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.

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.

Parkinson's UK Gene Annotation Newsletter October 2014

The UCL Parkinson's UK gene annotation newsletter is now available at:

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.

Cardiovascular Gene Annotation Newsletter August 2014

The UCL cardiovascular gene annotation newsletter is now available at

Parkinson's UK Gene Annotation Newsletter July 2014

The UCL Parkinson's UK gene annotation newsletter is now available at:

Welcome to the new GOC website!

Thank you GO Friends!

Over the last year, the Gene Ontology Consortium (GOC), has taken input from the community and redesigned its website. Some of the new features include:

GO Consortium paper: increasing expressivity of Gene Ontology annotations using a compositional approach

The Gene Ontology Consortium would like to announce its latest publication describing the introduction of annotation extensions.

Annotation extensions represent effector–target relationships such as localization dependencies, substrates of protein modifiers and regulation targets of signaling pathways and transcription factors as well as spatial and temporal aspects of processes such as cell or tissue type or developmental stage.

Representing Kidney Development using the GO

A new GO Consortium paper in PlosOne describes the collaboration between the renal biomedical research community and the GO Consortium to improve the representation of renal development in both the ontology and the annotation dataset.

Alam-Faruque Y, Hill DP, Dimmer EC, Harris MA, Foulger RE, et al. (2014) Representing Kidney Development Using the Gene Ontology. PLoS ONE 9(6): e99864. doi:10.1371/journal.pone.0099864