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Download e-book for iPad: Anatomy Ontologies for Bioinformatics: Principles and by Jonathan Bard (auth.), Albert Burger BSc, MSc, PhD, Duncan

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 at the moment are quite a few databases and instruments which are normal by means of researchers within the biomedical box. even though, winning improvement of destiny bioinformatics purposes is determined by an effectively formalised illustration of area knowledge.

This publication offers a well timed and first-of-its-kind selection of contributed chapters on anatomy ontologies. it truly is interdisciplinary in its method, bringing jointly proper services from computing and biomedical experiences, and masking either theoretical and utilized features, with an emphasis on more moderen paintings suitable to the rising Semantic Web.

Topics and Features:

• offers a entire dialogue of the rules of anatomical ontologies and the state-of-the-art in latest computational instruments and applications

• Considers a few basic modelling principles

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

• Explains fresh 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, comparable to the biomedical literature

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

Although essentially written for readers who may be enthusiastic about constructing the subsequent iteration of IT purposes within the components of existence sciences, biomedical sciences and health and wellbeing care, this detailed quantity could be of curiosity to an individual who will additional enhance anatomy ontologies, who will use them, and who can be all for the particular improvement of appropriate (semantic) net applications.

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Additional resources for Anatomy Ontologies for Bioinformatics: Principles and Practice

Sample text

Such tools are not actually very helpful to people who are not professional computer scientists and curators. They are poor at illustrating knowledge (only OBOedit currently provides any graphical visualisation beyond the basic hierarchy), partly because there can be so much material that a screenshot gives too little of the whole, and partly because the ontologies can be so rich that their visualisation is too complex to allow a user to look at the implications of a single relationship in a multirelationship ontology.

Org/MOBOT/research/APweb/)]. These definitions are conventional botanical definitions; at present, they do not follow formal ontological rules such as transitivity or reflexivity [22]. One of the most important organizational principles in the PSO is the use of synonymy. Extensive use of synonyms was acknowledged to be critical to keep the PSO relatively straightforward and easy to understand, and also to avoid problems with term multiplication (see below). Therefore, we chose a generic form of a plant organ as a term name, while various specific types of that organ were created as its synonyms.

The Plant Structure Ontology (PSO) is a controlled vocabulary of anatomy and morphology of a generic flowering plant, developed by the Plant Ontology Consortium (POC) The main goal of the POC was to reduce the problem of heterogeneity of terminology used to describe comparable object types in plant genomic databases. PSO provides standardized set of terms describing anatomical and morphological structures pertinent to flowering plants during their normal course of development. Created as a tool for annotation of gene expression patterns and description of phenotypes across angiosperms, PSO is intended for plant genomics databases and broad plant genomic research community.

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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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