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An explainable artificial intelligence approach for predicting cardiovascular outcomes using electronic health records.
Published in:
PLoS Digital Health, 2022, v. 1, n. 1, p. 1, doi. 10.1371/journal.pdig.0000004
By:
- Wesołowski, Sergiusz;
- Lemmon, Gordon;
- Hernandez, Edgar J.;
- Henrie, Alex;
- Miller, Thomas A.;
- Weyhrauch, Derek;
- Puchalski, Michael D.;
- Bray, Bruce E.;
- Shah, Rashmee U.;
- Deshmukh, Vikrant G.;
- Delaney, Rebecca;
- Yost, H. Joseph;
- Eilbeck, Karen;
- Tristani-Firouzi, Martin;
- Yandell, Mark
Publication type:
Article
A Proposed Clinical Decision Support Architecture Capable of Supporting Whole Genome Sequence Information.
Published in:
Journal of Personalized Medicine, 2014, v. 4, n. 2, p. 176, doi. 10.3390/jpm4020176
By:
- Welch, Brandon M.;
- Rodriguez Loya, Salvador;
- Eilbeck, Karen;
- Kensaku Kawamoto
Publication type:
Article
SOBA: sequence ontology bioinformatics analysis.
Published in:
Nucleic Acids Research, 2010, v. 38, n. suppl_2, p. W161, doi. 10.1093/nar/gkq426
By:
- Moore, Barry;
- Fan, Guozhen;
- Eilbeck, Karen
Publication type:
Article
An artificial intelligence approach for investigating multifactorial pain-related features of endometriosis.
Published in:
PLoS ONE, 2024, v. 19, n. 2, p. 1, doi. 10.1371/journal.pone.0297998
By:
- Kiser, Amber C.;
- Schliep, Karen C.;
- Hernandez, Edgar Javier;
- Peterson, C. Matthew;
- Yandell, Mark;
- Eilbeck, Karen
Publication type:
Article
The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration.
Published in:
Nature Biotechnology, 2007, v. 25, n. 11, p. 1251, doi. 10.1038/nbt1346
By:
- Smith, Barry;
- Ashburner, Michael;
- Rosse, Cornelius;
- Bard, Jonathan;
- Bug, William;
- Ceusters, Werner;
- Goldberg, Louis J.;
- Eilbeck, Karen;
- Ireland, Amelia;
- Mungall, Christopher J.;
- Leontis, Neocles;
- Rocca-Serra, Philippe;
- Ruttenberg, Alan;
- Sansone, Susanna-Assunta;
- Scheuermann, Richard H.;
- Nigam Shah;
- Whetzel, Patricia L.;
- Lewis, Suzanna
Publication type:
Article
The Non-Coding RNA Ontology (NCRO): a comprehensive resource for the unification of non-coding RNA biology.
Published in:
Journal of Biomedical Semantics, 2016, v. 7, p. 1, doi. 10.1186/s13326-016-0066-0
By:
- Jingshan Huang;
- Eilbeck, Karen;
- Smith, Barry;
- Blake, Judith A.;
- Dejing Dou;
- Weili Huang;
- Natale, Darren A.;
- Ruttenberg, Alan;
- Jun Huan;
- Zimmermann, Michael T.;
- Guoqian Jiang;
- Yu Lin;
- Bin Wu;
- Strachan, Harrison J.;
- Yongqun He;
- Shaojie Zhang;
- Xiaowei Wang;
- Zixing Liu;
- Borchert, Glen M.;
- Ming Tan
Publication type:
Article
OmniSearch: a semantic search system based on the Ontology for MIcroRNA Target (OMIT) for microRNA-target gene interaction data.
Published in:
Journal of Biomedical Semantics, 2016, v. 7, p. 1, doi. 10.1186/s13326-016-0064-2
By:
- Jingshan Huang;
- Gutierrez, Fernando;
- Strachan, Harrison J.;
- Dejing Dou;
- Weili Huang;
- Smith, Barry;
- Blake, Judith A.;
- Eilbeck, Karen;
- Natale, Darren A.;
- Yu Lin;
- Bin Wu;
- de Silva, Nisansa;
- Xiaowei Wang;
- Zixing Liu;
- Borchert, Glen M.;
- Ming Tan;
- Ruttenberg, Alan
Publication type:
Article
Improving the Sequence Ontology terminology for genomic variant annotation.
