Metadata used to describe classes in EFO
Below a table summarising the metadata used in EFO:
| Class label. |
RDFS:label |
| Textual definition of class. |
definition |
| A referential mapping of the class to other equivalent classes in external ontologies or resources. |
definition_citation |
| Synonym of the class label. |
alternative_term |
| Curator responsible for creating and/or editing the class. |
definition_editor |
| An example demonstrating how the class may be used. |
example_of_usage |
| Explanation describing why a class has been made obsolete, providing audit trail. |
reason_for_obsolescence |
| An EFO version number capturing when a class was made obsolete. |
obsolete_in_version |
| Given value ‘true’ to flag classes that are structural in nature, such as upper ontology classes. While important for ontology engineering, such classes are hidden from Atlas presentation layer as they have proved confusing to users. |
organizational_class |
Mappings to external ontologies
Note this list is autogenerated on every release:
| Bioportal mappings to BRENDA tissue / enzyme source (BTO) verunknown |
| Bioportal mappings to Cell type (CL) verunknown |
| Bioportal mappings to Chemical entities of biological interest (CHEBI) verunknown |
| Bioportal mappings to Drosophila gross anatomy (FBbt) ver2011-02-10 |
| Bioportal mappings to Foundational Model of Anatomy (FMA) ver3.1 |
| Bioportal mappings to Gene Ontology (GO) ver1.886 |
| Bioportal mappings to Human disease (DOID) ver |
| Bioportal mappings to International Classification of Diseases (ICD-9) ver9 |
| Bioportal mappings to Malaria Ontology (IDOMAL) ver1.22 |
| Bioportal mappings to Mammalian phenotype (MP) vernull |
| Bioportal mappings to Medical Subject Headings (MSH) ver2011_2010_08_30 |
| Bioportal mappings to MGED Ontology (MO) ver1.3.1.1 |
| Bioportal mappings to Microarray experimental conditions (MO) ver1.3.1.1 |
| Bioportal mappings to Minimal anatomical terminology (MAT) ver1.1 |
| Bioportal mappings to Mosquito gross anatomy (TGMA) verunknown |
| Bioportal mappings to NCBI organismal classification (NCBITaxon) ver1.2 |
| Bioportal mappings to NCI Thesaurus (NCIt) ver11.01e |
| Bioportal mappings to NIFSTD (nif) ver2.2 - December 20, 2010 |
| Bioportal mappings to Ontology for Biomedical Investigations (OBI) ver2010-10-26 Vancouver 2010 release, RC2 |
| Bioportal mappings to Phenotypic quality (PATO) vernull |
| Bioportal mappings to SNOMED Clinical Terms (SNOMEDCT) ver2010_07_31 |
| Bioportal mappings to Teleost anatomy and development (TAO) ver1.158 |
| Bioportal mappings to Teleost Anatomy Ontology (TAO) vernull |
| Bioportal mappings to Units of measurement (UO) vernull |
| Bioportal mappings to Zebrafish anatomy and development (ZFA) verunknown |
| Date: 11th May 2012 |
| Mappings: CRISP Thesaurus Version 2.5.2.0 |
| Mappings:The Arabidopsis Information Resource (TAIR) |
| Mappings: The Jackson Lab |
| Mappings to Plant structure (PO) |
Data model and process documentation
Workflow of EFO development and curation is available from here. Atlas
data model is available below (click the image for higher resolution):
 |