Extensions/x-multi-organism: Difference between revisions
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== Results == | == Results == | ||
=== Relations | === Relations Used === | ||
* [[regulates]],[[positively_regulates]],[[negatively_regulates]] | * [[regulates]],[[positively_regulates]],[[negatively_regulates]] | ||
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* [[regulates_process_in]] | * [[regulates_process_in]] | ||
=== Issues === | |||
* other organism | |||
* defense-related qualifier | |||
We should probably use a nested cross-product here. For now we're just adding two regulates link as part of the necessary and sufficient conditions: | |||
<pre> | |||
[Term] | |||
id: GO:0034053 ! modulation by symbiont of host defense-related programmed cell death | |||
intersection_of: GO:0044419 ! interspecies interaction between organisms | |||
intersection_of: OBO_REL:regulated_by obol:symbiont ! symbiont | |||
intersection_of: regulates GO:0012501 ! programmed cell death | |||
intersection_of: regulates GO:0006952 ! defense response | |||
intersection_of: regulates_process_in obol:host ! host | |||
</pre> | |||
=== Missing Link Report === | === Missing Link Report === | ||
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[[Category:Cross Products]] | [[Category:Cross Products]] | ||
Revision as of 20:14, 5 June 2008
Synopsis
This XP augments XP:biological_process_xp_regulation
It "catches" some of the MOPs that do not conform to the strict "+/- regulation of PROCESS" grammar. The obol grammar is still incomplete, and there will be certain patterns that are not caught:
- regulation of qualities, such as levels of RNA in host
- non-conforming terms
It uses a small ontology of "organism roles" - parasite, symbiont etc - see the bottom of the xp obo file
Availability
See the go/scratch/xps directory
- xp obo file
- imports file - point oboedit at this
Results
Relations Used
Issues
- other organism
- defense-related qualifier
We should probably use a nested cross-product here. For now we're just adding two regulates link as part of the necessary and sufficient conditions:
[Term] id: GO:0034053 ! modulation by symbiont of host defense-related programmed cell death intersection_of: GO:0044419 ! interspecies interaction between organisms intersection_of: OBO_REL:regulated_by obol:symbiont ! symbiont intersection_of: regulates GO:0012501 ! programmed cell death intersection_of: regulates GO:0006952 ! defense response intersection_of: regulates_process_in obol:host ! host
Missing Link Report
(not yet updated automatically)
This has some false positives. It is also redundant with the report generated here: