Transcript Cdao-obo-workshop-2010

Comparative Data Analysis
Ontology
Hilmar Lapp
Nescent
February 2010
OBO Foundry Meeting
History
Beginnings
CDAO grew out out the NESCent Evolutionary
Informatics Working Group
A primary objective was to formalize the concepts and
relationships important to comparative analysis
Recent Publications/Events
Initial Implementation of a Comparative Data Analysis
Ontology. Evolutionary Bioinformatics. (July 2-09)
NESCent Database Interoperability Hackathon (March
2009)
TDWG 09 VoCamp (November 2009)
Statistics: CDAO Defines
76 Classes
61 Object Properties
10 Datatype Properties
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Design Overview
CDAO is organized around three key concepts
Character-State Data Matrix
Tree
Includes rooted, unrooted, and networks.
Data type
Categorical
Molecular
DNA, RNA, Amino-Acids.
Standard
which includes any categorical data, it's intended as an alignment
point for specific categories that a researcher would define.
Continuous
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CDAO Organization
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Current/Future Work
Triple-store
A triple-store containing CDAO versions of TreeBase
data has been created.
The store supports storing arbitrary related rdf
The store allows users to upload files in NEXUS,
PHYLIP and MEGA formats (NeXML support is in
progress)
The store has a SPARQL interface
Currently a higher-level query interface is being
developed to enhance usability and support queries
that can not be handled with SPARQL.
MIAPA (Minimum Information About a Phylogenetic
Analysis)
Extend the set of extra annotations to facilitate use with
a workflow/provenance framework.
Integrate/Align CDAO with other related standards
efforts.
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Acknowledgments
Research Collaborators:
Arlin Stoltzfus [NIST]
F. Prosdocimi and J. Thompson
[University of Strasbourg]
B. Chisham, B. Wright, T. Le,
S. Tran, E. Pontelli [NMSU]
Research Support/Sponsors:
NSF
NMSU CREST Center
NESCent
NMSU
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