Kevin R Brown1, Igor Jurisica. 1. Division of Cancer Informatics, Ontario Cancer Institute, University of Toronto, Canada.
Abstract
MOTIVATION: High-throughput experiments are being performed at an ever-increasing rate to systematically elucidate protein-protein interaction (PPI) networks for model organisms, while the complexities of higher eukaryotes have prevented these experiments for humans. RESULTS: The Online Predicted Human Interaction Database (OPHID) is a web-based database of predicted interactions between human proteins. It combines the literature-derived human PPI from BIND, HPRD and MINT, with predictions made from Saccharomyces cerevisiae, Caenorhabditis elegans, Drosophila melanogaster and Mus musculus. The 23,889 predicted interactions currently listed in OPHID are evaluated using protein domains, gene co-expression and Gene Ontology terms. OPHID can be queried using single or multiple IDs and results can be visualized using our custom graph visualization program. AVAILABILITY: Freely available to academic users at http://ophid.utoronto.ca, both in tab-delimited and PSI-MI formats. Commercial users, please contact I.J. CONTACT: juris@ai.utoronto.ca SUPPLEMENTARY INFORMATION: http://ophid.utoronto.ca/supplInfo.pdf.
MOTIVATION: High-throughput experiments are being performed at an ever-increasing rate to systematically elucidate protein-protein interaction (PPI) networks for model organisms, while the complexities of higher eukaryotes have prevented these experiments for humans. RESULTS: The Online Predicted Human Interaction Database (OPHID) is a web-based database of predicted interactions between human proteins. It combines the literature-derived human PPI from BIND, HPRD and MINT, with predictions made from Saccharomyces cerevisiae, Caenorhabditis elegans, Drosophila melanogaster and Mus musculus. The 23,889 predicted interactions currently listed in OPHID are evaluated using protein domains, gene co-expression and Gene Ontology terms. OPHID can be queried using single or multiple IDs and results can be visualized using our custom graph visualization program. AVAILABILITY: Freely available to academic users at http://ophid.utoronto.ca, both in tab-delimited and PSI-MI formats. Commercial users, please contact I.J. CONTACT: juris@ai.utoronto.ca SUPPLEMENTARY INFORMATION: http://ophid.utoronto.ca/supplInfo.pdf.
Authors: Marija Usenovic; Adam L Knight; Arpita Ray; Victoria Wong; Kevin R Brown; Guy A Caldwell; Kim A Caldwell; Igor Stagljar; Dimitri Krainc Journal: Hum Mol Genet Date: 2012-05-29 Impact factor: 6.150
Authors: Jane Geisler-Lee; Nicholas O'Toole; Ron Ammar; Nicholas J Provart; A Harvey Millar; Matt Geisler Journal: Plant Physiol Date: 2007-08-03 Impact factor: 8.340