Protein interactions: two methods for assessment of the reliability of high throughput observations.

Détails

ID Serval
serval:BIB_7D83EB86C22D
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Titre
Protein interactions: two methods for assessment of the reliability of high throughput observations.
Périodique
Molecular and Cellular Proteomics
Auteur(s)
Deane C.M., Salwiński Ł., Xenarios I., Eisenberg D.
ISSN
1535-9476 (Print)
ISSN-L
1535-9476
Statut éditorial
Publié
Date de publication
2002
Volume
1
Numéro
5
Pages
349-356
Langue
anglais
Résumé
High throughput methods for detecting protein interactions require assessment of their accuracy. We present two forms of computational assessment. The first method is the expression profile reliability (EPR) index. The EPR index estimates the biologically relevant fraction of protein interactions detected in a high throughput screen. It does so by comparing the RNA expression profiles for the proteins whose interactions are found in the screen with expression profiles for known interacting and non-interacting pairs of proteins. The second form of assessment is the paralogous verification method (PVM). This method judges an interaction likely if the putatively interacting pair has paralogs that also interact. In contrast to the EPR index, which evaluates datasets of interactions, PVM scores individual interactions. On a test set, PVM identifies correctly 40% of true interactions with a false positive rate of approximately 1%. EPR and PVM were applied to the Database of Interacting Proteins (DIP), a large and diverse collection of protein-protein interactions that contains over 8000 Saccharomyces cerevisiae pairwise protein interactions. Using these two methods, we estimate that approximately 50% of them are reliable, and with the aid of PVM we identify confidently 3003 of them. Web servers for both the PVM and EPR methods are available on the DIP website (dip.doe-mbi.ucla.edu/Services.cgi).
Mots-clé
Algorithms, Databases as Topic, Fungal Proteins/chemistry, Genome, Fungal, Protein Binding, Proteomics/methods, RNA/metabolism, Reproducibility of Results, Saccharomyces cerevisiae/metabolism
Pubmed
Création de la notice
18/10/2012 9:06
Dernière modification de la notice
20/08/2019 14:38
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