title: Automatic extraction of biological information from scientific text: protein-protein interactions.
abstract: We describe the basic design of a system for automatic detection of protein-protein interactions extracted from scientific abstracts. By restricting the problem domain and imposing a number of strong assumptions which include pre-specified protein names and a limited set of verbs that represent actions, we show that it is possible to perform accurate information extraction. The performance of the system is evaluated with different cases of real-world interaction networks, including the Drosophila cell cycle control. The results obtained computationally are in good agreement with current biological knowledge and demonstrate the feasibility of developing a fully automated system able to describe networks of protein interactions with sufficient accuracy.
authors.affiliation: Protein Design Group, CNB-CSIC, Madrid, Spain.
authors.forename: C
authors.initials: C
authors.lastname: Blaschke
authors.forename: M A
authors.initials: MA
authors.lastname: Andrade
authors.forename: C
authors.initials: C
authors.lastname: Ouzounis
authors.forename: A
authors.initials: A
authors.lastname: Valencia
mesh_terms: D000465:Algorithms; D000818:Animals; D001185:Artificial Intelligence; D001331:Automation / Q000379:methods*; D002453:Cell Cycle; D004330:Drosophila / Q000737:chemistry; D016239:MEDLINE; D010506:Periodicals as Topic / Q000639:trends; D011485:Protein Binding; D011506:Proteins / Q000737:chemistry*; D013223:Statistics as Topic / Q000379:methods*
chemical_list: D011506:Proteins