Ref Gen pub draft (Retired)
The Reference Genome Annotation Project
We are experiencing an explosion of genomic information, where more and more genomes are being sequenced. However, there are limited resources to annotate these growing numbers of genomes thus automatic annotation will be the method of choice for many. On the other side, several model organism databases have a group of trained and highly skilled GO curators. In an effort to maximize and optimize the GO annotation of a large set of key genomes (called from now on 'the reference genomes' the GO consortium has established the complete annotation of 12 reference genomes as a priority goal. These reference genomes are:
- Arabidopsis thaliana (http://www.arabidopsis.org/)
- Caenorhabditis elegans (http://www.wormbase.org/)
- Danio rerio (zebrafish; http://zfin.org)
- Dictyostelium discoideum (http://www.dictybase.org/)
- Drosophila melanogaster (http://flybase.org/)
- Escherichia coli (http://www.tigr.org/)?
- Gallus gallus (http://www.agbase.msstate.edu/)
- Homo sapiens (http://www.ebi.ac.uk/GOA/human_release.html)?
- Mus musculus (http://www.informatics.jax.org/)
- Rattus norvegicus (http://rgd.mcw.edu/)
- Saccharomyces cerevisiae (http://www.yeastgenome.org/)
- Schizosaccharomyces pombe (http://www.genedb.org/genedb/pombe/)
The Reference Genome GO Annotation Team, with representatives from each genome annotation group, will coordinate annotation, facilitate implementation of GO Consortium annotation priorities, provide metrics to assess progress toward the goal of broad and deep annotation of the reference genomes. This group will be responsible for the coordination of the annotation of the twelve reference genomes. This group represents the annotation expertise within the GO consortium and provides key liaisons to the model organism databases the have primary responsibilities for the annotation of the reference genomes.
Priorities for Annotation
Our ultimate aim is to provide comprehensive GO annotation for all gene products in each of the reference genomes. This is a huge task and requires us the prioritise the targets for curation. Our intial annotation efforts (Aug 20076- Sept 2007) focussed on orthologs of human disease genes but in Oct 2007 we widened our list to four priority areas:
- Orthologs of human disease genes
- Topical or ‘hot’ genes
- Genes conserved from E. coli to human that currently lack GO annotation
- Genes involved in (metabolic?) pathway
Each month we curate 5 genes from each area as selected by one of the participating databases.
A colorful graphic representation of the reference genome effort can be viewed in full here:
There is one graph per curated reference gene. In addition to the graph there are two informative tables per gene, which either list GO annotations by category, or full experimental annotations in each organism for the given gene. This facilitates the comparison of the curation status in the 12 reference genomes and helps curators to identifty genes that need attention.