Publications

Cooper and Walls et al (2013). The Plant Ontology as a Tool for Comparative Plant Anatomy and Genomic Analyses. Plant and Cell Physiology 54:e1

Lens et al. (2012). An Extension of the Plant Ontology Project Supporting Wood Anatomy and Development Research. IAWA Journal 33:113.

Walls et al (2012). A Plant Disease Extension of the Infectious Disease Ontology.''' In: Proceedings 3rd International Conference on Biomedical Ontology, Medical University of Graz, Graz, Austria.

Arnaud, et al (2012). Towards a Reference Plant Trait Ontology for Modeling Knowledge of Plant Traits and Phenotypes. Proceedings of the International Conference on Knowledge Engineering and Ontology Development. Barcelona, Spain, pp 220-225

Walls et al (2012). Ontologies as Integrative Tools for Plant Science. American Journal of Botany 99:1263-1275 (special invited paper).

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 OntologyTM 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]