Manager 22Sep10

Discussion topics

From BHB meeting

1. Exp. extrapolation by family annotation proposal: WG: (aka "broad" but the use of the word "broad" is deprecated)
2. evidence codes: proof of principle for chain of evidence: WG:
3. dealing with column 16 in AmiGO : software? is the documentation finished? create a WG?

Other discussion topics

1. Code for updated ontology terms: can we improve TXN_OH? this is very cryptic.
2. Protein binding : what do we do next?
   • see notes from the BHB meeting: Talk:2010_Bar_Harbor_Agenda#Annotation_Advocacy_Group_Report
   • Coverage by IntAct : Interactions_per_organism
   • Coverage by BioGrid: BioGrid Stats
   • Did we drop completely the reciprocal annotations?

Annotation Group Priorities

1. educate annotators; new monthly annotation conference call: Rama to send an email about monthly call.
2. change annotation jamborees: everyone does the same paper? Plan is to do it the next one in November
3. loading GAF files - how can we help groups identify appropriate files, procedures
4. improvements to documentation on the website
5. 1st phase of QC checks is almost in place, by October probably still working out with Chris how to do soft QC checks, e.g. communicating with groups what they need to do, including keeping track of things that have already been checked; tracking things that have actually been removed (so that we can give some stats for the grant showing actual improvement)

Ref Genome Group Priorities

• We had a phone call yesterday (Pascale, Kara, Mike L, Paul, Mike C, Rama) ; see notes 21_SEPT_2010_RefGen_Priorities_Discussion
• The goal of the reference genome project is to provide detailed functional annotations capturing experimental data for each gene of the 12 reference genome species.
• There are several possible possible ways to do this: one is on a family by family basis (PANTHER10001, PANTHER10002, etc). Another one is based on known biological/cellular processes - see document: GO_broad_coverage_of_processes.