FlyBase, September 2009
From GO Public
1. Staff working on GOC tasks
Susan Tweedie (GO curator) 1 FTE
Peter McQuilton (Literature curator) 0.1 FTE
Steven Marygold (Literature curator) 0.05 FTE
Gillian Millburn (Literature curator) 0.1 FTE
David Osumi-Sutherland (Literature curator) 0.025 FTE
Raymund Stefancsik (Literature curator) 0.1 FTE
Total number of staff working on GOC tasks 1.375; total funded by NIH GO grant 0.
2. Annotation progress
Table showing progress in annotating Drosophila protein coding genes Oct 2008 - Sept 2009
|Oct 08||Sept 09||% change||% of total genes|
|Protein coding genes with any GO annotation||10131||10149||+0.2%||73%|
|Protein coding genes with 1+ experimentally based term||3163||3508||+11%||25%|
|Protein coding genes with other non IEA, ND evidence||4524||4179||-7.5%||30%|
|Protein coding genes with only IEA||1716||1726||+0.6%||12.5%|
|Protein coding genes with only ND||728||736||+1.1%||5.3%|
Note there are 13825 predicted protein coding genes in Drosophila (FlyBase release FB2009_08)
Table showing annotation progress since the start of the Reference Genome project in August 2006
|August 2006||October 2008||September 2009||% change since Oct 2008|
|No biological data available||4997||5022||4995||-0.5%|
Note this table includes annotations for genes that have not yet been localized to the genome.
3. Methods and strategies for annotation
a. Literature curation:
b. Computational annotation strategies: GO annotation based on InterPro2GO mappings are updated with every release of FlyBase.
c. Priorities for annotation:
1. Literature associated with Reference Genome genes.
2. Literature describing the characterization of genes that currently lack GO annotation.
4. Presentations and publications
a. Papers with substantial GO content:
The Reference Genome Group of the Gene Ontology Consortium (2009) The Gene Ontology's Reference Genome Project: A Unified Framework for Functional Annotation across Species. PLoS Comput Biol 5(7): e1000431. doi:10.1371/journal.pcbi.1000431
b. Presentations including Talks and Tutorials and Teaching:
FlyBase/FlyMine 1 day workshop - Dept. of Genetics, University of Cambridge, UK (Peter McQuilton) May 29th 2009
c. Poster presentation:
Improving functional annotation of Drosophila transcription factors in FlyTF and FlyBase. Third International Biocuration Conference, Berlin, Germany. Susan Tweedie, Ulrike Pfreundt and Boris Adryan FlyBase-Cambridge, Department of Genetics and Cambridge Systems Biology Centre, University of Cambridge, UK (April 16-19th 2009)