Karen Eilbeck

Publication Activity (10 Years)

Years Active: 1999-2024
Publications (10 Years): 18

Top Topics

Gene Interactions

Clinical Decision Support

Semantic Search

Object Management

Top Venues

J. Biomed. Semant.

J. Biomed. Informatics

Publications

Robert F. Lario, Richard Soley, Stephen White, John Butler, Guilherme Del Fiol, Karen Eilbeck, Stanley M. Huff, Kensaku Kawamoto
The Business Process Management for Healthcare (BPM+ Health) Consortium: motivation, methodology, and deliverables for enabling clinical knowledge interoperability (CKI). J. Am. Medical Informatics Assoc. 31 (4) (2024)
Robert F. Lario, Kensaku Kawamoto, Davide Sottara, Karen Eilbeck, Stanley M. Huff, Guilherme Del Fiol, Richard Soley, Blackford Middleton
A method for structuring complex clinical knowledge and its representational formalisms to support composite knowledge interoperability in healthcare. J. Biomed. Informatics 137 (2023)
Thomas Engelsma, Carolin Anders, Susan J. Oudbier, Karen Eilbeck, Petra Knaup, Linda W. Peute, Matthias Ganzinger
Proposing a Novel Hybrid Short-Term Exchange Program in Biomedical and Health Informatics Education. MIE (2023)
Michael T. Watkins, Wendy Kohlmann, Therese Berry, Neetha Sama, Cathryn Koptiuch, Shawn Rynearson, Karen Eilbeck
LocalVar: a local variant collection manager to asynchronously detect synonyms, HGVS expression changes, and variant interpretation changes from ClinVar. AMIA (2022)
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
Unification of miRNA and isomiR research: the mirGFF3 format and the mirtop API. Bioinform. 36 (3) (2020)
Robert F. Lario, Steve Hasely, Stephen White, Karen Eilbeck, Richard Soley, Stan Huff, Kensaku Kawamoto
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. AMIA (2020)
Michael T. Watkins, Shawn Rynearson, Alex Henrie, Karen Eilbeck
Implementing the VMC specification to reduce ambiguity in genomic variant representation. AMIA (2019)
Amber Kiser, Devin Horton, Karen Eilbeck, Samir E. AbdelRahman
Continuous Predictive Modelling for Sepsis, Organ Failure, and In-hospital Mortality in the Intensive Care Unit. AMIA (2019)
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
The VAAST Variant Prioritizer (VVP): ultrafast, easy to use whole genome variant prioritization tool. BMC Bioinform. 19 (1) (2018)
Jingshan Huang, Dejing Dou, Ming Tan, Glen M. Borchert, Karen Eilbeck, Alan Ruttenberg, Ping Yang
Semantics-oriented data science and computational life sciences: Innovative application of semantic technologies in microRNA and lncRNA research. ICCABS (2017)
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
The genomic CDS sandbox: An assessment among domain experts. J. Biomed. Informatics 60 (2016)
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
The development of non-coding RNA ontology. Int. J. Data Min. Bioinform. 15 (3) (2016)
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
The Non-Coding RNA Ontology (NCRO): a comprehensive resource for the unification of non-coding RNA biology. J. Biomed. Semant. 7 (2016)
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
OmniSearch: a semantic search system based on the Ontology for MIcroRNA Target (OMIT) for microRNA-target gene interaction data. J. Biomed. Semant. 7 (2016)
Jeffrey Duncan, Scott P. Narus, Stephen Clyde, Karen Eilbeck, Sidney N. Thornton, Catherine J. Staes
Birth of identity: understanding changes to birth certificates and their value for identity resolution. J. Am. Medical Informatics Assoc. 22 (e1) (2015)
