| 2022 | AMIA | LocalVar: a local variant collection manager to asynchronously detect synonyms, HGVS expression changes, and variant interpretation changes from ClinVar. | Michael T. Watkins, Wendy Kohlmann, Therese Berry, Neetha Sama, Cathryn Koptiuch, Shawn Rynearson, Karen Eilbeck |
| 2020 | AMIA | Utilization of BPM+ Health for the Representation of Clinical Knowledge: A Framework for the Expression and Assessment of Clinical Practice Guidelines (CPG) Utilizing Existing and Emerging Object Management Group (OMG) Standards. | Robert F. Lario, Steve Hasely, Stephen White, Karen Eilbeck, Richard Soley, Stan Huff, Kensaku Kawamoto |
| 2019 | AMIA | Continuous Predictive Modelling for Sepsis, Organ Failure, and In-hospital Mortality in the Intensive Care Unit. | Amber Kiser, Devin Horton, Karen Eilbeck, Samir E. AbdelRahman |
| 2019 | AMIA | Implementing the VMC specification to reduce ambiguity in genomic variant representation. | Michael T. Watkins, Shawn Rynearson, Alex Henrie, Karen Eilbeck |
| 2014 | AMIA | Evaluation of need for ontologies to manage domain content for the Reportable Conditions Knowledge Management System. | Karen Eilbeck, Julie Lipstein, Sunanda R. McGarvey, Catherine J. Staes |
| 2014 | AMIA | Clinical Decision Support for Whole Genome Sequence Information Leveraging a Service-Oriented Architecture: a Prototype. | Brandon M. Welch, Salvador Loya, Karen Eilbeck, Kensaku Kawamoto |
| 2013 | AMIA | Using KaOS Ontologies to Model Policy Requirements for a Statewide Master Person Index. | Jeffrey Duncan, Karen Eilbeck, Catherine J. Staes, Scott P. Narus, Stephen Clyde |
| 2012 | ECCB | Using GVF for Clinical Annotation of Personal Genomes. | Barry Moore, Shawn Rynearson, Fiona Cunningham, Graham R. S. Ritchie, Karen Eilbeck |
| 2001 | BIBE | GIMS - A Data Warehouse for Storage and Analysis of Genome Sequence and Functional Data. | Mike Cornell, Norman W. Paton, Shengli Wu, Carole A. Goble, Crispin J. Miller, Paul Kirby, Karen Eilbeck, Andy Brass, Andrew Hayes, Stephen G. Oliver |
| 1999 | GD | Straight-Line Drawings of Protein Interactions. | Wojciech Basalaj, Karen Eilbeck |
| 1999 | ISMB | INTERACT: An Object Oriented Protein-Protein Interaction Database. | Karen Eilbeck, Andy Brass, Norman W. Paton, Charlie Hodgman |