Related Publications

• Surrounding Space: On the Ontology of Organism-Environment Relations. Theory in Biosciences 120:2 (2002), 139–162

[>http://ontology.buffalo.edu/smith/articles/Surrounding_space.pdf ]

• The OBO Foundry: Coordinated Evolution of Ontologies to Support Biomedical Data Integration”, Nature Biotechnology,25 (11), November 2007, 1251 -1255.

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• Relations in Biomedical Ontologies”, Genome Biology (2005), 6 (5), R46.

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• Plant Structure Ontology (PSO) - A morphological and anatomical ontology of flowering plants. In Anatomy Ontologies for Bioinformatics, Springer, 2008, p 27-42. [Book]
  

• The Plant Ontology Database: a community resource for plant structure and development stages controlled vocabulary and annotations. [Abstract] [Full Text]
  Nucleic Acid Research, 2008, 36(Database issue):D449-D454
  

• The Plant Structure Ontology, a unified vocabulary of anatomy and morphology of a flowering plant. [Abstract] [Full Text]
  Plant Physiology, 2007, 143: 587-599
  

• Whole-plant growth stage ontology for angiosperms and its application in plant biology. [Abstract] [Full Text]
  Plant Physiology, 2006, 142: 414-428

• Plant Ontology (PO): a controlled vocabulary of plant structures and growth stages. [Abstract] [Full Text]
  Comparative and Functional Genomics, 2005, Volume 6(7-8), 388 - 397

• The Gene Ontology (GO) database and informatics resource. [Abstract] [Full Text]
  Nucleic Acids Research, 2004, Vol 32: D258-D261.

• Bio-ontologies-fast and furious. [Full Text]
  Nature Biotechnology, 2004, Vol 22(6): 773-774.

• Functional annotation of the Arabidopsis genome using controlled vocabularies. [Abstract] [Full Text]
  Plant Physiology, 2004, Vol 135(2): 745-755.

• Ontologies in biology: design, applications and future challenges. [Abstract] [Full Text]
  Nature Reviews Genetics 2004, Vol 5(3): 213-222.

• Zea mays ontology – a database of international terms
  Trends in Plant Science, 2003, 8(11): 517-520 [Abstract]

• Ontologies: Formalising biological knowledge for bioinformatics. [Abstract] [Full Text]
  Bioessays, 2003, Vol 25(5): 501-506.

• Extension and Integration of the Gene Ontology (GO): Combining GO Vocabularies With External Vocabularies. [Abstract] [Full Text]
  Genome research 2002,12: 1982-1991.

• The Plant Ontology^TM Consortium and Plant Ontologies [Abstract] [Full Text]
  Comparative and Functional Genomics, 2002, Vol 3(2), 137-142

• Gramene: development and integration of trait and gene ontologies for rice [Abstract] [Full Text]
  Comparative and Functional Genomics, 2002, Vol 3(2), 132-136

• Creating the gene ontology resource: design and implementation. [Abstract] [Full Text]
  Genome Research, 2001, Vol 11(8), 1425-1433

• Gene Ontology: tool for the unification of biology. [Abstract] [Full Text]
  Nature Genetics, 2000, 25: 25-29

• On the representation of gene function in genetic databases. by Michael Ashburner, ISMB 1998. [HTML]