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	Provedor de dados Nature Precedings (4) Autor Allyson L. Lister (4) Alan Ruttenberg (2) Daniel Schober (2) Frank Gibson (2) James Malone (2) Ryan R. Brinkman (2) Anil Wipat (1) Camille Laibe (1) Catherine Lloyd (1) Christian Knuepfer (1) Dagmar Waltemath (1) Falko Krause (1) Frank Bergmann (1) Goksel Misirli (1) Mélanie Courtot (1) Marvin Schulz (1) Matthew Pocock (1) Melanie Courtot (1) Michael Hucka (1) Morgan Taschuk (1) Mais... Palavra-chave Bioinformatics (4) Data Standards (3) Biotechnology (2) Tipo do documento Manuscript (3) Presentation (1) Ano 2011 (1) 2009 (3) País United Kingdom (4)		Ordenar por:  Relevância Autor Título Ano Registros recuperados: 4 Primeira ... 1 ... Última MIREOT: the Minimum Information to Reference an External Ontology Term Nature Precedings Mélanie Courtot; Frank Gibson; Allyson L. Lister; James Malone; Daniel Schober; Ryan R. Brinkman; Alan Ruttenberg. While the Web Ontology Language (OWL) provides a mechanism to import ontologies, this mechanism is not always suitable. First, given the current state of editing tools and the issues they have working with large ontologies, direct OWL imports have sometimes proven impractical for day-to-day development. Second, ontologies chosen for integration may be under active development and not aligned with the chosen design principles. Importing heterogeneous ontologies in their entirety may lead to inconsistencies or unintended inferences. In this paper we propose a set of guidelines for importing required terms from an external resource into a target ontology. We describe the guidelines, their implementation, present some examples of application, and outline... Tipo: Presentation Palavras-chave: Biotechnology; Bioinformatics. Ano: 2009 URL: http://precedings.nature.com/documents/3576/version/1 Annotation of SBML Models Through Rule-Based Semantic Integration Nature Precedings Allyson L. Lister; Phillip Lord; Matthew Pocock; Anil Wipat. *Motivation:* The creation of accurate quantitative Systems Biology Markup Language (SBML) models is a time-intensive, manual process often complicated by the many data sources and formats required to annotate even a small and well-scoped model. Ideally, the retrieval and integration of biological knowledge for model annotation should be performed quickly, precisely, and with a minimum of manual effort. Here, we present a method using off-the-shelf semantic web technology which enables this process: the heterogeneous data sources are first syntactically converted into ontologies; these are then aligned to a small domain ontology by applying a rule base. Integrating resources in this way can accommodate multiple formats with different semantics; it provides... Tipo: Manuscript Palavras-chave: Bioinformatics; Data Standards. Ano: 2009 URL: http://precedings.nature.com/documents/3286/version/1 MIREOT: the Minimum Information to Reference an External Ontology Term Nature Precedings Melanie Courtot; Frank Gibson; Allyson L. Lister; James Malone; Daniel Schober; Ryan R. Brinkman; Alan Ruttenberg. While the Web Ontology Language (OWL) provides a mechanism to import ontologies, this mechanism is not always suitable. First, given the current state of editing tools and the issues they have working with large ontologies, direct OWL imports have sometimes proven impractical for day-to-day development. Second, ontologies chosen for integration may be under active development and not aligned with the chosen design principles. Importing heterogeneous ontologies in their entirety may lead to inconsistencies or unintended inferences. In this paper we propose a set of guidelines for importing required terms from an external resource into a target ontology. We describe the guidelines, their implementation, present some examples of application, and outline... Tipo: Manuscript Palavras-chave: Biotechnology; Bioinformatics; Data Standards. Ano: 2009 URL: http://precedings.nature.com/documents/3574/version/1 SBML Level 3 Package Proposal: Annotation Nature Precedings Dagmar Waltemath; Neil Swainston; Allyson L. Lister; Frank Bergmann; Ron Henkel; Stefan Hoops; Michael Hucka; Nick Juty; Sarah Keating; Christian Knuepfer; Falko Krause; Camille Laibe; Wolfram Liebermeister; Catherine Lloyd; Goksel Misirli; Marvin Schulz; Morgan Taschuk; Nicolas Le Novère. The annotation of Systems Biology Markup Language (SBML) models with semantic terms has been supported for a number of years. The prevalence of such annotated models is growing, with repositories such as Biomodels.net and an increasing number of software tools supporting and encouraging their use and development.

With the increasing use of semantic annotations in the context of systems biology modeling has come the realization that the current Core SBML specification defining their use contains limitations that reduce the scope of metadata that can be captured in such models.

SBML Level 3 provides the facility to propose and develop optional extensions to the Core specification. One such... Tipo: Manuscript Palavras-chave: Bioinformatics; Data Standards. Ano: 2011 URL: http://precedings.nature.com/documents/5610/version/1 Registros recuperados: 4 Primeira ... 1 ... Última

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