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BMC Syst Biol. 2012 Jul 30;6:92. doi: 10.1186/1752-0509-6-92.

HINT: High-quality protein interactomes and their applications in understanding human disease.

Author information

  • 1Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853, USA. haiyuan.yu@cornell.edu.

Abstract

BACKGROUND:

A global map of protein-protein interactions in cellular systems provides key insights into the workings of an organism. A repository of well-validated high-quality protein-protein interactions can be used in both large- and small-scale studies to generate and validate a wide range of functional hypotheses.

RESULTS:

We develop HINT (http://hint.yulab.org) - a database of high-quality protein-protein interactomes for human, Saccharomyces cerevisiae, Schizosaccharomyces pombe, and Oryza sativa. These were collected from several databases and filtered both systematically and manually to remove low-quality/erroneous interactions. The resulting datasets are classified by type (binary physical interactions vs. co-complex associations) and data source (high-throughput systematic setups vs. literature-curated small-scale experiments). We find strong sociological sampling biases in literature-curated datasets of small-scale interactions. An interactome without such sampling biases was used to understand network properties of human disease-genes - hubs are unlikely to cause disease, but if they do, they usually cause multiple disorders.

CONCLUSIONS:

HINT is of significant interest to researchers in all fields of biology as it addresses the ubiquitous need of having a repository of high-quality protein-protein interactions. These datasets can be utilized to generate specific hypotheses about specific proteins and/or pathways, as well as analyzing global properties of cellular networks. HINT will be regularly updated and all versions will be tracked.

PMID:
22846459
[PubMed - indexed for MEDLINE]
PMCID:
PMC3483187
Free PMC Article

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