Extensions/x-stimulus
Synopsis
Logical definitions for GO Biological Processes that refer to some kind of stimulus. i.e.
- response to X
- detection of X
These were generated using a simple obol parse. A small 'stimulus ontology' was then created using abduction and the existing GO hierarchy. E.g. if GO contains "reponse to axon injury is_a response to wounding" then the stimulus ontology will contain "axon injury is__a wounding"
Introduction
XPs defining biological processes in terms of stimuli; example:
[Term] id: GO:0001562 ! response to protozoan intersection_of: GO:0050896 ! response to stimulus intersection_of: response_to stimulus:protozoon
See the go/scratch/xps directory
New location:
- x-stimulus-importer.owl -- imports the ontologies below
* x-stimulus.owl -- logical definitions * stimulus.owl -- autogenerated stimulus ontology
Stimulus Ontology
The auto-generated stimulus ontology is an odd beast. It consists of the implicit set of stimulus terms in GO. As such it contains a mixture of qualities, roles, chemical entities, physical forces, cellular components... All these things can play the role of stimulus. Thus it is best to read each term in StimO as having " stimulus" at the end. StimO could be defined itself in terms of PATO, CHEBI and other OBO ontologies. It is something of a stopgap for now
Availability:
Relations used
We use an as-yet undefined response_to relation for both detection and response terms