By Albert Burger, Duncan Davidson, Richard Baldock
This e-book presents a well timed and first-of-its-kind choice of papers on anatomy ontologies. it truly is interdisciplinary in its method, bringing jointly the appropriate services from computing and biomedical reports. The ebook goals to supply readers with a complete figuring out of the rules of anatomical ontologies and the-state-of-the-art by way of present instruments and functions. It additionally highlights demanding situations that stay this present day.
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Extra resources for Anatomy Ontologies for Bioinformatics: Principles and Practice (Computational Biology)
8. A. H. Kaufman, A. McKay, R. W. B. Bard. An ontology of human developmental anatomy. , 203:347–355, 2003. 9. H. Parkinson. et al. The SOFG Anatomy Entry List (SAEL): an annotation tool for functional genomics data. Comp. Func. , 5:521–527, 2004. 10. C. L. Jr. Mejino. A reference ontology for biomedical informatics: the foundational model of anatomy. , 36:478–500, 2003. 11. P. Simons. Parts: a study in ontology. Oxford University Press, Oxford, UK, 1987. 12. B. Smith. Mereotopology: A theory of parts and boundaries.
Reiser, A. M. T. Whitman, S. McCouch, M. H. Ware, L. Y Rhee. The plant structure ontology - a uniﬁed vocabulary of anatomy and morphology of a ﬂowering plant. Plant Physiology, 143:587–599, 2007. 14. P. Jaiswal, S. Avraham, K. A. Kellogg, S. McCouch, A. Pujar, L. Y. M. Sachs, M. Schaeffer, L. Stein, P. Stevens, L. Vincent, D. Ware, and F. Zapata. Plant Ontology (PO): A controlled vocabulary of plant structures and growth stages. Comp Funct Genom, 6:388–397, 2005. 15. P. Jaiswal, J. Ni, I. Yap, D.
Shtml#in house). The browser has been slightly modiﬁed to suit speciﬁc requirements of the PO and its association ﬁles. Some browse and search functionalities of the PO AmiGO are displayed in Fig. 3a, which shows the top-level nodes in the screenshot of the browser. The obsolete plant structure node (grayed out) contains terms that are no longer in use in PSO, and are kept in the ontology ﬁle for historical and record keeping purposes. This node is placed at the same level as the PSO root node, plant structure (PO:0009011).