Modeling sample variables with an Experimental Factor Ontology
European Bioinformatics Institute · University of Pennsylvania · +1 more institution
Abstract
MOTIVATION: Describing biological sample variables with ontologies is complex due to the cross-domain nature of experiments. Ontologies provide annotation solutions; however, for cross-domain investigations, multiple ontologies are needed to represent the data. These are subject to rapid change, are often not interoperable and present complexities that are a barrier to biological resource users. RESULTS: We present the Experimental Factor Ontology, designed to meet cross-domain, application focused use cases for gene expression data. We describe our methodology and open source tools used to create the ontology. These include tools for creating ontology mappings, ontology views, detecting ontology changes and…
Citation impact
- FWCI
- 9.39
- Percentile
- 100%
- References
- 25
Authors
9- JMJames MaloneCorresponding
European Bioinformatics Institute, University of Pennsylvania, Wellcome Trust
- EHEle Holloway
European Bioinformatics Institute, University of Pennsylvania, Wellcome Trust
- TATomasz Adamusiak
European Bioinformatics Institute, University of Pennsylvania, Wellcome Trust
- MKMisha Kapushesky
European Bioinformatics Institute, University of Pennsylvania, Wellcome Trust
- JZJie Zheng
European Bioinformatics Institute, University of Pennsylvania, Wellcome Trust
Topics & keywords
- Ontology
- Computer science
- Interoperability
- Process ontology
- Open Biomedical Ontologies
- Ontology-based data integration
- Upper ontology
- Ontology components