The Negatome database: a reference set of non-interacting protein pairs.
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.
Smialowski
Pawel
P
Institute for Bioinformatics and Systems Biology/MIPS, HMGU-German Research Center for Environmental Health Ingolstaedter Landstrasse 1, 85764 Neuherberg, Germany.
Pagel
Philipp
P
Wong
Philip
P
Brauner
Barbara
B
Dunger
Irmtraud
I
Fobo
Gisela
G
Frishman
Goar
G
Montrone
Corinna
C
Rattei
Thomas
T
Frishman
Dmitrij
D
Ruepp
Andreas
A
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
D011506:Proteins