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Research Article

Formalization, Annotation and Analysis of Diverse Drug and Probe Screening Assay Datasets Using the BioAssay Ontology (BAO)

  • Uma D. Vempati,

    Affiliation: Center for Computational Science, University of Miami, Miami, Florida, United States of America

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  • Magdalena J. Przydzial,

    Affiliation: Center for Computational Science, University of Miami, Miami, Florida, United States of America

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  • Caty Chung,

    Affiliation: Center for Computational Science, University of Miami, Miami, Florida, United States of America

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  • Saminda Abeyruwan,

    Affiliation: Department of Computer Science, University of Miami, Miami, Florida, United States of America

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  • Ahsan Mir,

    Affiliation: Center for Computational Science, University of Miami, Miami, Florida, United States of America

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  • Kunie Sakurai,

    Affiliation: Center for Computational Science, University of Miami, Miami, Florida, United States of America

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  • Ubbo Visser,

    Affiliation: Department of Computer Science, University of Miami, Miami, Florida, United States of America

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  • Vance P. Lemmon,

    Affiliation: The Miami Project to Cure Paralysis, Department of Neurological Surgery, University of Miami, Miami, Florida, United States of America

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  • Stephan C. Schürer mail

    sschurer@med.miami.edu

    Affiliations: Center for Computational Science, University of Miami, Miami, Florida, United States of America, Department of Molecular and Cellular Pharmacology, University of Miami, Miami, Florida, United States of America

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  • Published: November 14, 2012
  • DOI: 10.1371/journal.pone.0049198

About the Authors

Uma D. Vempati, Magdalena J. Przydzial, Caty Chung, Ahsan Mir, Kunie Sakurai, Stephan C. Schürer
Center for Computational Science, University of Miami, Miami, Florida, United States of America
Saminda Abeyruwan, Ubbo Visser
Department of Computer Science, University of Miami, Miami, Florida, United States of America
Vance P. Lemmon
The Miami Project to Cure Paralysis, Department of Neurological Surgery, University of Miami, Miami, Florida, United States of America
Stephan C. Schürer
Department of Molecular and Cellular Pharmacology, University of Miami, Miami, Florida, United States of America

Corresponding Author

Email: sschurer@med.miami.edu

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceived and designed the experiments: SCS. Performed the experiments: UDV SCS VPL MP KS UV. Analyzed the data: SA CC SCS MP UDV. Contributed reagents/materials/analysis tools: SA UV CC. Wrote the paper: UDV SCS. Ontology conceptualization: UDV SCS VPL. Knowledge engineering and ontology formalization: SA UV. Assay annotation: UDV MP KS AM. Assay results and data processing: SA CC. Data analysis and visualization: SCS MP UDV CC. Web development: CC SA. Testing and QC: CC VPL MP KS UDV SCS.