Nicole A. Vasilevsky bio photo

Nicole A. Vasilevsky

Research Assistant Professor, Oregon Health & Science University

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Currently

Research Assistant Professor, Department of Medical Informatics and Clinical Epidemiology

Biocurator and Ontologist, Translational and Integrative Sciences Lab
Oregon Clinical & Translational Research Institute
Oregon Health & Science University
3181 SW Sam Jackson Park Road SN4N
Portland, OR 97239
vasilevs@ohsu.edu

Education

1996 - 2000 Reed College, Portland, OR, USA BA, Biology

2002 - 2009 Oregon Health & Science University, Portland, OR, USA PhD, Cell Biology

Professional Experience

Current Research Assistant Professor, Oregon Health & Science University

  • Biocurator
  • Biomedical ontologist

Current Assistant Professor, National University of Natural Medicine

  • Member, Institional Review Board

2009-2010 Post-doctoral Research Fellow, Legacy Health Research

  • Research on angiogenesis in murine cancer model
  • Investigation of novel biomarkers in human breast cancer specimens

2009-2010 Part-time Faculty, Portland Community College, Bioscience Technology

  • Instructor, Introduction to Bioscience Technology (BIT 101)

Select Publications

For a complete list, see Publications tab

  • Sebastian Köhler, Leigh Carmody, Nicole Vasilevsky, et al. Expansion of the Human Phenotype Ontology (HPO) knowledge base and resources. 22 November 2018. Nucleic Acids Research, gky1105, https://doi.org/10.1093/nar/gky1105
  • Nicole A. Vasilevsky, et al. Plain-language medical vocabulary for precision diagnosis. Nature Genetics 50, 474–476 (2018). (Preprint available at: http://doi.org/10.5281/zenodo.1168737)
  • Nicole A. Vasilevsky, Matthew H. Brush, Holly Paddock, Laura Ponting, Shreejoy J. Tripathy, Gregory M. LaRocca, Melissa A. Haendel (2013) On the reproducibility of science: Unique Identification of Research Resources in the Biomedical Literature. PeerJ. https://peerj.com/articles/148/

Select Presentations

For a complete list, see Presentations tab

  • LOINC2HPO: Improving Translational Informatics by Standardizing EHR Phenotypic Data Using the Human Phenotype Ontology. Keynote address at Rocky Bioinformatics 2018, Snowmass, CO, December 07, 2018.
  • The Human Phenotype Ontology. Invited talk at the Sickle Cell Disease Ontology Workshop, Cape Town, South Africa, June 04, 2018.
  • A comprehensive disease ontology for human disease curation. Presentation at Biocuration 2018 conference, Shanghai, China, April 10, 2018.

Teaching

See Teaching tab

Service

Professional Societies:

2011-present International Society for Biocuration
2008-present Oregon Bioscience Association
2011 Association of Biomolecular Resource Facilities
2010 American Association of Cancer Research

Ad hoc Reviewer:

  • Alternative Therapies in Health and Medicine
  • BMC Medical Informatics and Decision Making
  • BMJ
  • Database
  • Diagnostics
  • eLife
  • International Journal of Molecular Sciences
  • Journal of Clinical Epidemiology
  • Mammalian Genome
  • Methods of Information in Medicine
  • Nutrients
  • PeerJ
  • PLoS One
  • Science and Engineering Ethics
  • Abstract review for AMIA conference
  • NNLM Pacific Northwest Region (PNR) funding proposal review

Committees:

International/National

2019- 2020 Scientific Committee, Biocuration 2020 conference
2018- present Semantic Architecture Advisory Committee, National Cancer Institute
2017-present International Society for Biocuration, Executive Committee (Three year elected position)
2017-present International Society for Biocuration, Executive Committee Secretary
2017-present International Society for Biocuration Awards Committee, Chair
2018 Co-Chair, Galaxy Community Conference
2017 Planning committee, Galaxy Community Conference
2016-2018 Program committee, International Conference on Biomedical Ontology
2017 Outreach Committee Co-chair, Force2017
2017-2018 Force11 Scholarly Communications Institute, Committee
2015-2016 Program Co-Chair, Force2016 Conference
2015-2016 NISO Bibliographic Roadmap
2014-2015 Logistics Committee, Force2015 Conference

Regional

2017-present Institutional Review Board committee, National University of Natural Medicine

Departmental

2016-2018 Staff Development Committee, Oregon Health & Science University Library
2015-2016 Web Redesign Committee, Oregon Health & Science University Library
2014 Discovery Team, Oregon Health & Science University Library
2013-2014 Research Data Stewardship Committee, Oregon Health & Science University Library
2012-2013 Library Communications Committee, Oregon Health & Science University Library

Community Service:

2013-2014 Chair, Overlook Neighborhood Association Board
2011- 2012 Volunteer, Event planning committee, Open Meadow
2009-2011 Board member, Portland Community College Bioscience Technology Advisory Board
2008-2010 Volunteer, Oregon Bioscience Association