RefGenome10Feb09 Phone Conference (Archived): Difference between revisions

Revision as of 17:28, 9 February 2009

PAINT annotations are done in two steps:
1. Annotating the common ancestor (hypothetical protein) by ISS by 'tree annotators'
2. This generates a GAF file that can be used to propagate those annotations to all other descendants of that sequence
In both cases, the annotation uses ISS as evidence code. OK?

Used with two different meanings: (1) when a multisubunit complex needs two or more gene products for activity, and (2) from documentation: "Note that contributes_to is not needed to annotate a catalytic subunit. Furthermore, contributes_to may be used for any non-catalytic subunit, whether the subunit is essential for the activity of the complex or not." [1]
This last statement should be removed. It's incorrect to annotate a function as if annotating a component.
contributes_to for RG genes as of Feb 9, 2009:

Used with two different meanings: (1) transient localization, and (2) peripheral association.
- Do we need to annotate peripheral associations? If the assay cannot resolve the component, should we not annotate to the parent?
- If we mean 'transient', should the qualifier be 'transiently localized' (ie, more explicitly saying what we're trying to capture?
colocalizes_with for RG genes as of Feb 9, 2009:

Tuesday March 10, 2009, 11 AM PDT, 1 PM CDT, 2 PM EST, 7 PM BST

@@ Line 22: / Line 22: @@
 * Used with two different meanings: (1) transient localization, and (2) peripheral association.
 **Do we need to annotate peripheral associations? If the assay cannot resolve the component, should we not annotate to the parent?
 ** If we mean 'transient', should the qualifier be 'transiently localized' (ie, more explicitly saying what we're trying to capture?
+* [[colocalizes_with for RG genes]] as of Feb 9, 2009:
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