Karen Eilbeck

According to our database, Karen Eilbeck authored at least 34 papers between 1999 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2023

A method for structuring complex clinical knowledge and its representational formalisms to support composite knowledge interoperability in healthcare.

Robert F. Lario, Kensaku Kawamoto, Davide Sottara, Karen Eilbeck, Stanley M. Huff, Guilherme Del Fiol, Richard Soley, Blackford Middleton

J. Biomed. Informatics, January, 2023

Proposing a Novel Hybrid Short-Term Exchange Program in Biomedical and Health Informatics Education.

Thomas Engelsma, Carolin Anders, Susan J. Oudbier, Karen Eilbeck, Petra Knaup, Linda W. Peute, Matthias Ganzinger

Proceedings of the Caring is Sharing - Exploiting the Value in Data for Health and Innovation - Proceedings of MIE 2023, Gothenburg, Sweden, 22, 2023

2022

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

Proceedings of the AMIA 2022, 2022

2020

Unification of miRNA and isomiR research: the mirGFF3 format and the mirtop API.

Thomas Desvignes, Phillipe Loher, Karen Eilbeck, Jeffery Ma, Gianvito Urgese, Bastian Fromm, Jason Sydes, Ernesto Aparicio-Puerta, Víctor Barrera, Roderic Espín, Florian Thibord, Xavier Bofill-De Ros, Eric Londin, Aristeidis G. Telonis, Elisa Ficarra, Marc R. Friedländer, John H. Postlethwait, Isidore Rigoutsos, Michael Hackenberg, Ioannis S. Vlachos, Marc K. Halushka, Lorena Pantano

Bioinform., 2020

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

Proceedings of the AMIA 2020, 2020

2019

Implementing the VMC specification to reduce ambiguity in genomic variant representation.

Michael T. Watkins, Shawn Rynearson, Alex Henrie, Karen Eilbeck

Proceedings of the AMIA 2019, 2019

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

Proceedings of the AMIA 2019, 2019

2018

The VAAST Variant Prioritizer (VVP): ultrafast, easy to use whole genome variant prioritization tool.

Steven Flygare, Edgar Javier Hernandez, Lon Phan, Barry Moore, Man Li, Anthony Fejes, Hao Hu, Karen Eilbeck, Chad D. Huff, Lynn Jorde, Martin G. Reese, Mark Yandell

BMC Bioinform., 2018

2017

Semantics-oriented data science and computational life sciences: Innovative application of semantic technologies in microRNA and lncRNA research.

Jingshan Huang, Dejing Dou, Ming Tan, Glen M. Borchert, Karen Eilbeck, Alan Ruttenberg, Ping Yang

Proceedings of the 7th IEEE International Conference on Computational Advances in Bio and Medical Sciences, 2017

2016

The genomic CDS sandbox: An assessment among domain experts.

Ayesha Aziz, Kensaku Kawamoto, Karen Eilbeck, Marc S. Williams, Robert R. Freimuth, Mark A. Hoffman, Luke V. Rasmussen, Casey Lynnette Overby, Brian H. Shirts, James M. Hoffman, Brandon M. Welch

J. Biomed. Informatics, 2016

The development of non-coding RNA ontology.

Jingshan Huang, Karen Eilbeck, Barry Smith, Judith A. Blake, Dejing Dou, Weili Huang, Darren A. Natale, Alan Ruttenberg, Jun Huan, Michael T. Zimmermann, Guoqian Jiang, Yu Lin, Bin Wu, Harrison J. Strachan, Nisansa de Silva, Mohan Vamsi Kasukurthi, Vikash Kumar Jha, Yongqun He, Shaojie Zhang, Xiaowei Wang, Zixing Liu, Glen M. Borchert, Ming Tan

Int. J. Data Min. Bioinform., 2016

OmniSearch: a semantic search system based on the Ontology for MIcroRNA Target (OMIT) for microRNA-target gene interaction data.

Jingshan Huang, Fernando Gutierrez, Harrison J. Strachan, Dejing Dou, Weili Huang, Barry Smith, Judith A. Blake, Karen Eilbeck, Darren A. Natale, Yu Lin, Bin Wu, Nisansa de Silva, Xiaowei Wang, Zixing Liu, Glen M. Borchert, Ming Tan, Alan Ruttenberg

J. Biomed. Semant., 2016

The Non-Coding RNA Ontology (NCRO): a comprehensive resource for the unification of non-coding RNA biology.

Jingshan Huang, Karen Eilbeck, Barry Smith, Judith A. Blake, Dejing Dou, Weili Huang, Darren A. Natale, Alan Ruttenberg, Jun Huan, Michael T. Zimmermann, Guoqian Jiang, Yu Lin, Bin Wu, Harrison J. Strachan, Yongqun He, Shaojie Zhang, Xiaowei Wang, Zixing Liu, Glen M. Borchert, Ming Tan

J. Biomed. Semant., 2016

2015

Birth of identity: understanding changes to birth certificates and their value for identity resolution.

