Tips to Produce High Quality Annotations

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Tips to Produce High Quality Annotations

Get the Wider Perspective

  • Favor a gene-by-gene or pathway-by-pathway approach for curation rather than paper-by-paper
  • Read recent publications
  • Look at existing annotations for the same protein and for the term you have chosen to annotate, to ensure consistency. This may trigger the need to revise other annotations
  • Remove incorrect annotations based on invalidated hypothesis

Focus on the Research Hypothesis

Use prior knowledge to understand the hypothesis being tested and its relation to the experimental observation.

Capture the Conclusion, not the Assay

Use Caution when Inferring Normal Functions Based on Phenotypes

Phenotypes can help understand the function of proteins, but also provide insights into mechanisms leading to disease The scope of the GO, though, is to capture the normal function of proteins, so special care must be taken to understand how a phenotypic observation helps understand the nomal function of a protein.

Beware of indirect effects of mutations. - Housekeeping genes, such as RNA polymerase, affects essentially all cellular processes (cell proliferation, development, etc) but does not *mediate* these processes.

Phenotypes not supported by a molecular role for the protein. - Knockout/knock downs may result in pleiotropic effects on cell biology, development, etc. Without understanding the molecular mechanis, be careful no to make annotations to Biological Processes terms that are more specific than the experiment allows to conclude.

Check Term Placement in the Ontology

Represent Current Knowledge

The GO is not an archive or all findings published on a protein. Do no hesitate to remove older annotations that are inconsistent with the current state of knowledge for a protein' role.

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