Olivier Bodenreider
Orcid: 0000-0003-4769-4217
According to our database1,
Olivier Bodenreider
authored at least 222 papers
between 1997 and 2023.
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Bibliography
2023
Two complementary AI approaches for predicting UMLS semantic group assignment: heuristic reasoning and deep learning.
J. Am. Medical Informatics Assoc., November, 2023
A practical strategy to use the ICD-11 for morbidity coding in the United States without a clinical modification.
J. Am. Medical Informatics Assoc., September, 2023
J. Am. Medical Informatics Assoc., February, 2023
Solving the Right Problem is Key for Translational NLP: A Case Study in UMLS Vocabulary Insertion.
Proceedings of the Findings of the Association for Computational Linguistics: EMNLP 2023, 2023
2022
UVA Resources for the Biomedical Vocabulary Alignment at Scale in the UMLS Metathesaurus.
CoRR, 2022
UBERT: A Novel Language Model for Synonymy Prediction at Scale in the UMLS Metathesaurus.
CoRR, 2022
Context-Enriched Learning Models for Aligning Biomedical Vocabularies at Scale in the UMLS Metathesaurus.
Proceedings of the WWW '22: The ACM Web Conference 2022, Virtual Event, Lyon, France, April 25, 2022
Proceedings of the Companion of The Web Conference 2022, Virtual Event / Lyon, France, April 25, 2022
Evaluating Biomedical Word Embeddings for Vocabulary Alignment at Scale in the UMLS Metathesaurus Using Siamese Networks.
Proceedings of the Third Workshop on Insights from Negative Results in NLP, 2022
2021
Feasibility of replacing the ICD-10-CM with the ICD-11 for morbidity coding: A content analysis.
J. Am. Medical Informatics Assoc., 2021
Evaluating Biomedical BERT Models for Vocabulary Alignment at Scale in the UMLS Metathesaurus.
CoRR, 2021
Proceedings of the WWW '21: The Web Conference 2021, 2021
Proceedings of the MEDINFO 2021: One World, One Health - Global Partnership for Digital Innovation, 2021
Adding an Attention Layer Improves the Performance of a Neural Network Architecture for Synonymy Prediction in the UMLS Metathesaurus.
Proceedings of the MEDINFO 2021: One World, One Health - Global Partnership for Digital Innovation, 2021
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
Reproducibility in biomedical natural language processing: A FAIR approach to what we need to know.
Proceedings of the AMIA 2021, American Medical Informatics Association Annual Symposium, San Diego, CA, USA, October 30, 2021, 2021
2020
Assessing the enrichment of dietary supplement coverage in the Unified Medical Language System.
J. Am. Medical Informatics Assoc., 2020
The new International Classification of Diseases 11th edition: a comparative analysis with ICD-10 and ICD-10-CM.
J. Am. Medical Informatics Assoc., 2020
Proceedings of the 12th International Conference on Knowledge and Systems Engineering, 2020
2019
Proceedings of the Blockchain enabled Semantic Web Workshop (BlockSW) and Contextualized Knowledge Graphs (CKG) Workshop co-located with the 18th International Semantic Web Conference, 2019
Singleton Property Graph: Adding A Semantic Web Abstraction Layer to Graph Databases.
Proceedings of the Blockchain enabled Semantic Web Workshop (BlockSW) and Contextualized Knowledge Graphs (CKG) Workshop co-located with the 18th International Semantic Web Conference, 2019
Proceedings of the MEDINFO 2019: Health and Wellbeing e-Networks for All, 2019
Proceedings of the MEDINFO 2019: Health and Wellbeing e-Networks for All, 2019
Comparing the Representation of Medicinal Products in RxNorm and SNOMED CT - Consequences on interoperability.
Proceedings of the 10th International Conference on Biomedical Ontology (ICBO 2019), Buffalo, New York, USA, July 30, 2019
2018
Auditing SNOMED CT hierarchical relations based on lexical features of concepts in non-lattice subgraphs.
J. Biomed. Informatics, 2018
Proceedings of the 9th International Conference on Biological Ontology (ICBO 2018), 2018
Proceedings of the AMIA 2018, 2018
Proceedings of the AMIA 2018, 2018
Proceedings of the AMIA 2018, 2018
2017
J. Biomed. Informatics, 2017
Comparison of three commercial knowledge bases for detection of drug-drug interactions in clinical decision support.
J. Am. Medical Informatics Assoc., 2017
Mining non-lattice subgraphs for detecting missing hierarchical relations and concepts in SNOMED CT.
