title: DAPPER: a data-mining resource for protein-protein interactions.
abstract: BACKGROUND
  The identification of interaction networks between proteins and complexes holds the promise of offering novel insights into the molecular mechanisms that regulate many biological processes. With increasing volumes of such datasets, especially in model organisms such as Drosophila melanogaster, there exists a pressing need for specialised tools, which can seamlessly collect, integrate and analyse these data. Here we describe a database coupled with a mining tool for protein-protein interactions (DAPPER), developed as a rich resource for studying multi-protein complexes in Drosophila melanogaster.
  
  
  RESULTS
  This proteomics database is compiled through mass spectrometric analyses of many protein complexes affinity purified from Drosophila tissues and cultured cells. The web access to DAPPER is provided via an accelerated version of BioMart software enabling data-mining through customised querying and output formats. The protein-protein interaction dataset is annotated with FlyBase identifiers, and further linked to the Ensembl database using BioMart's data-federation model, thereby enabling complex multi-dataset queries. DAPPER is open source, with all its contents and source code are freely available.
  
  
  CONCLUSIONS
  DAPPER offers an easy-to-navigate and extensible platform for real-time integration of diverse resources containing new and existing protein-protein interaction datasets of Drosophila melanogaster.
authors.affiliation: Computer Laboratory, University of Cambridge, Cambridge, CB3 0FD UK.
authors.forename: Syed
authors.initials: S
authors.lastname: Haider
authors.affiliation: Department of Genetics, University of Cambridge, Downing Street, Cambridge, CB2 3EH UK.
authors.forename: Zoltan
authors.initials: Z
authors.lastname: Lipinszki
authors.affiliation: Department of Genetics, University of Cambridge, Downing Street, Cambridge, CB2 3EH UK.
authors.forename: Marcin R
authors.initials: MR
authors.lastname: Przewloka
authors.affiliation: Department of Genetics, University of Cambridge, Downing Street, Cambridge, CB2 3EH UK ; Oxford Centre for Integrative Systems Biology, Department of Biochemistry, University of Oxford, Oxford, OX1 3QU UK.
authors.forename: Yaseen
authors.initials: Y
authors.lastname: Ladak
authors.affiliation: Department of Pathology, University of Cambridge, Tennis Court Road, Cambridge, CB2 1QP UK.
authors.forename: Pier Paolo
authors.initials: PP
authors.lastname: D'Avino
authors.affiliation: Department of Genetics, University of Cambridge, Downing Street, Cambridge, CB2 3EH UK.
authors.forename: Yuu
authors.initials: Y
authors.lastname: Kimata
authors.affiliation: Computer Laboratory, University of Cambridge, Cambridge, CB3 0FD UK.
authors.forename: Pietro
authors.initials: P
authors.lastname: Lio'
authors.affiliation: Department of Genetics, University of Cambridge, Downing Street, Cambridge, CB2 3EH UK.
authors.forename: David M
authors.initials: DM
authors.lastname: Glover
keywords: Data-integration; Drosophila melanogaster; Mass spectrometry; Protein complexes; Protein-protein interactions; Proteomics data mining