Annotation Call August 12, 2014: Difference between revisions
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===Phase terms in biological process== | ===Phase terms in biological process=== | ||
As Jane explained last time, the ontology editors have introduced biological phase (GO:44848) as a new term in the Process ontology to represent distinct periods when processes occur. These terms do not have relationship (is_a) to any other process terms and they all also have a do_no_annotate tag. | As Jane explained last time, the ontology editors have introduced biological phase (GO:44848) as a new term in the Process ontology to represent distinct periods when processes occur. These terms do not have relationship (is_a) to any other process terms and they all also have a do_no_annotate tag. | ||
happens_during should be used to connect other processes and these phase terms. Should curators use the phase term in col-16 with happens_during or precompose a term such as DNA replication during S-phase? | happens_during should be used to connect other processes and these phase terms. Should curators use the phase term in col-16 with happens_during or precompose a term such as DNA replication during S-phase? | ||
Revision as of 17:37, 11 August 2014
Agenda
Phase terms in biological process
As Jane explained last time, the ontology editors have introduced biological phase (GO:44848) as a new term in the Process ontology to represent distinct periods when processes occur. These terms do not have relationship (is_a) to any other process terms and they all also have a do_no_annotate tag. happens_during should be used to connect other processes and these phase terms. Should curators use the phase term in col-16 with happens_during or precompose a term such as DNA replication during S-phase?
New relationship for col-16
There is a new relationship for annotation extensions, causally_upstream_of.
This is intended to be used to capture processes or functions that are upstream of the process or function in the primary annotation and are required for that downstream process/function to occur.
This cannot be represented by new GO terms because the first process/function is upstream of, rather than part of, the second process/function.
The documentation for this relation, including some examples of its use, is in the wiki page; http://wiki.geneontology.org/index.php/Annotation_Extension_Relation:causally_upstream_of