J. Am. Medical Informatics Assoc., 2017
"Hybrid Topics" - Facilitating the Interpretation of Topics Through the Addition of MeSH Descriptors to Bags of Words.
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017
Interoperability of Disease Concepts in Clinical and Research Ontologies: Contrasting Coverage and Structure in the Disease Ontology and SNOMED CT.
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017
Terminology Status APIs - Mapping Obsolete Codes to Current RxNorm, SNOMED CT, and LOINC Concepts.
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017
Interoperability of Medication Classification Systems: Lessons Learned Mapping Established Pharmacologic Classes (EPCs) to SNOMED CT.
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017
Eliciting the Intension of Drug Value Sets - Principles and Quality Assurance Applications.
Proceedings of the MEDINFO 2017: Precision Healthcare through Informatics, 2017
Investigating the Coverage of Diseases across Biomedical Research and Clinical Ontologies.
Proceedings of the Summit on Clinical Research Informatics, 2017
Detecting Adverse Drug Event Safety Signals from MEDLINE Reports: Challenges in Employing Cross-terminology Mapping of MeSH to MedDRA.
Proceedings of the AMIA 2017, 2017
Identifying Potentially Missing Hierarchical Relations in SNOMED CT based on Lexical Features - Impact of Synonyms and Lexico-syntactic Constraints.
Proceedings of the AMIA 2017, 2017
Proceedings of the AMIA 2017, 2017
Mapping U.S. FDA National Drug Codes to Anatomical-Therapeutic-Chemical Classes using RxNorm.
Proceedings of the AMIA 2017, 2017
2016
Interoperability between phenotypes in research and healthcare terminologies - Investigating partial mappings between HPO and SNOMED CT.
J. Biomed. Semant., 2016
Identifying Missing Hierarchical Relations in SNOMED CT from Logical Definitions Based on the Lexical Features of Concept Names.
Proceedings of the Joint International Conference on Biological Ontology and BioCreative, 2016
The Drug Data to Knowledge Pipeline: Large-Scale Claims Data Classification for Pharmacologic Insight.
Proceedings of the Summit on Clinical Research Informatics, 2016
PubMed 'Early Alerts': Towards Better Precision of Literature Searching for Pharmacovigilance Information based on an Assessment of Relevance Feedback.
Proceedings of the AMIA 2016, 2016
Proceedings of the AMIA 2016, 2016
Proceedings of the AMIA 2016, 2016
Proceedings of the AMIA 2016, 2016
Proceedings of the AMIA 2016, 2016
The national library of medicine pill image recognition challenge: An initial report.
Proceedings of the 2016 IEEE Applied Imagery Pattern Recognition Workshop, 2016
2015
Leveraging MEDLINE indexing for pharmacovigilance - Inherent limitations and mitigation strategies.
J. Biomed. Informatics, 2015
J. Biomed. Informatics, 2015
CoRR, 2015
Using description logics to evaluate the consistency of drug-class membership relations in NDF-RT.
J. Biomed. Semant., 2015
J. Biomed. Semant., 2015
Proceedings of the 8th Semantic Web Applications and Tools for Life Sciences International Conference, 2015
Fingerprinting Biomedical Terminologies - Automatic Classification and Visualization of Biomedical Vocabularies through UMLS Semantic Group Profiles.
Proceedings of the MEDINFO 2015: eHealth-enabled Health, 2015
Proceedings of the MEDINFO 2015: eHealth-enabled Health, 2015
PubMed 'Early Alerts': A Pilot Study to Support Prospective Detection of Emerging Adverse Drug Events.
Proceedings of the AMIA 2015, 2015
Proceedings of the AMIA 2015, 2015
Proceedings of the AMIA 2015, 2015
2014
J. Biomed. Semant., 2014
Don't like RDF reification?: making statements about statements using singleton property.
Proceedings of the 23rd International World Wide Web Conference, 2014
Coverage of Rare Disease Names in Clinical Coding Systems and Ontologies and Implications for Electronic Health Records-Based Research.
Proceedings of the 5th International Conference on Biomedical Ontology, 2014
Proceedings of the 5th International Conference on Biomedical Ontology, 2014
MaPLE: A MapReduce Pipeline for Lattice-based Evaluation and its application to SNOMED CT.
Proceedings of the 2014 IEEE International Conference on Big Data (IEEE BigData 2014), 2014
Proceedings of the AMIA 2014, 2014
Proceedings of the AMIA 2014, 2014
Proceedings of the AMIA 2014, 2014
Proceedings of the AMIA 2014, 2014
Coverage of Rare Disease Names in Standard Terminologies and Implications for Patients, Providers, and Research.
