About the Experimental Factor Ontology
If you'd like to cite EFO please use the following publication:
Malone J, Holloway E, Adamusiak T, Kapushesky M, Zheng J, Kolesnikov N, Zhukova A, Brazma A, Parkinson H: Modeling Sample Variables with an Experimental Factor Ontology. Bioinformatics 2010, 26(8):1112-1118 PDF
If you are citing the ontology used in an analysis we would recommend you also cite the version of the ontology you are using, if appropriate. The version information can be found in the release notes and in the ontology metadata stored in the versionInfo property in the OWL file.
- Semantic web work using EFO we are producing an RDF representation of functional genomics data.
- Functional Genomics Production Team are responsible for developing and maintaining EFO.
- Gene Expression Atlas at EBI is a semantically enriched database (using EFO) of meta-analysis based summary statistics over a curated subset of ArrayExpress Archive, servicing queries for condition-specific gene expression patterns as well as broader exploratory searches for biologically interesting genes/samples.
- ArrayExpress repository at EBI The ArrayExpress Archive is a database of functional genomics experiments including gene expression where you can query and download data collected to MIAME and MINSEQE standards. Gene Expression Atlas contains a subset of curated and re-annotated Archive data which can be queried for individual gene expression under different biological conditions across experiments.
You can also learn more about the metadata EFO uses by following this link.