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Get Anatomy Ontologies for Bioinformatics: Principles and PDF

By Jonathan Bard (auth.), Albert Burger BSc, MSc, PhD, Duncan Davidson BSc, PhD, Richard Baldock BSc, PhD (eds.)

ISBN-10: 1846288843

ISBN-13: 9781846288845

ISBN-10: 1846288851

ISBN-13: 9781846288852

Bioinformatics as a self-discipline has come of age, and there are actually various databases and instruments which are generic via researchers within the biomedical box. notwithstanding, profitable improvement of destiny bioinformatics functions depends on an competently formalised illustration of area knowledge.

This booklet presents a well timed and first-of-its-kind choice of contributed chapters on anatomy ontologies. it's interdisciplinary in its procedure, bringing jointly appropriate services from computing and biomedical reports, and overlaying either theoretical and utilized facets, with an emphasis on more moderen paintings suitable to the rising Semantic Web.

Topics and Features:

• presents a finished dialogue of the principles of anatomical ontologies and the state-of-the-art in current computational instruments and applications

• Considers a few basic modelling principles

• contains chapters approximately study on algorithms to systematically align anatomy ontologies and to mine information within the literature, utilizing anatomy terms

• Explains contemporary efforts to boost a standard anatomy reference ontology

• Discusses anatomy within the context of spatio-temporal biomedical atlases

• Describes structures and instruments for linking anatomy ontologies with one another and with different online assets, akin to the biomedical literature

• Highlights the demanding situations of facing anatomy-based info at the Semantic Web

Although basically written for readers who can be fascinated by constructing the subsequent new release of IT functions within the components of existence sciences, biomedical sciences and overall healthiness care, this particular quantity should be of curiosity to a person who will extra increase anatomy ontologies, who will use them, and who might be inquisitive about the particular improvement of appropriate (semantic) internet applications.

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Additional resources for Anatomy Ontologies for Bioinformatics: Principles and Practice

Example text

However, clinicians’ concerns are notoriously practical. They might recognise the same underlying foundations in anatomical structure embodied in the Foundational Model of Anatomy [6, 15]. They might assent to the formal descriptions of part-whole relations put forward by Smith et al. on behalf of the Open Biomedical Ontologies (OBO) consortium [19]. However, what they use day-to-day is a mixture of structure, function, and convenience. The OpenGALEN anatomy schemata were 44 Alan L Rector created to address issues this clinical level of abstraction.

Ceusters, B. Klagges, J. Kohler, A. Kumar, J. Lomax, C. Mungall, F. L. Rector, and C. Rosse. Relations in biomedical ontologies. Genome Biol, 6(R46), 2005. 23. B. Smith, J. Williams, and S. Schulze-Kremer. The ontology of the gene ontology. In AMIA Annu Symp Proc, pages 609–613, 2003. 24. J. Sprague, L. Bayraktaroglu, D. Clements, T. Conlin, D. Fashena, K. Frazer, M. G. Howe, P. Mani, S. Ramachandran, K. Schaper, E. Segerdell, P. Song, B. Sprunger, S. E. Van Slyke, and M. Westerfield. The Zebrafish Information Network: the zebrafish model organism database.

A. Burger, D. Davidson, and R. Baldock. Formalization of mouse embryo anatomy. Bioinformatics, 20:259–267, 2004. 5. D. Davidson and R. Baldock. Bioinformatics beyond sequence: mapping gene function in the embryo. Rev. , 2:409–418, 2001. 6. V. C. M. M. Hancock, and D. Davidson. Building mouse phenotype ontologies. In Proceedings of Pac Symp Biocomput. 2004, pages 178– 189, 2004. 7. J. Hendler, T. Berners-Lee, and E. Miller. Integrating applications of the semantic web. J. Inst. Elec. Eng. Jap, pages 676–680, 2002.

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Anatomy Ontologies for Bioinformatics: Principles and Practice by Jonathan Bard (auth.), Albert Burger BSc, MSc, PhD, Duncan Davidson BSc, PhD, Richard Baldock BSc, PhD (eds.)


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