By Albert Burger, Duncan Davidson, Richard Baldock
This e-book offers a well timed and first-of-its-kind selection of papers on anatomy ontologies. it's interdisciplinary in its technique, bringing jointly the suitable services from computing and biomedical stories. The e-book goals to supply readers with a entire knowing of the principles of anatomical ontologies and the-state-of-the-art when it comes to present instruments and functions. It additionally highlights demanding situations that stay this present day.
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Additional info for Anatomy Ontologies for Bioinformatics: Principles and Practice (Computational Biology)
Miller, D. Weems, and SY. Rhee. Functional annotation of the Arabidopsis genome using controlled vocabularies. Plant Physiol, 135:1–11, 2004. 2 Plant Structure Ontology (PSO) 41 4. A. Burger, D. Davidson, and R. Baldock. Formalization of mouse embryo anatomy. Bioinformatics, 20:259–67, 2004. 5. I. Clark, C. Brooksbank, and J. Lomax. It’s all GO for plant scientists. Plant Physiol, 138:1268–1278, 2005. 6. D. J. Craigon, N. James, J. Okyere, J. Higgins, J. Jotham, and S. May. NASCArrays: a repository for microarray data generated by NASC’s transcriptomics service.
Elegans, on, among other properties, their common cell types and the XSPAN resource has LUTs linking the cell-type ontologies to the tissues of the developing mouse and human, the embryonic, pupal and adult stages of Drosophila and the adult C. elegans. 4 Discussion There are three main roles for which anatomical ontologies are needed. ) in databases that have been annotated with the relevant tissue IDs. g. org). If an ontology does hold part of, develops from and other relationships, it is possible, in principle at least, to make this information available to a user (the FMA does this for adult human anatomy).
The part of relationship represents a component or subset relationship. In this ontology, part of is used in a non-restrictive manner, where a parent does not have to be composed of all of its children. However, the child must be a part of the parent to exist in the ontology. For instance, stamen is necessarily a part of androecium, which is a part of ﬂower; therefore, whenever a stamen exists, it is part of a ﬂower, but not all ﬂowers have stamens (Fig. 2b). Like the is a relationship, the part of relationship is transitive.
Anatomy Ontologies for Bioinformatics: Principles and Practice (Computational Biology) by Albert Burger, Duncan Davidson, Richard Baldock