ArticleBMC bioinformatics2011
CDAO-store: ontology-driven data integration for phylogenetic analysis.
Article in BMC bioinformatics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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Who cites it
5 citing papers in PubMed.
- A Semantic-Based Approach for Managing Healthcare Big Data: A Survey.Journal of healthcare engineering · 2020Review
- An ontology-guided semantic data integration framework to support integrative data analysis of cancer survival.BMC medical informatics and decision making · 2018Article
- ReproPhylo: An Environment for Reproducible Phylogenomics.PLoS computational biology · 2015Article
- Computational framework to support integration of biomolecular and clinical data within a translational approach.BMC bioinformatics · 2013Article
- Advancing data reuse in phyloinformatics using an ontology-driven Semantic Web approach.BMC medical genomics · 2013Article
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5 authors.
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Abstract
backgroundThe Comparative Data Analysis Ontology (CDAO) is an ontology developed, as part of the EvoInfo and EvoIO groups supported by the National Evolutionary Synthesis Center, to provide semantic descriptions of data and transformations commonly found in the domain of phylogenetic analysis. The core concepts of the ontology enable the description of phylogenetic trees and associated character data matrices.
resultsUsing CDAO as the semantic back-end, we developed a triple-store, named CDAO-Store. CDAO-Store is a RDF-based store of phylogenetic data, including a complete import of TreeBASE. CDAO-Store provides a programmatic interface, in the form of web services, and a web-based front-end, to perform both user-defined as well as domain-specific queries; domain-specific queries include search for nearest common ancestors, minimum spanning clades, filter multiple trees in the store by size, author, taxa, tree identifier, algorithm or method. In addition, CDAO-Store provides a visualization front-end, called CDAO-Explorer, which can be used to view both character data matrices and trees extracted from the CDAO-Store. CDAO-Store provides import capabilities, enabling the addition of new data to the triple-store; files in PHYLIP, MEGA, nexml, and NEXUS formats can be imported and their CDAO representations added to the triple-store.
conclusionsCDAO-Store is made up of a versatile and integrated set of tools to support phylogenetic analysis. To the best of our knowledge, CDAO-Store is the first semantically-aware repository of phylogenetic data with domain-specific querying capabilities. The portal to CDAO-Store is available at http://www.cs.nmsu.edu/~cdaostore.
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