title: FlyOde - a platform for community curation and interactive visualization of dynamic gene regulatory networks in Drosophila eye development.
abstract: BACKGROUND
  Understanding the regulatory mechanisms governing eye development of the model organism Drosophila melanogaster (D. m.) requires structured knowledge of the involved genes and proteins, their interactions, and dynamic expression patterns. Especially the latter information is however to a large extent scattered throughout the literature.
  
  
  RESULTS
  FlyOde is an online platform for the systematic assembly of data on D. m. eye development. It consists of data on eye development obtained from the literature, and a web interface for users to interactively display these data as a gene regulatory network. Our manual curation process provides high standard structured data, following a specifically designed ontology. Visualization of gene interactions provides an overview of network topology, and filtering according to user-defined expression patterns makes it a versatile tool for daily tasks, as demonstrated by usage examples. Users are encouraged to submit additional data via a simple online form.
authors.affiliation: Department of Molecular Biology and Genetics, Bogazici University, Istanbul, 34342, Turkey.
authors.forename: Stefan A
authors.initials: SA
authors.lastname: Koestler
authors.affiliation: Department of Chemical Engineering, Bogazici University, Istanbul, 34342, Turkey.
authors.forename: Begum
authors.initials: B
authors.lastname: Alaybeyoglu
authors.affiliation: Center for Biomedicine, European Academy of Bozen/Bolzano (EURAC), (Affiliated to the University of Lübeck, Lübeck, Germany), Bozen/Bolzano, 39100, Italy.
authors.forename: Christian X
authors.initials: CX
authors.lastname: Weichenberger
authors.affiliation: Department of Molecular Biology and Genetics, Bogazici University, Istanbul, 34342, Turkey.|Life Sciences Center, Bogazici University, Istanbul, 34342, Turkey.
authors.forename: Arzu
authors.initials: A
authors.lastname: Celik
keywords: Drosophila development; community annotation; database; gene regulatory network; ontology; protein interaction network; visualization; web-tool