Download Gene Ontology

The "Bio-­Ontology"
The Bio-­Ontology
§ Answer to the problem of inconsistencies in the annotations § Controlled vocabulary
§ Hierarchical classification between the terms of the controlled vocabulary
The Gene Ontology
§ molecular function ontology
§ process ontology
§ cellular component ontology
http://www.geneontology.org/
Source: Jacques v an Helden
Gene Ontology: processes
Gene Ontology: molecular functions
Gene Ontology: cellular compartments
Current status of Gene Ontology
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§
Term definitions
§ Biological process terms ...................
§ Molecular function terms ...................
§ Cellular component terms ................
§ Obsolete terms ................................
23928
9467
3050
1692
Comprehensive functional annotation for 12 "key" genomes
Excludes annotations from UniProt, which represent 261 annotated proteomes.
The Gene Ontology's Reference Genome Project: a unified framework for functional
annotation across s pecies. PLoS Comput. Biol. 5: e1000431, 2009.
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Annotated gene products
§ Total ................................................... > 20 000 000 (*)
§
§
Automatically Filtered (taxon-specific, non-redundant........... c.a. 600 000
Manually curated ................................................................... c.a. 100 000 (**)
Statistics from 19/9/2012 - taken on 10/2/2013
(*) Mostly imported from UniProt
(**) To Check
Adapted from Jacques v an Helden
Gene Ontology: example
Example: MSN2 in S. cerevisiae
Query
Search GO term or gene/protein.
Here we search for the transcription factor MSN2 of yeast. http://www.geneontology.org/
Gene Ontology: example
Example: MSN2 in S. cerevisiae
You obtain general informations (gene name, synonymous, brief description), as well as the nucleic and proteic sequences.
By clicking on "term associations", you get the list of GO terms corresponding to your gene (see next page).
Gene Ontology: example
Example: MSN2 in S. cerevisiae
cellular component
molecular function
biological process
Gene Ontology: example
Example: "Osmotic stress"
Query
Search GO term or gene/protein.
Here we search for the GO term "osmotic stress"
http://www.geneontology.org/
Gene Ontology: example
Example: "Osmotic stress"
We get the classification of "osmotic stress" in the GO hierarchy.
We can also get the list of genes associated to "osmotic stress".
NB: the results can be filtered. For example, it is possible to retrieve only genes from S. cerevisiae.