Project Manager, Biocurator and Ontologist
skype ID: nicolevasilevsky
Project manager, Biocurator and Ontologist:
Nicole assists with project management of the major projects and activities of the Ontology Development Group, as well as participating in biocuration and ontology development. Her major duties include:
• Development of ontologies and best practices for representation and query of biomedical resources, model organisms and clinical specimens
• Content management and outreach for eagle-i Network
• Project management for the CTSAconnect project
• Biocuration for the Monarch Initiative and Resource Identification for Neuroscience Literature
PhD, Cell biology (2009) Oregon Health & Science University, Portland, OR
BA, Biology (2000) Reed College, Portland, OR
• Post-doctoral research fellow (2009-2010) Dr. Kate Morris, Cancer Research, Legacy Health Research, Portland, OR
• Graduate Research Assistant, (2003 – 2009) Dr. Andrew Weinberg, Earle A. Chiles Research Institute, Providence Portland Medical Center, Portland, OR
• Research Assistant (2001-2002) Dr. Mark Garzotto, VA Medical Center, Portland, OR
• Graduate Research Assistant (2001) Dr. Jan Gorter, Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, The Netherlands
• Undergraduate Research Assistant (1999-2000) Dr. Glen Kisby, Center for Research on Occupational and Environmental Toxicology, Oregon Health and Science University, Portland, OR
• Adjunct faculty (2011 – Present) Master of Science in Integrative Medicine Research program, National College of Natural Medicine, Portland, OR
• Part-time faculty (2009-2010) Bioscience Technology, Portland Community College, Portland, OR
Select Publications and Presentations
• Nicole Vasilevsky, Carlo Torniai, Melissa Haendel and Chris Shaffer (2012) The semantic web is changing research and library science. Presentation at the Oregon Library Association Meeting. April 27, 2012; Bend, OR.
• Nicole Vasilevsky, Tenille Johnson, Karen Corday, Carlo Torniai, Matthew Brush, Erik Segerdell, Melanie Wilson, Chris Shaffer, David Robinson and Melissa Haendel (2012) Research resources: curating the new eagle-i discovery system. Database Vol. 2012, bar067.
• Torniai, C, Brush, M, Vasilevsky, N, Segerdell, E, Wison, M, Johnson, T, Corday, K, Shaffer, C, and Haendel, M. (2011) Developing an application ontology for biomedical resource annotation and retrieval: Challenges and lessons learned. International Conference on Biomedical Ontology 2011; July 26–30, 2011; Buffalo, NY.
• Brush M, Vasilevsky N, Torniai C, Johnson T, Shaffer C, and Haendel M. (2011) Developing a Reagent Application Ontology within the OBO Foundry Framework. International Conference on Biomedical Ontology 2011; July 26–30, 2011; Buffalo, NY.
• Frost HR, Hadden L, Bourges-Waldegg D, MacFadden D, Haendel M, Torniai C, Vasilevsky N, Thompson P. (2011) Discovering biomedical research resources in text: an ontology-driven approach using curated data for incremental retraining. AMIA Summit on Translational Bioinformatics, San Francisco, CA.
• Vasilevsky NA, Ruby CE, Hurlin PJ, Weinberg AD. OX40 engagement stabilizes Mxd4 and Mnt protein levels in antigen-stimulated T cells leading to an increase in cell survival. Eur J Immunol. 2011 Apr; 41(4):1024-34. Eur J Immunol. 2011 Apr;41(4):1024-34.
• International Conference on Biomedical Ontology fellowship 2011
• International Society for Biocuration 2011-present
• Association of Biomolecular Resource Facilities 2011
• Portland Community College Bioscience Technology Advisory Board 2009-present
• Member, Oregon Bioscience Association 2008-present
• American Association of Cancer Research 2010
Outside of work:
When Nicole is not working, she can often be found out enjoying Portland’s city life, on her tandem bike with her husband or cuddling with her kitty, Sapphire.