Gene Ontology Consortium: The Gene Ontology (GO) database and informatics resource
The Gene Ontology (GO) project provides structured, controlled vocabularies and classifications that cover several domains of molecular and cellular biology and are freely available for community use in the annotation of genes, gene products and sequences.
The genome of the social amoeba Dictyostelium discoideum
- L. Eichinger, J. Pachebat, A. Kuspa
- BiologyNature
- 5 May 2005
A proteome-based phylogeny shows that the amoebozoa diverged from the animal–fungal lineage after the plant–animal split, but Dictyostelium seems to have retained more of the diversity of the ancestral genome than have plants, animals or fungi.
PANTHER version 7: improved phylogenetic trees, orthologs and collaboration with the Gene Ontology Consortium
- H. Mi, Q. Dong, A. Muruganujan, P. Gaudet, S. Lewis, P. Thomas
- BiologyNucleic Acids Res.
- 16 December 2009
Protein Analysis THrough Evolutionary Relationships (PANTHER) is a comprehensive software system for inferring the functions of genes based on their evolutionary relationships, resulting in an increasing number of curated functional annotations.
The Gene Ontology resource: enriching a GOld mine
- S. Carbon, E. Douglass, J. Elser
- Computer ScienceNucleic Acids Res.
- 8 December 2020
A historical archive covering the past 15 years of GO data with a consistent format and file structure for both the ontology and annotations is made available to maintain consistency with other ontologies.
Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium
- P. Gaudet, M. Livstone, S. Lewis, P. Thomas
- BiologyBriefings Bioinform.
- 27 August 2011
This article describes how PAINT is used to infer protein function in a phylogenetic context with emphasis on its strengths, limitations and guidelines.
Protocols for growth and development of Dictyostelium discoideum
- P. Fey, A. Kowal, P. Gaudet, K. Pilcher, R. Chisholm
- BiologyNature Protocols
- 1 June 2007
Conditions for successfully growing and developing Dictyostelium cells and methods for long-term storage of DictYostelia amoebae and spores are described.
The Gene Ontology Resource: 20 years and still GOing strong
- S. Carbon, E. Douglass, M. Westerfield
- Computer Science
- 8 January 2019
GO-CAM, a new framework for representing gene function that is more expressive than standard GO annotations, has been released, and users can now explore the growing repository of these models.
The Gene Ontology project in 2008
- M. Harris, Jennifer I. Deegan, F. McCarthy
- BiologyNucleic Acids Res.
- 4 November 2007
The GO Consortium has launched a focused effort to provide comprehensive and detailed annotation of orthologous genes across a number of ‘reference’ genomes, including human and several key model organisms.
SynGO: An Evidence-Based, Expert-Curated Knowledge Base for the Synapse
- F. Koopmans, P. Nierop, M. Verhage
- BiologyNeuron
- 17 July 2019
The Gene Ontology in 2010: extensions and refinements
- T. Berardini, Donghui Li, M. Westerfield
- Computer ScienceNucleic Acids Res.
- 17 November 2009
The Gene Ontology (GO) Consortium continues to develop, maintain and use a set of structured, controlled vocabularies for the annotation of genes, gene products and sequences and several new relationship types have been introduced and used to create links between and within the GO domains.
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