Nicole’s research focuses on development and application of semantic technologies to facilitate new knowledge discovery and promote scientific reproducibility. She develops biomedical ontologies and data standards for phenotypes, diseases and other biomedical domains with the goal of improving disease diagnostics and health outcomes. Given the international focus of this work, she has extensive expertise in working collaboratively on dynamic and dispersed teams and have contributed to a number of consortia and projects. Other areas of her work include developing methods and best practices with respect to data integration and data quality. She has made significant contributions to science in the area of scientific reproducibility including demonstrating a lack of uniquely identifying information in methods sections in publications as well as an evaluation of current journal data sharing policies. With regard to clinical and translational impact, she has contributed to layperson accessible phenotyping standards and clinical phenotyping and disease diagnosis through her work on the Monarch Initiative.
- BA, Biology, Reed College, Portland Oregon, 2000.
- PhD, Cell Biology, Oregon Health & Science University, Portland Oregon, 2009.
- Monarch Initiative
- Gabriella Miller Kids First Data Resource Portal
- Annotating LOINC codes for CD2H
- Architecting Attribution
- INCLUDE Data Coordinating Center
- CRAFT corpus
- Center for Cancer Data Harmonization
- Mondo Disease Ontology
- Human Phenotype Ontology
- Cell Ontology
- Envioronmental Exposure Ontology
- Medical Action Ontology (MAxO)
- Contributor Role Ontology
- Uberon Anatomy Ontology
Education and Teaching
- OBO Semantic Engineering Training
- OHSU Library Data Science Institute
- BD2K Open Educational Resources for Data Science
- BD2K Data Science skills courses
- Ontologies 101: Slides and Protege tutorial
Department of Biomedical Informatics