Proceedings of the AMIA 2014, 2014
Proceedings of the AMIA 2014, 2014
2013
A graph-based recovery and decomposition of Swanson's hypothesis using semantic predications.
J. Biomed. Informatics, 2013
Proceedings of the MEDINFO 2013, 2013
Leveraging Terminological Resources for Mapping between Rare Disease Information Sources.
Proceedings of the MEDINFO 2013, 2013
Proceedings of the MEDINFO 2013, 2013
Proceedings of the MEDINFO 2013, 2013
Proceedings of the ICBO2013 Workshops: International Workshop on Vaccine and Drug Ontology Studies (VDOS 2013), International Workshop on Definitions in Ontologies (DO 2013), part of the Semantic Trilogy 2013 , Montreal, Quebec, Canada, July 6th, 2013
Proceedings of the Working Notes for CLEF 2013 Conference , 2013
Proceedings of the AMIA 2013, 2013
Proceedings of the AMIA 2013, 2013
2012
J. Biomed. Informatics, 2012
Proceedings of the ACM International Health Informatics Symposium, 2012
Proceedings of the AMIA 2012, 2012
Proceedings of the AMIA 2012, 2012
Proceedings of the AMIA 2012, 2012
2011
BMC Bioinform., 2011
The Translational Medicine Ontology and Knowledge Base: driving personalized medicine by bridging the gap between bench and bedside.
J. Biomed. Semant., 2011
Toward an automatic method for extracting cancer- and other disease-related point mutations from the biomedical literature.
Bioinform., 2011
The Knowledge-driven Exploration of Integrated Biomedical Knowledge Sources Facilitates the Generation of New Hypotheses.
Proceedings of the First International Workshop on Linked Science 2011, 2011
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2011
2010
Comparing and evaluating terminology services application programming interfaces: RxNav, UMLSKS and LexBIG.
J. Am. Medical Informatics Assoc., 2010
J. Am. Medical Informatics Assoc., 2010
Provenance Context Entity (PaCE): Scalable Provenance Tracking for Scientific RDF Data.
Proceedings of the Scientific and Statistical Database Management, 2010
Proceedings of the Fourth International Symposium for Semantic Mining in Biomedicine, 2010
Using SPARQL to Test for Lattices: Application to Quality Assurance in Biomedical Ontologies.
Proceedings of the Semantic Web - ISWC 2010 - 9th International Semantic Web Conference, 2010
Using the Abstraction Network in Complement to Description Logics for Quality Assurance in Biomedical Terminologies - A Case Study in SNOMED CT.
Proceedings of the MEDINFO 2010, 2010
Combining Relevance Assignment with Quality of the Evidence to Support Guideline Development.
Proceedings of the MEDINFO 2010, 2010
Proceedings of the MEDINFO 2010, 2010
Proceedings of the MEDINFO 2010, 2010
Integrating Consumer-Oriented Vocabularies with Selected Professional Ones from the UMLS Using Semantic Web Technologies.
Proceedings of the Electronic Healthcare - Third International Conference, 2010
Proceedings of the Twenty-Fourth AAAI Conference on Artificial Intelligence, 2010
2009
J. Biomed. Informatics, 2009
Analyzing polysemous concepts from a clinical perspective: Application to auditing concept categorization in the UMLS.
J. Biomed. Informatics, 2009
Bioinform., 2009
Proceedings of the 8th International Conference on Terminology and Artificial Intelligence, 2009
Proceedings of the First International Workshop on the role of Semantic Web in Provenance Management (SWPM 2009), 2009
Proceedings of the AMIA 2009, 2009
Using SNOMED CT in combination with MedDRA for reporting signal detection and adverse drug reactions reporting.
Proceedings of the AMIA 2009, 2009
2008
An ontology-driven semantic mashup of gene and biological pathway information: Application to the domain of nicotine dependence.
J. Biomed. Informatics, 2008
Ontology Summit 2007 - Ontology, taxonomy, folksonomy: Understanding the distinctions.
Appl. Ontology, 2008
Proceedings of the Third International Conference on Knowledge Representation in Medicine, Phoenix, Arizona, USA, May 31st, 2008
Proceedings of the Third International Conference on Knowledge Representation in Medicine, Phoenix, Arizona, USA, May 31st, 2008
Automatic Methods for Integrating Biomedical Data Sources in a Mediator-Based System.