Jeffrey Duncan, Scott P. Narus, Stephen Clyde, Karen Eilbeck, Sidney N. Thornton, Catherine J. Staes

J. Am. Medical Informatics Assoc., 2015

Improving the Sequence Ontology terminology for genomic variant annotation.

Fiona Cunningham, Barry Moore, Nicole Ruiz-Schultz, Graham R. S. Ritchie, Karen Eilbeck

J. Biomed. Semant., 2015

A semantic approach for knowledge capture of MIcroRNA-Target gene interactions.

Jingshan Huang, Fernando Gutierrez, Dejing Dou, Judith A. Blake, Karen Eilbeck, Darren A. Natale, Barry Smith, Yu Lin, Xiaowei Wang, Zixing Liu, Ming Tan, Alan Ruttenberg

Proceedings of the 2015 IEEE International Conference on Bioinformatics and Biomedicine, 2015

A domain ontology for the Non-Coding RNA field.

Jingshan Huang, Karen Eilbeck, Judith A. Blake, Dejing Dou, Darren A. Natale, Alan Ruttenberg, Barry Smith, Michael T. Zimmermann, Guoqian Jiang, Yu Lin, Bin Wu, Yongqun He, Shaojie Zhang, Xiaowei Wang, He Zhang, Zixing Liu, Ming Tan

Proceedings of the 2015 IEEE International Conference on Bioinformatics and Biomedicine, 2015

2014

Technical desiderata for the integration of genomic data with clinical decision support.

Brandon M. Welch, Karen Eilbeck, Guilherme Del Fiol, Laurence J. Meyer, Kensaku Kawamoto

J. Biomed. Informatics, 2014

Clinical Decision Support for Whole Genome Sequence Information Leveraging a Service-Oriented Architecture: a Prototype.

Brandon M. Welch, Salvador Loya, Karen Eilbeck, Kensaku Kawamoto

Proceedings of the AMIA 2014, 2014

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

Proceedings of the AMIA 2014, 2014

2013

Exploring the use of ontologies and automated reasoning to manage selection of reportable condition lab tests from LOINC.

Karen Eilbeck, Jason R. Jacobs, Sunanda R. McGarvey, Cynthia Vinion, Catherine J. Staes

Proceedings of the 4th International Conference on Biomedical Ontology, 2013

Optimize Querying of LOINC® with an Ontology: Give Me the Chlamydia Tests the Epidemiologists Want Me to Use!

Karen Eilbeck, Jason R. Jacobs, Catherine J. Staes

Proceedings of the 46th Hawaii International Conference on System Sciences, 2013

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

Proceedings of the AMIA 2013, 2013

2012

Efforts toward a More Consistent and Interoperable Sequence Ontology.

Michael Bada, Karen Eilbeck

Proceedings of the 3rd International Conference on Biomedical Ontology (ICBO 2012), 2012

Using GVF for Clinical Annotation of Personal Genomes.

Barry Moore, Shawn Rynearson, Fiona Cunningham, Graham R. S. Ritchie, Karen Eilbeck

Proceedings of the Workshop on Annotation, 2012

2011

Evolution of the Sequence Ontology terms and relationships.

Christopher J. Mungall, Colin R. Batchelor, Karen Eilbeck

J. Biomed. Informatics, 2011

The RNA Ontology (RNAO): An ontology for integrating RNA sequence and structure data.

Robert Hoehndorf, Colin R. Batchelor, Thomas Bittner, Michel Dumontier, Karen Eilbeck, Rob Knight, Chris Mungall, Jane S. Richardson, Jesse Stombaugh, Eric Westhof, Craig L. Zirbel, Neocles Leontis

Appl. Ontology, 2011

2010

SOBA: sequence ontology bioinformatics analysis.

Barry Moore, Guozhen Fan, Karen Eilbeck

Nucleic Acids Res., 2010

2009

Quantitative measures for the management and comparison of annotated genomes.

Karen Eilbeck, Barry Moore, Carson Holt, Mark Yandell

BMC Bioinform., 2009

2008

The Protein Feature Ontology: a tool for the unification of protein feature annotations.

Gabrielle A. Reeves, Karen Eilbeck, Michele Magrane, Claire O'Donovan, Luisa Montecchi-Palazzi, Midori A. Harris, Sandra E. Orchard, Rafael C. Jiménez, Andreas Prlic, Tim J. P. Hubbard, Henning Hermjakob, Janet M. Thornton

Bioinform., 2008

2001

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

Proceedings of the 2nd IEEE International Symposium on Bioinformatics and Bioengineering, 2001

2000

Conceptual modelling of genomic information.

Norman W. Paton, Shakeel A. Khan, Andrew Hayes, Fouzia Moussouni, Andy Brass, Karen Eilbeck, Carole A. Goble, Simon J. Hubbard, Stephen G. Oliver

Bioinform., 2000

1999

INTERACT: An Object Oriented Protein-Protein Interaction Database.

Karen Eilbeck, Andy Brass, Norman W. Paton, Charlie Hodgman

Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology, 1999

Straight-Line Drawings of Protein Interactions.

Wojciech Basalaj, Karen Eilbeck

Proceedings of the Graph Drawing, 7th International Symposium, 1999