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
A domain ontology for the Non-Coding RNA field. BIBM (2015)
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
A semantic approach for knowledge capture of MIcroRNA-Target gene interactions. BIBM (2015)
Fiona Cunningham, Barry Moore, Nicole Ruiz-Schultz, Graham R. S. Ritchie, Karen Eilbeck
Improving the Sequence Ontology terminology for genomic variant annotation. J. Biomed. Semant. 6 (2015)
Karen Eilbeck, Julie Lipstein, Sunanda R. McGarvey, Catherine J. Staes
Evaluation of need for ontologies to manage domain content for the Reportable Conditions Knowledge Management System. AMIA (2014)
Brandon M. Welch, Salvador Loya, Karen Eilbeck, Kensaku Kawamoto
Clinical Decision Support for Whole Genome Sequence Information Leveraging a Service-Oriented Architecture: a Prototype. AMIA (2014)
Brandon M. Welch, Karen Eilbeck, Guilherme Del Fiol, Laurence J. Meyer, Kensaku Kawamoto
Technical desiderata for the integration of genomic data with clinical decision support. J. Biomed. Informatics 51 (2014)
Karen Eilbeck, Jason R. Jacobs, Catherine J. Staes
Optimize Querying of LOINC® with an Ontology: Give Me the Chlamydia Tests the Epidemiologists Want Me to Use! HICSS (2013)
Jeffrey Duncan, Karen Eilbeck, Catherine J. Staes, Scott P. Narus, Stephen Clyde
Using KaOS Ontologies to Model Policy Requirements for a Statewide Master Person Index. AMIA (2013)
Karen Eilbeck, Jason R. Jacobs, Sunanda R. McGarvey, Cynthia Vinion, Catherine J. Staes
Exploring the use of ontologies and automated reasoning to manage selection of reportable condition lab tests from LOINC. ICBO (2013)
Michael Bada, Karen Eilbeck
Efforts toward a More Consistent and Interoperable Sequence Ontology. ICBO (2012)
Barry Moore, Shawn Rynearson, Fiona Cunningham, Graham R. S. Ritchie, Karen Eilbeck
Using GVF for Clinical Annotation of Personal Genomes. AIMM (2012)
Christopher J. Mungall, Colin R. Batchelor, Karen Eilbeck
Evolution of the Sequence Ontology terms and relationships. J. Biomed. Informatics 44 (1) (2011)
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
The RNA Ontology (RNAO): An ontology for integrating RNA sequence and structure data. Appl. Ontology 6 (1) (2011)
Barry Moore, Guozhen Fan, Karen Eilbeck
SOBA: sequence ontology bioinformatics analysis. Nucleic Acids Res. 38 (Web-Server-Issue) (2010)
Karen Eilbeck, Barry Moore, Carson Holt, Mark Yandell
Quantitative measures for the management and comparison of annotated genomes. BMC Bioinform. 10 (2009)
Gabrielle A. Reeves, Karen Eilbeck, Michele Magrane, Claire O'Donovan, Luisa Montecchi-Palazzi, Midori A. Harris, Sandra E. Orchard, Rafael C. Jimenez, Andreas Prlic, Tim J. P. Hubbard, Henning Hermjakob, Janet M. Thornton
The Protein Feature Ontology: a tool for the unification of protein feature annotations. Bioinform. 24 (23) (2008)
Mike Cornell, Norman W. Paton, Shengli Wu, Carole A. Goble, Crispin J. Miller, Paul Kirby, Karen Eilbeck, Andy Brass, Andrew Hayes, Stephen G. Oliver
GIMS - A Data Warehouse for Storage and Analysis of Genome Sequence and Functional Data. BIBE (2001)
Norman W. Paton, Shakeel A. Khan, Andrew Hayes, Fouzia Moussouni, Andy Brass, Karen Eilbeck, Carole A. Goble, Simon J. Hubbard, Stephen G. Oliver
Conceptual modelling of genomic information. Bioinform. 16 (6) (2000)
Karen Eilbeck, Andy Brass, Norman W. Paton, Charlie Hodgman
INTERACT: An Object Oriented Protein-Protein Interaction Database. ISMB (1999)
Wojciech Basalaj, Karen Eilbeck
Straight-Line Drawings of Protein Interactions. Graph Drawing (1999)