Cdao Obo Workshop 2010 (3)

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This presentation was developed on behalf of the CDAO team and presented by Hilmar at the OBO meeting in Feb. 2010

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Cdao Obo Workshop 2010 (3)

  1. 1. Comparative Data Analysis Ontology
  2. 2. History <ul><li>Beginnings </li></ul><ul><ul><li>CDAO grew out out the Evolutionary Informatics Working Group </li></ul></ul><ul><ul><li>A primary objective was to formalize the concepts and relationships important to comparative analysis </li></ul></ul><ul><li>Recent Publications/Events </li></ul><ul><ul><li>Initial Implementation of a Comparative Data Analysis Ontology. Evolutionary Bioinformatics. (July 2-09) </li></ul></ul><ul><ul><li>Nescent Database Interoperability Hackathon (March 2009) </li></ul></ul><ul><ul><li>TDWG 09 VoCamp (November 2009) </li></ul></ul><ul><li>Statistics </li></ul><ul><ul><li>CDAO Defines </li></ul></ul><ul><ul><ul><li>76 Classes </li></ul></ul></ul><ul><ul><ul><li>61 Object Properties </li></ul></ul></ul><ul><ul><ul><li>10 Datatype Properties </li></ul></ul></ul>
  3. 3. Design Overview <ul><li>CDAO is organized around three key concepts </li></ul><ul><ul><li>Character-State Data Matrix </li></ul></ul><ul><ul><li>Tree </li></ul></ul><ul><ul><ul><li>Includes rooted, unrooted, and networks. </li></ul></ul></ul><ul><ul><li>Data type </li></ul></ul><ul><ul><ul><li>Categorical </li></ul></ul></ul><ul><ul><ul><ul><li>Molecular </li></ul></ul></ul></ul><ul><ul><ul><ul><ul><li>DNA, RNA, Amino-Acids. </li></ul></ul></ul></ul></ul><ul><ul><ul><ul><li>Standard </li></ul></ul></ul></ul><ul><ul><ul><ul><ul><li>which includes any categorical data, it's intended as an alignment point for specific categories that a researcher would define. </li></ul></ul></ul></ul></ul><ul><ul><ul><li>Continuous </li></ul></ul></ul>
  4. 4. CDAO Organization
  5. 5. Curret/Future Work <ul><li>Triple-store </li></ul><ul><ul><li>A triple-store containing CDAO versions of TreeBase data has been created. </li></ul></ul><ul><ul><li>The store supports storing arbitrary related rdf </li></ul></ul><ul><ul><li>The store allows users to upload files in NEXUS, PHILIP and MEGA formats (NEXML support is in progress) </li></ul></ul><ul><ul><li>The store has a SparQL interface </li></ul></ul><ul><ul><li>Currently a higher-level query interface is being developed to enhance usability and support queries that can not be handled with SparQL. </li></ul></ul><ul><li>MIAPA (Minimum Information About a Phylogenetic Analysis) </li></ul><ul><ul><li>Extend the set of extra annotations to facilitate use with a workflow/provenance framework. </li></ul></ul><ul><ul><li>Integrate/Align CDAO with other related standards efforts. </li></ul></ul>
  6. 6. Acknowledgments <ul><li>Research Collaborators: </li></ul><ul><ul><li>Arlin Stoltzfus [NIST] </li></ul></ul><ul><ul><li>F. Prosdocimi and J. Thompson [University of Strasbourg] </li></ul></ul><ul><ul><li>B. Chisham, B. Wright, T. Le, S. Tran, E. Pontelli [NMSU] </li></ul></ul><ul><li>Research Support/Sponsors: </li></ul><ul><ul><li>NSF </li></ul></ul><ul><ul><li>NMSU CREST Center </li></ul></ul><ul><ul><li>NESCent </li></ul></ul><ul><ul><li>NMSU </li></ul></ul>

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