ICBO_2018_25: OOPS: The Ontology of Plant Stress, A semi-automated standardization methodology

TitleICBO_2018_25: OOPS: The Ontology of Plant Stress, A semi-automated standardization methodology
Publication TypeConference Paper
Year of Publication2018
AuthorsMeier, A, Laporte, M-A, Elser, J, Cooper, L, Preece, J, Jaiswal, P, Poelen, J
Conference NameInternational Conference on Biomedical Ontology (ICBO 2018)
Date Published08/06/2018
PublisherInternational Conference on Biological Ontology
Keywordsautomation, data standards, nutrient deficiency, Ontology, plant pathology, Planteome, web scraping
Abstract

Plant stress traits are an important breeding target for all crop species. Massive amounts of research dollars are spent combating plant diseases and nutrient deficiencies. Often this data is used to achieve a single goal, and then left in a repository to never be used again. As a scientific community, we should be striving to make all publicly funded data reusable, and interoperable. This goal is achievable only through careful annotation using universal data and metadata standards. One such standard is through the use of a standardized vocabulary, or ontology. This paper focuses on producing a semi-automated method to define, and label plant stresses using a combination of web scraping, and ontology design patterns. Standardizing the definitions, and linking plant stress with established hierarchies leverages previous work of developed knowledge bases such as taxonomic classifications and other ontologies.

URLhttp://icbo2018.cgrb.oregonstate.edu/