InteroPORC: automated inference of highly conserved protein interaction networks.
BACKGROUND
Protein-protein interaction networks provide insights into the relationships between the proteins of an organism thereby contributing to a better understanding of cellular processes. Nevertheless, large-scale interaction networks are available for only a few model organisms. Thus, interologs are useful for a systematic transfer of protein interaction networks between organisms. However, no standard tool is available so far for that purpose.


RESULTS
In this study, we present an automated prediction tool developed for all sequenced genomes available in Integr8. We also have developed a second method to predict protein-protein interactions in the widely used cyanobacterium Synechocystis. Using these methods, we have constructed a new network of 8783 inferred interactions for Synechocystis.


BACKGROUND
InteroPORC is open-source, downloadable and usable through a web interface at http://biodev.extra.cea.fr/interoporc/.
Michaut
Magali
M
CEA, IBITECS, Gif sur Yvette, F-91191, France. michaut.bioinfo@gmail.com
Kerrien
Samuel
S
Montecchi-Palazzi
Luisa
L
Chauvat
Franck
F
Cassier-Chauvat
Corinne
C
Aude
Jean-Christophe
JC
Legrain
Pierre
P
Hermjakob
Henning
H
D000465:Algorithms; D001331:Automation; D019295:Computational Biology / Q000379:methods*; D003198:Computer Simulation; D000458:Cyanobacteria / Q000235:genetics* / Q000378:metabolism; D016680:Genome, Bacterial; D020407:Internet; D008954:Models, Biological; D025941:Protein Interaction Mapping; D017434:Protein Structure, Tertiary; D011506:Proteins / Q000737:chemistry*; D012815:Signal Processing, Computer-Assisted; D012984:Software; D046939:Synechocystis / Q000235:genetics / Q000378:metabolism*; D049490:Systems Biology
D011506:Proteins