Select Presentations

Semantic Phenotyping of Diseases

From Model Mechanism to Precision Medicine: an Open Science Integrated Genotype-Phenotype Platform. Nicole Vasilevsky, Nicole Washington, Chuck Borromeo, Matthew Brush, et al. Poster presentation at NIH BD2K all-hands meeting, Bethesda, MD. November 12, 2015.

An open science integrated geneotype-phenotype platform for disease and model organism discovery. Melissa Haendel. American Society for Human Genetics Meeting, October 10, 2015.

How can an interactive visual analytics tool help biomedical scientists investigate genotype-phenotype relationships? Erik Segerdell. OHSU Thesis defense, October 1, 2015.

Integrating clinical and model organism genotype-phenotype data for improved disease discovery. Haendel MA. ClinGen/DECIPHER meeting, Washington DC, May 28, 2015.

The Monarch Initiative: Semantic Phenotyping for Disease Diagnosis and Discovery. Nicole Vasilevsky, Mark Engelstad, Melissa Haendel. Poster presentation at the Rare Disease Symposium at Oregon Health & Science University in Portland, Oregon, April 07, 2015.

Semantic Phenotyping for Disease Diagnosis and Discovery. Haendel M. CBITT Speaker Series. January 21, 2015.

The Application of the Human Phenotype Ontology. Haendel M. Il International Summer School. Rare Disease and Orphan Drug Registries. Rome, Italy. September 19, 2014.

Expanding the Clinical Phenotype Space with Semantics and Model Systems. Haendel M. Updates in Clinical Genetics, Vancouver, BC, Canada, March 2014.

Data Science Training

Data Science Education Resources For Everyone. Vasilevsky N, Wirz, J, Pederson B, Laderas T, McWeeney S, Hersh W, Dorr D and Haendel M. Medical Library Association Pacific Northwest Chapter Meeting. Portland, OR. October 2016.

Couture Curricula - BD2K Data Science Tailored to Your Needs. William Hersh, David A. Dorr, Melissa Haendel, Nicole Vasilevsky, Bjorn Pederson, Jackie Wirz, Shannon McWeeney. Force2016 conference, Portland, OR, April 2016. FigShare,

Open Educational Resources for Big Data Science. William Hersh, Shannon McWeeny, Melissa Haendel, Nicole Vasilevsky, Bjorn Pederson. Poster presentation at Big Data to Knowledge (BD2K) All Hands Meeting, Bethesda, MD. November 12-13, 2015.

Representing Researcher Expertise

Measuring Success Through Improved Attribution. Melissa Haendel, Stacy Konkiel, Karen Gunzman, and Kristi Holmes. VIVO 2015, August 14, 2015.

Panel: Our Scholarly Recognition System Doesn't Still Work. Robin Champieux, Holly Falk-Krzesinksi, Daniel Katz, Philippa Saunders. Science of Team Science Conference, 2015.

Enabling transparency and efficiency in the research landscape. Haendel M. NISO Virtual Conference. Feburary 2015.

Integrated Semantic Framework: launching the next generation VIVO ontology.E Bremer, J Corson-Rikert, M Haendel, J Hajagos, B Lowe. VIVO conference St Louis, MO. August 2013.

The CTSAconnect project and social entities. Essaid S. The University at Buffalo Graduate Seminar: Problems in Ontology. November 2012.

ShareCenter: Integrating VIVO with a Drupal-based platform that facilitates organic sharing across boundaries. Chris Kelleher, Will Corbett, Erich Bremer, Melissa Haendel.VIVO conference, Miami, FL. 2012.

From billing codes to expertise: mining, representing and sharing clinical research profiles in the Linked Open Data Cloud. Carlo Torniai, Shahim Essaid, Chris Barnes, Stephen Williams, Janos Hajagos Nicole Vasilevsky, Melissa Haendel. VIVO conference, Miami, FL., 2012.

CTSAconnect. Melissa Haendel et al. NCBO conference. Baltimore, MD. 2012.

Data Management, Data Standards and Altmetrics

Roles for Libraries in Providing Research Data Management Services. Nicole Vasilevsky, Victoria Mitchell and Jeremy Kenyon. ACRL conference, Portland, OR, March 28, 2015.

Tales From the Crypt: Do you know were your data’s been? Haendel M. Rocky Mountain Bioinformatics Conference. Aspen, CO, December 2013.

Data Management 101. Vasilevsky N, Wirz J and Haendel M. OHSU PMCB Retreat, Portland, OR. September 2013.

Improving Research Resource Identification

Creating Sustainable Communities in Open Data Resources: The eagle-i and VIVO Semantic Data Tools in Action. Robert McDonald and Nicole Vasilevsky. ACRL conference, Portland, OR, March 28, 2015.

The Role of Libraries in Data Management and Curation. Vasilevsky N. American Library Association, Las Vegas, NV, June 2014.

The Resource Identification Initiative: What are we curating anyway? Haendel M. International Society for Biocuration, Toronto, Canada, April 2014.

Levering Ontologies for research reproducibility, resource sharing, and researcher networking.Carlo Torniai and Melissa Haendel. AMIA TBI, San Francisco, CA. 2013.

The eagle-i Network: enabling research resource discovery Haendel MA. e-Science Institute. University of Utah, Salt Lake City, UT. March 2013.

On the Reproducibility of Science. Haendel MA.  Beyond the PDF, Amsterdam, NL. March 2013.

Connecting researchers and research resources using eagle-i and other networking tools Haendel MA. Western Association of Core Directors meeting in Portland, OR. November 2012.

Research resources: curating the new eagle-i discovery system Nicole Vasilevsky, et al. International Society for Biocuration conference. Washington, DC. 2012.

eagle-i: An Ontology-Driven Framework For Biomedical Resource Curation And Discovery CE Segerdell, ML Wilson, T Bashor, D Bourges-Waldegg, K Corday, HR Frost, et al. Nature Publishing Group 2010.

Biomedical Ontologies and Bioinformatics

Updating and Extending the Concept Annotations of the CRAFT corpus. Nicole Vasilevsky, Michael Bada, Melissa Haendel, and Lawrence Hunter. Biocuration 2016, Geneva, Switzerland. April 2016.

Developing an application ontology for biomedical resource annotation and retrieval: challenges and lessons learned.CTSA Social Network Analysis Workshop. UC Davis, Davis, CA. 2012.

Modularization for the Cell Ontology.CJ Mungall, M Haendel, A Ireland, S Manzoor, T Meehan, D Osumi-Sutherland, C Torniai, A Diehl. ICBO, Buffalo, NY. 2011.