Published in:
Journal of Biomedical Semantics, 2015, v. 6, n. 1, p. 1, doi. 10.1186/s13326-015-0030-4
By:
- Cunningham, Fiona;
- Moore, Barry;
- Ruiz-Schultz, Nicole;
- Ritchie, Graham R. S.;
- Eilbeck, Karen
Publication type:
Article
OMIT: Dynamic, Semi-Automated Ontology Development for the microRNA Domain.
Published in:
PLoS ONE, 2014, v. 9, n. 7, p. 1, doi. 10.1371/journal.pone.0100855
By:
- Huang, Jingshan;
- Dang, Jiangbo;
- Borchert, Glen M.;
- Eilbeck, Karen;
- Zhang, He;
- Xiong, Min;
- Jiang, Weijian;
- Wu, Hao;
- Blake, Judith A.;
- Natale, Darren A.;
- Tan, Ming
Publication type:
Article
Standard Vocabularies to Improve Machine Learning Model Transferability With Electronic Health Record Data: Retrospective Cohort Study Using Health Care--Associated Infection.
Published in:
JMIR Medical Informatics, 2022, v. 10, n. 8, p. 1, doi. 10.2196/39057
By:
- Kiser, Amber C.;
- Eilbeck, Karen;
- Ferraro, Jeffrey P.;
- Skarda, David E.;
- Samore, Matthew H.;
- Bucher, Brian
Publication type:
Article
4549 Reproducible Informatics for Reproducible Translational Research.
Published in:
2020
By:
- Gouripeddi, Ram;
- Sward, Katherine;
- Cummins, Mollie;
- Eilbeck, Karen;
- LaSalle, Bernie;
- Facelli, Julio C.
Publication type:
Abstract
3339 Development of a Competency-based Informatics Course for Translational Researchers.
Published in:
2019
By:
- Gouripeddi, Ram;
- Groat, Danielle;
- Abdelrahman, Samir E.;
- Cheatham, Tom;
- Cummins, Mollie;
- Eilbeck, Karen;
- LaSalle, Bernie;
- Sward, Katherine;
- Facelli, Julio C.
Publication type:
Abstract
3399 Systematically Integrating Microbiomes and Exposomes for Translational Research.
Published in:
2019
By:
- Gouripeddi, Ram;
- Miller, Andrew;
- Eilbeck, Karen;
- Sward, Katherine;
- Facelli, Julio C.
Publication type:
Abstract
Pain points in parents' interactions with newborn screening systems: a qualitative study.
Published in:
2022
By:
- Conway, Mike;
- Vuong, Truc Thuy;
- Hart, Kim;
- Rohrwasser, Andreas;
- Eilbeck, Karen
Publication type:
journal article
Quantitative measures for the management and comparison of annotated genomes.
Published in:
BMC Bioinformatics, 2009, v. 10, p. 1, doi. 10.1186/1471-2105-10-67
By:
- Eilbeck, Karen;
- Moore, Barry;
- Holt, Carson;
- Yandell, Mark
Publication type:
Article
The Business Process Management for Healthcare (BPM+ Health) Consortium: motivation, methodology, and deliverables for enabling clinical knowledge interoperability (CKI).
Published in:
Journal of the American Medical Informatics Association, 2024, v. 31, n. 4, p. 797, doi. 10.1093/jamia/ocad242
By:
- Lario, Robert;
- Soley, Richard;
- White, Stephen;
- Butler, John;
- Fiol, Guilherme Del;
- Eilbeck, Karen;
- Huff, Stanley;
- Kawamoto, Kensaku
Publication type:
Article
Birth of identity: understanding changes to birth certificates and their value for identity resolution.
