title: Partial correlation coefficient between distance matrices as a new indicator of protein-protein interactions.
abstract: BACKGROUND
  The computational prediction of protein-protein interactions is currently a major issue in bioinformatics. Recently, a variety of co-evolution-based methods have been investigated toward this goal. In this study, we introduced a partial correlation coefficient as a new measure for the degree of co-evolution between proteins, and proposed its use to predict protein-protein interactions.
  
  
  RESULTS
  The accuracy of the prediction by the proposed method was compared with those of the original mirror tree method and the projection method previously developed by our group. We found that the partial correlation coefficient effectively reduces the number of false positives, as compared with other methods, although the number of false negatives increased in the prediction by the partial correlation coefficient.
  
  
  BACKGROUND
  The R script for the prediction of protein-protein interactions reported in this manuscript is available at http://timpani.genome.ad.jp/~parco/
authors.affiliation: Bioinformatics Center, Institute for Chemical Research, Kyoto University Gokasho, Uji, Kyoto 611-0011, Japan. sato@kuicr.kyoto-u.ac.jp
authors.forename: Tetsuya
authors.initials: T
authors.lastname: Sato
authors.forename: Yoshihiro
authors.initials: Y
authors.lastname: Yamanishi
authors.forename: Katsuhisa
authors.initials: K
authors.lastname: Horimoto
authors.forename: Minoru
authors.initials: M
authors.lastname: Kanehisa
authors.forename: Hiroyuki
authors.initials: H
authors.lastname: Toh
mesh_terms: D000595:Amino Acid Sequence; D001665:Binding Sites; D003198:Computer Simulation; D008956:Models, Chemical; D008958:Models, Molecular; D008969:Molecular Sequence Data; D011485:Protein Binding; D025941:Protein Interaction Mapping / Q000379:methods*; D011506:Proteins / Q000737:chemistry*; D016415:Sequence Alignment / Q000379:methods*; D020539:Sequence Analysis, Protein / Q000379:methods*; D013223:Statistics as Topic
chemical_list: D011506:Proteins