title: The HUPO PSI's molecular interaction format--a community standard for the representation of protein interaction data.
abstract: A major goal of proteomics is the complete description of the protein interaction network underlying cell physiology. A large number of small scale and, more recently, large-scale experiments have contributed to expanding our understanding of the nature of the interaction network. However, the necessary data integration across experiments is currently hampered by the fragmentation of publicly available protein interaction data, which exists in different formats in databases, on authors' websites or sometimes only in print publications. Here, we propose a community standard data model for the representation and exchange of protein interaction data. This data model has been jointly developed by members of the Proteomics Standards Initiative (PSI), a work group of the Human Proteome Organization (HUPO), and is supported by major protein interaction data providers, in particular the Biomolecular Interaction Network Database (BIND), Cellzome (Heidelberg, Germany), the Database of Interacting Proteins (DIP), Dana Farber Cancer Institute (Boston, MA, USA), the Human Protein Reference Database (HPRD), Hybrigenics (Paris, France), the European Bioinformatics Institute's (EMBL-EBI, Hinxton, UK) IntAct, the Molecular Interactions (MINT, Rome, Italy) database, the Protein-Protein Interaction Database (PPID, Edinburgh, UK) and the Search Tool for the Retrieval of Interacting Genes/Proteins (STRING, EMBL, Heidelberg, Germany).
authors.affiliation: European Bioinformatics Institute, EBI-Hinxton, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK. hhe@ebi.ac.uk
authors.forename: Henning
authors.initials: H
authors.lastname: Hermjakob
authors.forename: Luisa
authors.initials: L
authors.lastname: Montecchi-Palazzi
authors.forename: Gary
authors.initials: G
authors.lastname: Bader
authors.forename: Jérôme
authors.initials: J
authors.lastname: Wojcik
authors.forename: Lukasz
authors.initials: L
authors.lastname: Salwinski
authors.forename: Arnaud
authors.initials: A
authors.lastname: Ceol
authors.forename: Susan
authors.initials: S
authors.lastname: Moore
authors.forename: Sandra
authors.initials: S
authors.lastname: Orchard
authors.forename: Ugis
authors.initials: U
authors.lastname: Sarkans
authors.forename: Christian
authors.initials: C
authors.lastname: von Mering
authors.forename: Bernd
authors.initials: B
authors.lastname: Roechert
authors.forename: Sylvain
authors.initials: S
authors.lastname: Poux
authors.forename: Eva
authors.initials: E
authors.lastname: Jung
authors.forename: Henning
authors.initials: H
authors.lastname: Mersch
authors.forename: Paul
authors.initials: P
authors.lastname: Kersey
authors.forename: Michael
authors.initials: M
authors.lastname: Lappe
authors.forename: Yixue
authors.initials: Y
authors.lastname: Li
authors.forename: Rong
authors.initials: R
authors.lastname: Zeng
authors.forename: Debashis
authors.initials: D
authors.lastname: Rana
authors.forename: Macha
authors.initials: M
authors.lastname: Nikolski
authors.forename: Holger
authors.initials: H
authors.lastname: Husi
authors.forename: Christine
authors.initials: C
authors.lastname: Brun
authors.forename: K
authors.initials: K
authors.lastname: Shanker
authors.forename: Seth G N
authors.initials: SG
authors.lastname: Grant
authors.forename: Chris
authors.initials: C
authors.lastname: Sander
authors.forename: Peer
authors.initials: P
authors.lastname: Bork
authors.forename: Weimin
authors.initials: W
authors.lastname: Zhu
authors.forename: Akhilesh
authors.initials: A
authors.lastname: Pandey
authors.forename: Alvis
authors.initials: A
authors.lastname: Brazma
authors.forename: Bernard
authors.initials: B
authors.lastname: Jacq
authors.forename: Marc
authors.initials: M
authors.lastname: Vidal
authors.forename: David
authors.initials: D
authors.lastname: Sherman
authors.forename: Pierre
authors.initials: P
authors.lastname: Legrain
authors.forename: Gianni
authors.initials: G
authors.lastname: Cesareni
authors.forename: Ioannis
authors.initials: I
authors.lastname: Xenarios
authors.forename: David
authors.initials: D
authors.lastname: Eisenberg
authors.forename: Boris
authors.initials: B
authors.lastname: Steipe
authors.forename: Chris
authors.initials: C
authors.lastname: Hogue
authors.forename: Rolf
authors.initials: R
authors.lastname: Apweiler
mesh_terms: D003628:Database Management Systems / Q000592:standards*; D030562:Databases, Protein / Q000592:standards*; D017408:Guidelines as Topic; D016247:Information Storage and Retrieval / Q000379:methods / Q000592:standards*; D038622:Internationality; D009323:Natural Language Processing; D011485:Protein Binding; D025941:Protein Interaction Mapping / Q000379:methods / Q000592:standards*; D011506:Proteins / Q000737:chemistry / Q000145:classification* / Q000235:genetics / Q000378:metabolism; D040901:Proteomics / Q000379:methods / Q000592:standards*; D012015:Reference Standards; D012984:Software; D014584:User-Computer Interface
chemical_list: D011506:Proteins