Published in:
Journal of the American Medical Informatics Association, 2015, v. 22, n. e1, p. e120, doi. 10.1136/amiajnl-2014-002774
By:
- Duncan, Jeffrey;
- Narus, Scott P.;
- Clyde, Stephen;
- Eilbeck, Karen;
- Thornton, Sidney;
- Staes, Catherine
Publication type:
Article
Taxonomer: an interactive metagenomics analysis portal for universal pathogen detection and host mRNA expression profiling.
Published in:
Genome Biology, 2016, v. 17, p. 1, doi. 10.1186/s13059-016-0969-1
By:
- Flygare, Steven;
- Simmon, Keith;
- Miller, Chase;
- Yi Qiao;
- Kennedy, Brett;
- Sera, Tonya Di;
- Graf, Erin H.;
- Tardif, Keith D.;
- Kapusta, Aurélie;
- Rynearson, Shawn;
- Stockmann, Chris;
- Queen, Krista;
- Suxiang Tong;
- Voelkerding, Karl V.;
- Blaschke, Anne;
- Byington, Carrie L.;
- Jain, Seema;
- Pavia, Andrew;
- Ampofo, Krow;
- Eilbeck, Karen
Publication type:
Article
Conceptual modelling of genomic information.
Published in:
Bioinformatics, 2000, v. 16, n. 6, p. 548, doi. 10.1093/bioinformatics/16.6.548
By:
- Paton, Norman W.;
- Khan, Shakeel A.;
- Hayes, Andrew;
- Moussouni, Fouzia;
- Brass, Andy;
- Eilbeck, Karen;
- Goble, Carole A.;
- Hubbard, Simon J.;
- Oliver, Stephen G.
Publication type:
Article
The VAAST Variant Prioritizer (VVP): ultrafast, easy to use whole genome variant prioritization tool.
Published in:
BMC Bioinformatics, 2018, v. 19, p. 1, doi. 10.1186/s12859-018-2056-y
By:
- Flygare, Steven;
- Hernandez, Edgar Javier;
- Phan, Lon;
- Moore, Barry;
- Li, Man;
- Fejes, Anthony;
- Hu, Hao;
- Eilbeck, Karen;
- Huff, Chad;
- Jorde, Lynn;
- G. Reese, Martin;
- Yandell, Mark
Publication type:
Article
Cover Image, Volume 39, Issue 11.
Published in:
Human Mutation, 2018, v. 39, n. 11, p. i, doi. 10.1002/humu.23662
By:
- Zastrow, Diane B.;
- Baudet, Heather;
- Shen, Wei;
- Thomas, Amanda;
- Si, Yue;
- Weaver, Meredith A.;
- Lager, Angela M.;
- Liu, Jixia;
- Mangels, Rachel;
- Dwight, Selina S.;
- Wright, Matt W.;
- Dobrowolski, Steven F.;
- Eilbeck, Karen;
- Enns, Gregory M.;
- Feigenbaum, Annette;
- Lichter‐Konecki, Uta;
- Lyon, Elaine;
- Pasquali, Marzia;
- Watson, Michael;
- Blau, Nenad
Publication type:
Article
Unique aspects of sequence variant interpretation for inborn errors of metabolism (IEM): The ClinGen IEM Working Group and the Phenylalanine Hydroxylase Gene.
Published in:
Human Mutation, 2018, v. 39, n. 11, p. 1569, doi. 10.1002/humu.23649
By:
- Zastrow, Diane B.;
- Baudet, Heather;
- Shen, Wei;
- Thomas, Amanda;
- Si, Yue;
- Weaver, Meredith A.;
- Lager, Angela M.;
- Liu, Jixia;
- Mangels, Rachel;
- Dwight, Selina S.;
- Wright, Matt W.;
- Dobrowolski, Steven F.;
- Eilbeck, Karen;
- Enns, Gregory M.;
- Feigenbaum, Annette;
- Lichter‐Konecki, Uta;
- Lyon, Elaine;
- Pasquali, Marzia;
- Watson, Michael;
- Blau, Nenad
Publication type:
Article
ClinVar Miner: Demonstrating utility of a Web‐based tool for viewing and filtering ClinVar data.
