title: A community standard format for the representation of protein affinity reagents.
abstract: Protein affinity reagents (PARs), most commonly antibodies, are essential reagents for protein characterization in basic research, biotechnology, and diagnostics as well as the fastest growing class of therapeutics. Large numbers of PARs are available commercially; however, their quality is often uncertain. In addition, currently available PARs cover only a fraction of the human proteome, and their cost is prohibitive for proteome scale applications. This situation has triggered several initiatives involving large scale generation and validation of antibodies, for example the Swedish Human Protein Atlas and the German Antibody Factory. Antibodies targeting specific subproteomes are being pursued by members of Human Proteome Organisation (plasma and liver proteome projects) and the United States National Cancer Institute (cancer-associated antigens). ProteomeBinders, a European consortium, aims to set up a resource of consistently quality-controlled protein-binding reagents for the whole human proteome. An ultimate PAR database resource would allow consumers to visit one on-line warehouse and find all available affinity reagents from different providers together with documentation that facilitates easy comparison of their cost and quality. However, in contrast to, for example, nucleotide databases among which data are synchronized between the major data providers, current PAR producers, quality control centers, and commercial companies all use incompatible formats, hindering data exchange. Here we propose Proteomics Standards Initiative (PSI)-PAR as a global community standard format for the representation and exchange of protein affinity reagent data. The PSI-PAR format is maintained by the Human Proteome Organisation PSI and was developed within the context of ProteomeBinders by building on a mature proteomics standard format, PSI-molecular interaction, which is a widely accepted and established community standard for molecular interaction data. Further information and documentation are available on the PSI-PAR web site.
authors.affiliation: European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom. par@psidev.info
authors.forename: David E
authors.initials: DE
authors.lastname: Gloriam
authors.forename: Sandra
authors.initials: S
authors.lastname: Orchard
authors.forename: Daniela
authors.initials: D
authors.lastname: Bertinetti
authors.forename: Erik
authors.initials: E
authors.lastname: Björling
authors.forename: Erik
authors.initials: E
authors.lastname: Bongcam-Rudloff
authors.forename: Carl A K
authors.initials: CA
authors.lastname: Borrebaeck
authors.forename: Julie
authors.initials: J
authors.lastname: Bourbeillon
authors.forename: Andrew R M
authors.initials: AR
authors.lastname: Bradbury
authors.forename: Antoine
authors.initials: A
authors.lastname: de Daruvar
authors.forename: Stefan
authors.initials: S
authors.lastname: Dübel
authors.forename: Ronald
authors.initials: R
authors.lastname: Frank
authors.forename: Toby J
authors.initials: TJ
authors.lastname: Gibson
authors.forename: Larry
authors.initials: L
authors.lastname: Gold
authors.forename: Niall
authors.initials: N
authors.lastname: Haslam
authors.forename: Friedrich W
authors.initials: FW
authors.lastname: Herberg
authors.forename: Tara
authors.initials: T
authors.lastname: Hiltke
authors.forename: Jörg D
authors.initials: JD
authors.lastname: Hoheisel
authors.forename: Samuel
authors.initials: S
authors.lastname: Kerrien
authors.forename: Manfred
authors.initials: M
authors.lastname: Koegl
authors.forename: Zoltán
authors.initials: Z
authors.lastname: Konthur
authors.forename: Bernhard
authors.initials: B
authors.lastname: Korn
authors.forename: Ulf
authors.initials: U
authors.lastname: Landegren
authors.forename: Luisa
authors.initials: L
authors.lastname: Montecchi-Palazzi
authors.forename: Sandrine
authors.initials: S
authors.lastname: Palcy
authors.forename: Henry
authors.initials: H
authors.lastname: Rodriguez
authors.forename: Sonja
authors.initials: S
authors.lastname: Schweinsberg
authors.forename: Volker
authors.initials: V
authors.lastname: Sievert
authors.forename: Oda
authors.initials: O
authors.lastname: Stoevesandt
authors.forename: Michael J
authors.initials: MJ
authors.lastname: Taussig
authors.forename: Marius
authors.initials: M
authors.lastname: Ueffing
authors.forename: Mathias
authors.initials: M
authors.lastname: Uhlén
authors.forename: Silvère
authors.initials: S
authors.lastname: van der Maarel
authors.forename: Christer
authors.initials: C
authors.lastname: Wingren
authors.forename: Peter
authors.initials: P
authors.lastname: Woollard
authors.forename: David J
authors.initials: DJ
authors.lastname: Sherman
authors.forename: Henning
authors.initials: H
authors.lastname: Hermjakob
mesh_terms: D003628:Database Management Systems / Q000592:standards; D030562:Databases, Protein / Q000592:standards*; D006801:Humans; D007391:International Cooperation; D020543:Proteome / Q000032:analysis*; D040901:Proteomics / Q000379:methods; D009626:Terminology as Topic
chemical_list: D020543:Proteome
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