Inferred from Electronic Annotation (IEA)
The IEA evidence code is used for annotations that are computationally, or automatically, assigned to gene products without further manual, curator review. IEA annotations are derived from several types of pipelines:
- mappings between classification systems (EC, RHEA, etc) and GO terms that have been manually assessed to be equivalent. Any entry mapped to a classification system (such as an EC number) is automatically annotated the GO terms defined in the mapping.
- mappings between protein or RNA families or sequence motifs and GO terms representing the conserved function(s) of that family or motif. Any entry belonging to the family or bearing the motif is automatically annotated the GO terms defined in the mapping. Mappings that could results in false positive hits are removed.
- automatic transfer of annotation to orthologous gene products (Ensembl Compara), in which GO annotations are transferred across genes from orthologous groups of very closely related species.
- rule-based annotations (UniRule), and machine-learning derive rules (ARBA).
IEA annotations must use a reference from the GO Consortium's collection of GO references to indicate the method by which the IEA annotation was made.
Examples of IEA Usage
- Enzyme commission (EC)
- UniProt Keywords
- UniProtKB Subcellular Localization
Automated Annotation by Orthology
Automated Annotation by Machine-learning Derived Rules
Annotations from GO Inter-Ontology Links
- Terms in different aspects of the ontology, e.g. Molecular Function or Biological Process, may be linked with relations from the Relations Ontology (RO).
- When these relations are transitive, resulting annotations may be made using the IEA evidence code and the GO term of the 'child term' in the With/From field.
Use of the With/From Field for IEA
- All IEA annotations must include an entry in the With/From Field of the Gene Association File (GAF) to indicate what individual sequences, sequence objects, methods, keyword mapping files, etc. are the basis of the annotation. When multiple entries are placed in the With/From field, they are separated by pipes.
|DB Object ID||DB Object Symbol||GO ID||DB:Reference||Evidence Code||With (or) From|
|FB:FBgn0261456||hpo||GO:0005524 (ATP binding)||GO_REF:0000002||IEA||InterPro:IPR000719 |InterPro:IPR002290 |InterPro:IPR017441|
|UniProtKB:P01106||MYC||GO:0006366 (transcription by RNA polymerase II)||GO_REF:0000108||IEA||GO:0001077 (transcriptional activator activity, RNA polymerase II proximal promoter sequence-specific DNA binding)|
Examples where the IEA Evidence Code Should NOT be Used
- If annotations made from sequence similarity-based methods have been manually reviewed by a curator, use ISS (or one of its child terms, e.g. ISO) instead.
- In this case, the associated reference should be a GO reference, e.g. GO_REF:0000024, describing that the curator reviewed the sequence similarity and approved it.
Quality Control Checks
Evidence and Conclusion Ontology
Last reviewed: November 4, 2020