Inferred from Electronic Annotation (IEA)
- 1 Overview
- 2 Examples of IEA Usage
- 3 Examples where the IEA Evidence Code Should NOT be Used
- 4 Quality Control Checks
- 5 Evidence and Conclusion Ontology
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 two main pipelines: 1) manually constructed mappings between external classification systems and GO terms, and 2) automatic transfer of annotation to orthologous gene products.
IEA annotations must use a reference from the GO Consortium's collection of GO references to indicate the method whereby the IEA annotation was made. If a suitable reference is not available, curators may request a new GO reference where it will be given a GO_REF ID, e.g. GO_REF:0000002, that will be used as the reference in Gene Association Files (GAFs).
Examples of IEA Usage
- SwissProt Keywords
- UniProtKB Subcellular Localization
Automated Annotation by Orthology
- Ensembl Compara
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: April 11, 2018