As part of the Translational and Integrative Sciences Lab, my research focuses on development and use of semantic technologies to facilitate new knowledge discovery and promote scientific reproducibility. My expertise is in biocuration, and the development of biomedical ontologies and data standards for phenotypes, diseases and other biomedical domains with the goal of improving disease diagnostics and health outcomes. Additionally, I am active in educational efforts in data management best practices and data science.
- Monarch Inititative: a system that allows for cross-species disease discovery
- Gabriella Miller Kids First Data Resource: a data resource portal containing data about pediatric cancers and structural abnormalities
- CRAFT corpus: The Colorado Richly Annotated Full Text Corpus (CRAFT) is a manually annotated corpus consisting of 67 full-text biomedical journal articles.
- Center for Cancer Data Harmonization: The CCDH will work with the National Cancer Institute Cancer Research Data Commons to make cancer research data more useful and accessible.
- Monarch Disease Ontology (Mondo)
- Human Phenotype Ontology
- Cell Ontology
- Phenotype and Trait Ontology
- Envioronmental Exposure Ontology
- Unified Phenotype Ontology (uPheno)
- Contributor Role Ontology
Education and Teaching
- Ontologies 101 (see Workshops page)
- OHSU Library Data Science Institute
- BD2K Open Educational Resources for Data Science
- BD2K Data Science skills courses