Recent news

Cardiovascular Gene Annotation Newsletter February 2015

The UCL cardiovascular gene annotation newsletter is now available at http://www.ucl.ac.uk/functional-gene-annotation/cardiovascular/newslette.... We welcome 2 MSc project students to the team, and discuss Rachael's progress with annotation of microRNAs.

Understanding how and why the Gene Ontology and its annotations evolve: the GO within UniProt.

A paper from the Uniprot group titled 'Understanding how and why the Gene Ontology and its annotations evolve: the GO within UniProt.' explains some of the ways in which the ontologies and the GO annotation data can change that can affect the analyses using GO datasets.

How GO uses OWL - conference paper from #owled2014

The GO is heavily reliant on the Web Ontology Language (OWL) for the construction and ongoing maintenance of the ontology. By using many tools developed by the OWL community, such as automated reasoning engines like Elk, we are able to automate tasks such as making sure edges in the graph are complete, and avoiding erroneous edges.

Missing relationships in previous go release - problem now fixed

Due to an error in the GO ontology publishing pipeline, the following releases of the ontology accidentally omitted all relationship tags:

  • 2014-10-16
  • 2014-10-15
this bug affected all editions of the ontology: go-basic, go and go-plus, both obo and owl formats

The problem has been fixed in the 2014-10-17 release. In addition, additional verification steps have been added to the automated release pipeline.

GO now contains 40,000 live terms

As of today (Sept. 24th 2014), GO contains 40,000 live, non-obsolete terms. The count per ontology branch is: 26584 BP (Biological Process) terms, 9810 MF (Molecular Function) terms, 3606 CC (Cellular Component) terms.

Retracted Brain Genetics Paper - Response from the GOC (9/23/2014)

As noted by Dr. Pavlidis in TheScientist, concerns associated with the Meyer-Lindenberg et al. paper in regards to data processing have properly led to the paper being retracted. We want to avoid any inappropriate over-generalization of the issues that led to the retraction of this paper. It is irrelevant whether the Gene Ontology annotations used in the analysis were old, as the data problem occurred upstream of any GO enrichment testing.