Building an efficient curation workflow for the Arabidopsis literature corpus

• Published in: Database : the journal of biological databases and curation Vol. 2012; p. bas047
• Main Authors: Li, Donghui, Berardini, Tanya Z, Muller, Robert J, Huala, Eva
• Format: Journal Article
• Language: English
• Published: England Oxford University Press 06-12-2012
• Subjects: Arabidopsis - genetics; Data Mining - methods; Databases, Genetic; Genes, Plant - genetics; Molecular Sequence Annotation; Ontology; Original; Periodicals as Topic; Phenotype; Polymorphism, Genetic; Search Engine; Vocabulary, Controlled; Workflow
• ISSN: 1758-0463; 1758-0463
• DOI: 10.1093/database/bas047

TAIR (The Arabidopsis Information Resource) is the model organism database (MOD) for Arabidopsis thaliana, a model plant with a literature corpus of about 39 000 articles in PubMed, with over 4300 new articles added in 2011. We have developed a literature curation workflow incorporating both automated and manual elements to cope with this flood of new research articles. The current workflow can be divided into two phases: article selection and curation. Structured controlled vocabularies, such as the Gene Ontology and Plant Ontology are used to capture free text information in the literature as succinct ontology-based annotations suitable for the application of computational analysis methods. We also describe our curation platform and the use of text mining tools in our workflow. Database URL: www.arabidopsis.org