منابع مشابه
Curation accuracy of model organism databases
Manual extraction of information from the biomedical literature-or biocuration-is the central methodology used to construct many biological databases. For example, the UniProt protein database, the EcoCyc Escherichia coli database and the Candida Genome Database (CGD) are all based on biocuration. Biological databases are used extensively by life science researchers, as online encyclopedias, as...
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Whole-cell models promise to greatly facilitate the analysis of complex biological behaviors. Whole-cell model development requires comprehensive model organism databases. WholeCellKB (http://wholecellkb.stanford.edu) is an open-source web-based software program for constructing model organism databases. WholeCellKB provides an extensive and fully customizable data model that fully describes in...
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Here we describe work-in-progress on the SADI for GMOD project (SADI: Semantic Automated Discovery and Integration; GMOD: Generic Model Organism Database), a distribution of ready-made Web services that will bring additional model organism data onto the Semantic Web. SADI is a lightweight standard for implementing Web services that natively consume and generate RDF, while GMOD is a widely-used ...
متن کاملEcoCyc: fusing model organism databases with systems biology
EcoCyc (http://EcoCyc.org) is a model organism database built on the genome sequence of Escherichia coli K-12 MG1655. Expert manual curation of the functions of individual E. coli gene products in EcoCyc has been based on information found in the experimental literature for E. coli K-12-derived strains. Updates to EcoCyc content continue to improve the comprehensive picture of E. coli biology. ...
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Inter-database linkage via annotations is one approach to the integration of knowledge in the biomedical domain, which is often fragmented by specialization. This pilot study examined annotations in ten model organism databases and the Gene Ontology (GO) to assess explicit and implicit linkages between organisms. The databases had similar annotation processes, content, and knowledge, with some ...
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ژورنال
عنوان ژورنال: genesis
سال: 2015
ISSN: 1526-954X
DOI: 10.1002/dvg.22882