Inferred from Direct Assay (IDA)

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Overview

  • The IDA evidence code is used to indicate a biochemical or cell biological assay was carried out to support annotation of a gene product's molecular function, role in a biological process, or subcellular location.
  • Examples of such assays include:
    • Enzyme assays
    • In vitro reconstitution
    • Immunofluorescence
    • Physical interaction/binding assay
  • For transfection experiments or other experiments where a gene from one organism or tissue is put into a system that is not its normal environment, the curator should use the author's intent and interpretation of the experiment as a guide as to whether IDA or IMP is appropriate. When the author is using an expression system as a way to investigate the normal function of a gene product, IDA is used.

Examples of IDA usage

Enzymatic assay

DB Object ID DB Object Symbol GO ID Contributor Taxon Evidence Code PANTHER family Reference Date
UniProtKB:Q9GZZ1 N-alpha-acetyltransferase 50 GO:0004596 UniProt NCBITaxon:9606 IDA PANTHER:PTHR23091 PMID:21900231 20170725


In vitro reconstitution

DB Object ID DB Object Symbol Qualifier GO ID Contributor Taxon Evidence Code PANTHER family Reference Date
SGD:S000002299 RNA polymerase II largest subunit B220 contributes_to GO:0001055 SGD NCBITaxon:559292 IDA PANTHER:PTHR19376 SGD_REF:S000073612 20130524


Immunofluorescence

DB Object ID DB Object Symbol Qualifier GO ID Contributor Taxon Evidence Code PANTHER family Reference Date
RGD:11508551 Anp32a GO:0005634 RGD NCBITaxon:10116 IDA RGD:10401131 20170210


Physical interaction/binding assay

  • For 'x binding' annotations when the binding partner 'cannot' be captured in the With (or) From column (GAF Column 8) using a unique accession or identifier. Note, however, that annotations to 'binding' (GO:0005488) or 'protein binding' (GO:0005515) using IDA are not allowed. In those cases, curators should choose, or request a more specific child term.
DB Object ID DB Object Symbol GO ID DB:Reference Evidence Code With (or) From
MGI:2137706 Actn1 GO:0051015 (actin filament binding) PMID:15465019 IDA -


  • Assays describing the isolation of a complex by immunoprecipitation of a tagged subunit should use IDA, not IPI. Thus this type of assay can provide IDA for annotation to a component term for the specific complex because it is a direct assay for a complex.
  • Transfections into a cell line, overexpression, or ectopic expression of a gene when the expression system used is considered to be an assay system to address basic, normal functions of gene product even if it would not normally be expressed in that cell type or location. If the experiments were conducted to assess the normal function of the gene and the assay system is believed to reproduce this function, i.e., the authors would consider their experiment to be a direct assay, and not a comparison between various alleles of a gene, then the IDA code should be used.

Examples where the IDA evidence code should not be used

  • Binding assays where it is possible to put an ID corresponding to the specific binding partner that was shown to interact directly the gene product being annotated should be annotated with the IPI code, not with IDA.
  • Overexpression experiments used to assess the effects on function or expression of a gene compared to normal should use the IMP evidence code.
  • Transfection into a cell line, overexpression, or ectopic expression of a gene where the effects of various alleles of a gene are compared to each other or to wild-type. For this type of experiment, annotate using IMP.

Quality Control Checks

Evidence and Conclusion Ontology

ECO:0000314 direct assay evidence used in manual assertion

Review Status

Last reviewed: February 12, 2018

Back to: Guide to GO Evidence Codes