Annotation Conf. Call 2016-07-26

From GO Wiki
Revision as of 10:03, 22 July 2016 by Vanaukenk (talk | contribs) (Revised Protein Binding Documentation)

Jump to: navigation, search

Bluejeans URL:


Next GOC Meeting - USC, Los Angeles, CA, November 4-6, 2016

  • Please indicate on the Meeting Logistics Page if you plan to come.
  • We are also gauging interest in a one- or half-day Noctua/LEGO workshop at USC (either before or after the main consortium meeting) so have added two additional column to the table to see if people can also attend that, and if so, when.
  • Please add your information as soon as possible so we can make arrangements.

Annotation Consistency Exercise for the Remainder of 2016

  • Thanks to everyone who agreed to select and present a paper for the remainder of this year:
  • August 23 - SGD
  • September 27 - dictyBase
  • October 25 - RGD
  • November 22 - Zfin
  • If you have thoughts about the exercises, please send them along to David and Kimberly. At the end of the year, we will evaluate how this is working and if we need to make any changes to the format to keep these exercises useful for people.

Revised Protein Binding Documentation

  • GO website has been updated with the following guideline on protein binding annotations:
 Proposed New Guideline: The Molecular Function (MF) ontology can be used to capture macromolecular interactions, such as protein-
 protein, protein-nucleic acid, protein-lipid interactions, etc.  While GO annotations are not considered to be a repository of all 
 protein-protein interactions, many gene products are annotated to 'protein binding' (GO:0005515) or one of its child terms.  In making 
 these annotations, contributing groups may follow slightly different practices with respect to the types of experimental evidence used 
 to support these inferences, e.g. some groups may use co-immunoprecipitation as supporting evidence for a protein binding annotation 
 between two gene products, others not.  However, all groups generally adhere to the principle that, when annotated, protein binding 
 interactions inform what is believed to be the normal biological role of a gene product, i.e. the protein-protein interactions support 
 an author's hypothesis about how the gene product is thought to execute its molecular function in the context of a normal biological 
 process.  Protein-protein interactions for which there is not yet sufficient biological context are discouraged as sources of GO MF 
  • We also discussed, on the last conference call, the criteria by which protein binding annotations from IntAct are exported to GO. A response from Sandra Orchard is on the 2016-06-28 minutes.
  • A summary:
 * Only experimental data is used for making the decision to export the protein pair to UniProtKB/GOA as a true binary interacting pair
 * The export decision is always based on at least two pieces of experimental data. A single evidence cannot score highly enough to 
 trigger an export
 * An export cannot be triggered if the protein pair only ever co-occurs in larger complexes, there must be at least one evidence that 
 the proteins are probably in physical contact.

Questions about Membrane Cellular Component Annotations

  • We will resume discussion of this issue when Rebecca is back.
  • In the meantime, there is a summary from Rebecca on the 2016-07-11 minutes.
  • Please take a look and review the discussion and proposal so we can move towards finalizing our decision on the 2016-08-09 call.

LEGO Model for FlyBase Annotation Consistency Exercise Paper