title: The Negatome database: a reference set of non-interacting protein pairs.
abstract: The Negatome is a collection of protein and domain pairs that are unlikely to be engaged in direct physical interactions. The database currently contains experimentally supported non-interacting protein pairs derived from two distinct sources: by manual curation of literature and by analyzing protein complexes with known 3D structure. More stringent lists of non-interacting pairs were derived from these two datasets by excluding interactions detected by high-throughput approaches. Additionally, non-interacting protein domains have been derived from the stringent manual and structural data, respectively. The Negatome is much less biased toward functionally dissimilar proteins than the negative data derived by randomly selecting proteins from different cellular locations. It can be used to evaluate protein and domain interactions from new experiments and improve the training of interaction prediction algorithms. The Negatome database is available at http://mips.helmholtz-muenchen.de/proj/ppi/negatome.
authors.affiliation: Institute for Bioinformatics and Systems Biology/MIPS, HMGU-German Research Center for Environmental Health Ingolstaedter Landstrasse 1, 85764 Neuherberg, Germany.
authors.forename: Pawel
authors.initials: P
authors.lastname: Smialowski
authors.forename: Philipp
authors.initials: P
authors.lastname: Pagel
authors.forename: Philip
authors.initials: P
authors.lastname: Wong
authors.forename: Barbara
authors.initials: B
authors.lastname: Brauner
authors.forename: Irmtraud
authors.initials: I
authors.lastname: Dunger
authors.forename: Gisela
authors.initials: G
authors.lastname: Fobo
authors.forename: Goar
authors.initials: G
authors.lastname: Frishman
authors.forename: Corinna
authors.initials: C
authors.lastname: Montrone
authors.forename: Thomas
authors.initials: T
authors.lastname: Rattei
authors.forename: Dmitrij
authors.initials: D
authors.lastname: Frishman
authors.forename: Andreas
authors.initials: A
authors.lastname: Ruepp
mesh_terms: D000465:Algorithms; D000818:Animals; D019295:Computational Biology / Q000379:methods* / Q000639:trends; D030541:Databases, Genetic; D030561:Databases, Nucleic Acid; D030562:Databases, Protein; D016681:Genome, Fungal; D006801:Humans; D016247:Information Storage and Retrieval / Q000379:methods; D020407:Internet; D025941:Protein Interaction Mapping; D017434:Protein Structure, Tertiary; D011506:Proteins / Q000737:chemistry*; D012441:Saccharomyces cerevisiae / Q000378:metabolism; D012984:Software
chemical_list: D011506:Proteins