Titlebook: Data Integration in the Life Sciences; Third International Ulf Leser,Felix Naumann,Barbara Eckman Conference proceedings 2006 Springer-Ver

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BioFuice: Mapping-Based Data Integration in Bioinformatics-like data integration based on bidirectional mappings. Sources and mappings are associated with a domain model to support a semantically meaningful interoperability. BioFuice extends the generic iFuice integration platform which utilizes specific operators for data fusion and workflow-like script p

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A Method for Similarity-Based Grouping of Biological Datasearch results, removal of redundancy in databases and data integration. Similarity-based grouping of data entries is not a trivial task in the context of life science data sources as the stored data is complex, highly correlated and represented at different levels of granularity. The contribution o

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On Querying OBO Ontologies Using a DAG Pattern Query Languageis paper we present a language DQL for querying a database of directed acyclic graphs. The query language has a comprehension style syntax and contains a pattern specification sub-language DPL. DPL can be viewed as an extension of tree-pattern query language like XPath. The language allows extractio

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Using Term Lists and Inverted Files to Improve Search Speed for Metabolic Pathway Databaseshways can be converted into labeled directed graphs where the nodes represent chemical compounds. Similarity between two graphs can be computed using a metric based on Maximal Common Subgraph (MCS). By maintaining an inverted file that indexes all pathways in a database on their edges, our algorithm

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Arevir: A Secure Platform for Designing Personalized Antiretroviral Therapies Against HIVy failure is the development of drug-resistant genetic variants. In principle, the viral genomic sequence provides resistance information and could thus guide the selection of an optimal drug combination. In practice however, the benefit of this procedure is impaired by (1) the difficulty in inferri

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Ontology Analysis on Complexity and Evolution Based on Conceptual Modeldetermine the fundamental characteristics of ontologies in order to improve the quality, estimate cost and reduce future maintenance. Our research examines the concepts and their hierarchy in ontology conceptual model, the common feature of most ontologies, which reflects the fundamental complexity.

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