to the bibliography. Nucleic acids research.
  PMID: 23125371
• (McQuilton and FlyBase, 2012) Opportunities for text mining in the FlyBase genetic literature curation workflow. Database.
  PMID: 23160412
• (Bunt et al., 2012) Directly e-mailing authors of newly published papers encourages community curation. Database.
  PMID: 22554788
• (Fang et al., 2012) Automatic categorization of diverse experimental information in the bioscience literature. BMC bioinformatics.
  PMID: 22280404
• (McQuilton et al., 2012) FlyBase 101--the basics of navigating FlyBase. Nucleic acids research.
  PMID: 22127867
• (Gene Ontology, 2012) The Gene Ontology: enhancements for 2011. Nucleic acids research.
  PMID: 22102568
• (Rangarajan et al., 2011) Toward an interactive article: integrating journals and biological databases. BMC bioinformatics.
  PMID: 21595960
• (Khodiyar et al., 2011) The representation of heart development in the gene ontology. Developmental biology.
  PMID: 21419760
• (Daines et al., 2011) The Drosophila melanogaster transcriptome by paired-end RNA sequencing. Genome research.
  PMID: 21177959
• (Gene Ontology, 2010) The Gene Ontology in 2010: extensions and refinements. Nucleic acids research.
  PMID: 19920128
• (Pfreundt et al., 2010) FlyTF: improved annotation and enhanced functionality of the Drosophila transcription factor database. Nucleic acids research.
  PMID: 19884132
• (Reference Genome Group of the Gene Ontology, 2009) The Gene Ontology's Reference Genome Project: a unified framework for functional annotation across species. PLoS computational biology.
  PMID: 19578431
• (Loevenich et al., 2009) The Drosophila melanogaster PeptideAtlas facilitates the use of peptide data for improved fly proteomics and genome annotation. BMC bioinformatics.
  PMID: 19210778
• (St Pierre and McQuilton, 2009) Inside FlyBase: biocuration as a career. Fly.
  PMID: 19182544
• (Tweedie et al., 2009) FlyBase: enhancing Drosophila Gene Ontology annotations. Nucleic acids research.
  PMID: 18948289
• (Howe et al., 2008) Big data: The future of biocuration. Nature.
  PMID: 18769432
• (Drysdale and FlyBase, 2008) FlyBase : a database for the Drosophila research community. Methods in molecular biology.
  PMID: 18641940
• (Karamanis et al., 2008) Natural language processing in aid of FlyBase curators. BMC bioinformatics.
  PMID: 18410678
• (Wilson et al., 2008) FlyBase: integration and improvements to query tools. Nucleic acids research.
  PMID: 18160408
• (Stark et al., 2007) Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures. Nature.
  PMID: 17994088
• (Drosophila 12 Genomes et al., 2007) Evolution of genes and genomes on the Drosophila phylogeny. Nature.
  PMID: 17994087
• (Karamanis et al., 2007) Integrating natural language processing with FlyBase curation. Pacific Symposium on Biocomputing.
  PMID: 17990496
• (Lin et al., 2007) Revisiting the protein-coding gene catalog of Drosophila melanogaster using 12 fly genomes. Genome research.
  PMID: 17989253
• (Mungall et al., 2007) A Chado case study: an ontology-based modular schema for representing genome-associated biological information. Bioinformatics.
  PMID: 17646315
• (Crosby et al., 2007) FlyBase: genomes by the dozen. Nucleic acids research.
  PMID: 17099233
• (Zhou et al., 2006) Using Chado to store genome annotation data. Current protocols in bioinformatics.
  PMID: 18428772
• (Grumbling and Strelets, 2006) FlyBase: anatomical data, images and queries. Nucleic acids research.
  PMID: 16381917
• (Richards et al., 2005) Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution. Genome research.
  PMID: 15632085
• (Drysdale et al., 2005) FlyBase: genes and gene models. Nucleic acids research.
  PMID: 15608223
• (Drysdale, 2003) The Drosophila melanogaster genome sequencing and annotation projects: a status report. Briefings in functional genomics & proteomics.
  PMID: 15239934
• (FlyBase, 2003) The FlyBase database of the Drosophila genome projects and community literature. Nucleic acids research.
  PMID: 12519974
• (Misra et al., 2002) Annotation of the Drosophila melanogaster euchromatic genome: a systematic review. Genome biology.
  PMID: 12537572
• (Lewis et al., 2002) Apollo: a sequence annotation editor. Genome biology.
  PMID: 12537571
• (Mungall et al., 2002) An integrated computational pipeline and database to support whole-genome sequence annotation. Genome biology.
  PMID: 12537570
• (FlyBase, 2002) The FlyBase database of the Drosophila genome projects and community literature. Nucleic acids research.
  PMID: 11752267
• (Drysdale, 2001) Phenotypic data in FlyBase. Briefings in bioinformatics.
  PMID: 11465064
• (FlyBase, 1999) The FlyBase database of the Drosophila Genome Projects and community literature. Nucleic acids research.
  PMID: 9847148
• (FlyBase, 1998) FlyBase: a Drosophila database. Nucleic acids research.
  PMID: 9399806
• (Gelbart et al., 1997) FlyBase: a Drosophila database. The FlyBase consortium. Nucleic acids research.
  PMID: 9045212
• (Flybase, 1996) FlyBase: the Drosophila database. Nucleic acids research.
  PMID: 8594600
• (Bellen and Smith, 1995) FlyBase: a virtual Drosophila cornucopia. Trends in genetics.
  PMID: 8578603
• (1994) FlyBase--the Drosophila database. The FlyBase Consortium. Nucleic acids research.
  PMID: 7937045
• (Ashburner and Drysdale, 1994) FlyBase--the Drosophila genetic database. Development.
  PMID: 7925011

• Animals
  • Drosophila melanogaster