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{bio,medical} informatics

Thursday, September 20, 2001

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KDNuggets CYC Knowledge Base to be released in open-source

"Cycorp Inc. is planning to release an open-source subset of its Cyc knowledge base, which will let programmers and developers infuse common sense into everything from search engines to CRM apps."

"Users who install the OpenCyc knowledge base will have the freedom to develop proprietary applications, which is not the case with most open-source software. They will, however, have to share any general knowledge they add to the database. De Oliveira says that, over time, Cycorp will release the bulk of the Cyc knowledge base, but it will always keep the most recent additions under wraps so it can develop some proprietary technologies of its own."

The Molecular Biology Ontology Working Group An Evaluation of Ontology Exchange Languages for Bioinformatics
"Ontologies are specifications of the concepts in a given field and the relationships among those concepts. The development of ontologies for molecular-biology information and the sharing of those ontologies within the bioinformatics community are central problems in bioinformatics. If the bioinformatics community is to share ontologies effectively, ontologies must be exchanged in a form that uses standardized syntax and semantics. This paper reports on an effort among the authors to evaluate a number of alternative ontology-exchange languages, and to recommend one or more languages for use within the larger bioinformatics community. The study selected a set of candidate languages, and defined a set of capabilities that the ideal ontology-exchange language should satisfy. The study scored the languages according to the degree to which they provided each capability. In addition, the authors performed several ontology-exchange experiments with the two languages that received the highest scores: OML and Ontolingua. The result of those experiments, and the main conclusions of this study, was that the frame-based semantic model of Ontolingua is preferable to the conceptual graph model of OML, but that the XML-based syntax of OML is preferable to the Lisp-based syntax of Ontolingua."

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“Bioinformatics will be at the core of biology in the 21st century. In fields ranging from structural biology to genomics to biomedical imaging, ready access to data and analytical tools are fundamentally changing the way investigators in the life sciences conduct research and approach problems. Complex, computationally intensive biological problems are now being addressed and promise to significantly advance our understanding of biology and medicine. No biological discipline will be unaffected by these technological breakthroughs.”

BIOINFORMATICS IN THE 21st CENTURY

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