title: Gene Regulation Ontology (GRO): design principles and use cases.
abstract: The Gene Regulation Ontology (GRO) is designed as a novel approach to model complex events that are part of the gene regulatory processes. We introduce the design requirements for such a conceptual model and discuss terminological resources suitable to base its construction on. The ontology defines gene regulation events in terms of ontological classes and imposes constraints on them by specifying the participants involved. The logical structure of the ontology is intended to meet the needs of advanced information extraction and text mining systems which target the identification of event representations in scientific literature. The GRO has just been submitted to the OBO library and is currently under review. It is available at http://www.ebi.ac.uk/Rebholz-srv/GRO/GRO.html.
authors.affiliation: Jena University Language and Information Engineering (JULIE) Lab, Jena, Germany. elena.beisswanger@uni-jena.de
authors.forename: Elena
authors.initials: E
authors.lastname: Beisswanger
authors.forename: Vivian
authors.initials: V
authors.lastname: Lee
authors.forename: Jung-Jae
authors.initials: JJ
authors.lastname: Kim
authors.forename: Dietrich
authors.initials: D
authors.lastname: Rebholz-Schuhmann
authors.forename: Andrea
authors.initials: A
authors.lastname: Splendiani
authors.forename: Olivier
authors.initials: O
authors.lastname: Dameron
authors.forename: Stefan
authors.initials: S
authors.lastname: Schulz
authors.forename: Udo
authors.initials: U
authors.lastname: Hahn
mesh_terms: D019295:Computational Biology; D030541:Databases, Genetic; D003661:Decision Support Techniques; D005786:Gene Expression Regulation; D006801:Humans; D016247:Information Storage and Retrieval; D008967:Molecular Biology; D009323:Natural Language Processing; D012984:Software; D014158:Transcription, Genetic; D018875:Vocabulary, Controlled