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http://dx.doi.org/10.5808/GI.2020.18.2.e14

WTO, an ontology for wheat traits and phenotypes in scientific publications  

Nedellec, Claire (Paris-Saclay University, INRAE, MaIAGE)
Ibanescu, Liliana (Paris-Saclay University, INRAE, UMR MIA-Paris)
Bossy, Robert (Paris-Saclay University, INRAE, MaIAGE)
Sourdille, Pierre (University Clermont-Auvergne, INRAE, UMR 1095 GDEC)
Publication Information
Genomics & Informatics / v.18, no.2, 2020 , pp. 14.1-14.11 More about this Journal
Abstract
Phenotyping is a major issue for wheat agriculture to meet the challenges of adaptation of wheat varieties to climate change and chemical input reduction in crop. The need to improve the reuse of observations and experimental data has led to the creation of reference ontologies to standardize descriptions of phenotypes and to facilitate their comparison. The scientific literature is largely under-exploited, although extremely rich in phenotype descriptions associated with cultivars and genetic information. In this paper we propose the Wheat Trait Ontology (WTO) that is suitable for the extraction and management of scientific information from scientific papers, and its combination with data from genomic and experimental databases. We describe the principles of WTO construction and show examples of WTO use for the extraction and management of phenotype descriptions obtained from scientific documents.
Keywords
ontology; text mining; wheat trait and phenotype;
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