Published in:
Human Mutation, 2018, v. 39, n. 8, p. 1051, doi. 10.1002/humu.23555
By:
- Henrie, Alex;
- Hemphill, Sarah E.;
- Ruiz‐Schultz, Nicole;
- Cushman, Brandon;
- DiStefano, Marina T.;
- Azzariti, Danielle;
- Harrison, Steven M.;
- Rehm, Heidi L.;
- Eilbeck, Karen
Publication type:
Article
Novel sequence feature variant type analysis of the HLA genetic association in systemic sclerosis.
Published in:
Human Molecular Genetics, 2010, v. 19, n. 4, p. 707, doi. 10.1093/hmg/ddp521
By:
- Karp, David R.;
- Marthandan, Nishanth;
- Marsh, Steven G.E.;
- Ahn, Chul;
- Arnett, Frank C.;
- DeLuca, David S.;
- Diehl, Alexander D.;
- Dunivin, Raymond;
- Eilbeck, Karen;
- Feolo, Michael;
- Guidry, Paula A.;
- Helmberg, Wolfgang;
- Lewis, Suzanna;
- Mayes, Maureen D.;
- Mungall, Chris;
- Natale, Darren A.;
- Peters, Bjoern;
- Petersdorf, Effie;
- Reveille, John D.;
- Smith, Barry
Publication type:
Article
Human Bocavirus Capsid Messenger RNA Detection in Children With Pneumonia.
Published in:
2017
By:
- Schlaberg, Robert;
- Ampofo, Krow;
- Tardif, Keith D.;
- Stockmann, Chris;
- Simmon, Keith E.;
- Hymas, Weston;
- Flygare, Steven;
- Kennedy, Brett;
- Blaschke, Anne;
- Eilbeck, Karen;
- Yandell, Mark;
- McCullers, Jon A.;
- Williams, Derek J.;
- Edwards, Kathryn;
- Arnold, Sandra R.;
- Bramley, Anna;
- Jain, Seema;
- Pavia, Andrew T.
Publication type:
journal article
Viral Pathogen Detection by Metagenomics and Pan-Viral Group Polymerase Chain Reaction in Children With Pneumonia Lacking Identifiable Etiology.
Published in:
2017
By:
- Schlaberg, Robert;
- Queen, Krista;
- Simmon, Keith;
- Tardif, Keith;
- Stockmann, Chris;
- Flygare, Steven;
- Kennedy, Brett;
- Voelkerding, Karl;
- Bramley, Anna;
- Jing Zhang;
- Eilbeck, Karen;
- Yandell, Mark;
- Jain, Seema;
- Pavia, Andrew T.;
- Suxiang Tong;
- Krow Ampofo;
- Zhang, Jing;
- Tong, Suxiang;
- Ampofo, Krow
Publication type:
journal article
Unification of miRNA and isomiR research: the mirGFF3 format and the mirtop API.
Published in:
Bioinformatics, 2020, v. 36, n. 3, p. 698, doi. 10.1093/bioinformatics/btz675
By:
- Desvignes, Thomas;
- Loher, Phillipe;
- Eilbeck, Karen;
- Ma, Jeffery;
- Urgese, Gianvito;
- Fromm, Bastian;
- Sydes, Jason;
- Aparicio-Puerta, Ernesto;
- Barrera, Victor;
- Espín, Roderic;
- Thibord, Florian;
- Ros, Xavier Bofill-De;
- Londin, Eric;
- Telonis, Aristeidis G;
- Ficarra, Elisa;
- Friedländer, Marc R;
- Postlethwait, John H;
- Rigoutsos, Isidore;
- Hackenberg, Michael;
- Vlachos, Ioannis S
Publication type:
Article
The Protein Feature Ontology: a tool for the unification of protein feature annotations.
Published in:
Bioinformatics, 2008, v. 24, n. 23, p. 2767, doi. 10.1093/bioinformatics/btn528
By:
- Gabrielle A. Reeves;
- Karen Eilbeck;
- Michele Magrane;
- Claire ODonovan;
- Luisa Montecchi-Palazzi;
- Midori A. Harris;
- Sandra Orchard;
- Rafael C. Jimenez;
- Andreas Prlic;
- Tim J. P. Hubbard;
- Henning Hermjakob;
- Janet M. Thornton
Publication type:
Article

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