Tips to Produce High Quality Annotations: Difference between revisions
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== Capture the Conclusion, not the Assay == | == Capture the Conclusion, not the Assay == | ||
== Infering Normal Functions Based on Phenotypes == | |||
Phenotypes can help understand the function of proteins, but also provide insights into mechanisms leading to disease | 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. | 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. | ||
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== Check Term Parentage in the Ontology == | == Check Term Parentage 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. | 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. | ||
Revision as of 13:00, 19 January 2018
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
Infering 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 Parentage 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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