Extensions/x-multi-organism: Difference between revisions

Revision as of 20:11, 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 Uses

Missing Link Report

newlinks.txt

(not yet updated automatically)

This has some false positives. It is also redundant with the report generated here:

regulates missing links

Ignore the anonymous classes in this report

@@ Line 9: / Line 9: @@
 It uses a small ontology of "organism roles" - parasite, symbiont etc - see the bottom of the xp obo file
+== Availability ==
 See the [http://www.geneontology.org/scratch/xps/ go/scratch/xps] directory
@@ Line 15: / Line 17: @@
 * [http://www.geneontology.org/scratch/xps/biological_process_xp_multi_organism_process-imports.obo imports file] - point oboedit at this
-Missing Link Report:
+== Results ==
+=== Relations Uses ===
+* [[regulates]],[[positively_regulates]],[[negatively_regulates]]
+* [[regulated_by]]
+* [[regulates_process_in]]
+=== Missing Link Report ===
 * [http://www.geneontology.org/scratch/xps/biological_process_xp_multi_organism_process-newlinks.txt newlinks.txt]