Changes between Version 1 and Version 2 of GOAnnotationGuidelines

Timestamp:

Jun 7, 2012, 10:31:40 AM (9 years ago)

Author:

gomidori

Comment:

--

GOAnnotationGuidelines

@@ -6 +6 @@
  * [http://www.geneontology.org/GO.ontology.structure.shtml General Ontology structure] (Includes Cross Products and Logical Definitions)
  * [http://www.geneontology.org/GO.ontology-ext.relations.shtml Ontology relations]
- * [http://www.geneontology.org/GO.process.guidelines.shtml Biological Process] Every process should have a discrete '''beginning''' and '''end''', and these should be clearly stated in the process term definition.
+ * [http://www.geneontology.org/GO.process.guidelines.shtml Biological Process] Every process should have a discrete '''beginning''' and '''end''', and these should be clearly stated in the process term definition. Note, however, that this work is still in progress for GO.
  * [http://www.geneontology.org/GO.function.guidelines.shtml Molecular Function]
  * [http://www.geneontology.org/GO.component.guidelines.shtml Cellular Component]
@@ -52 +52 @@
 GO annotation extensions capture specificity that would be undesirable in the ontology.
  * When to use an extension versus requesting a new term?
-  * [PrePostComposeGO PomBase "Precompose or postcompose?" wiki]
+  * [wiki:PrePostComposeGO PomBase "Precompose or postcompose?" wiki]
   * [http://wiki.geneontology.org/index.php/Annotation_Extension#When_should_a_curator_use_the_Annotation_Extension_field_instead_of_requesting_a_new_GO_term.3F GO "when to use extensions" wiki] and [http://wiki.geneontology.org/index.php/Annotation_Extension#Annotation_Examples annotation examples]
  * The basic format is relation(Database prefix:database_ID). Additional format/syntax documentation is available:
@@ -70 +70 @@
 === Recommended Terms ===
 ==== Biological Process ====
+ * Regulation
+  * Lots of discussion going on among !PomBase curators and with other GO annotators, about when to annotate to regulation terms and when not. It's also connected with filling in start and end details for the process terms that still need them. Conclusions will be posted or linked here. (2012-06-07)
+
  * Transcription
   * All fission yeast annotations for RNAi so far should be to the term [http://www.ebi.ac.uk/QuickGO/GTerm?id=GO:0031048 chromatin silencing by small RNA (GO:0031048)]