Proceedings of the Data Integration in the Life Sciences, 5th International Workshop, 2008
Ontologies and Data Integration in Biomedicine: Success Stories and Challenging Issues.
Proceedings of the Data Integration in the Life Sciences, 5th International Workshop, 2008
Proceedings of the AMIA 2008, 2008
Proceedings of the AMIA 2008, 2008
Proceedings of the AMIA 2008, 2008
Proceedings of the AMIA 2008, 2008
Proceedings of the AMIA 2008, 2008
2007
Artif. Intell. Medicine, 2007
Investigating subsumption in SNOMED CT: An exploration into large description logic-based biomedical terminologies.
Artif. Intell. Medicine, 2007
Hybrid Alignment Strategy for Anatomical Ontologies: Results of the 2007 Ontology Alignment Contest.
Proceedings of the 2nd International Workshop on Ontology Matching (OM-2007) Collocated with the 6th International Semantic Web Conference (ISWC-2007) and the 2nd Asian Semantic Web Conference (ASWC-2007), 2007
Lessons Learned from Cross-Validating Alignments between Large Anatomical Ontologies.
Proceedings of the MEDINFO 2007 - Proceedings of the 12th World Congress on Health (Medical) Informatics, 2007
From "Glycosyltransferase" to "Congenital Muscular Dystrophy": Integrating Knowledge from NCBI Entrez Gene and the Gene Ontology.
Proceedings of the MEDINFO 2007 - Proceedings of the 12th World Congress on Health (Medical) Informatics, 2007
Proceedings of the MEDINFO 2007 - Proceedings of the 12th World Congress on Health (Medical) Informatics, 2007
Méthodes de mapping situées aux niveaux instance et schéma pour l'intégration de sources de données hétérogènes.
Proceedings of the IC 2007: Ingénierie des connaissances 2007 (Proceedings of the 18th French Knowledge Engineering Conference), 2007
From indexing the biomedical literature to coding clinical text: experience with MTI and machine learning approaches.
Proceedings of the Biological, translational, and clinical language processing, 2007
Proceedings of the AMIA 2007, 2007
2006
J. Web Semant., 2006
Law and order: Assessing and enforcing compliance with ontological modeling principles in the Foundational Model of Anatomy.
Comput. Biol. Medicine, 2006
Mapping data elements to terminological resources for integrating biomedical data sources.
BMC Bioinform., 2006
Using Dependence Relations in MeSH as a Framework for the Analysis of Disease Information in Medline.
Proceedings of the Second International Symposium on Semantic Mining in Biomedicine, 2006
Data Integration through data elements: Mapping data elements to terminological resources.
Proceedings of the Second International Symposium on Semantic Mining in Biomedicine, 2006
Proceedings of the 1st International Workshop on Ontology Matching (OM-2006) Collocated with the 5th International Semantic Web Conference (ISWC-2006), 2006
NLM Anatomical Ontology Alignment System. Results of the 2006 Ontology Alignment Contest.
Proceedings of the 1st International Workshop on Ontology Matching (OM-2006) Collocated with the 5th International Semantic Web Conference (ISWC-2006), 2006
Proceedings of the Biocomputing 2006, 2006
Predictive Integration of Gene Ontology-Driven Similarity and Functional Interactions.
Proceedings of the Workshops Proceedings of the 6th IEEE International Conference on Data Mining (ICDM 2006), 2006
Proceedings of the AMIA 2006, 2006
Enhancing Biomedical Ontologies through Alignment of Semantic Relationships: Exploratory Approaches.
Proceedings of the AMIA 2006, 2006
Besides Precision & Recall: Exploring Alternative Approaches to Evaluating an Automatic Indexing Tool for MEDLINE.
Proceedings of the AMIA 2006, 2006
Using WordNet to Improve the Mapping of Data Elements to UMLS for Data Sources Integration.
Proceedings of the AMIA 2006, 2006
Proceedings of the AMIA 2006, 2006
2005
Proceedings of the Biocomputing 2005, 2005
Proceedings of the Biocomputing 2005, 2005
Proceedings of the Biocomputing 2005, 2005
Proceedings of the Connecting Medical Informatics and Bio-Informatics - Proceedings of MIE 2005, 2005
Proceedings of the 18th IEEE Symposium on Computer-Based Medical Systems (CBMS 2005), 2005
Proceedings of the Sparking Synergies: Bringing Research and Practice Together, 2005
Alignment of Multiple Ontologies of Anatomy: Deriving Indirect Mappings from Direct Mappings to a Reference.
Proceedings of the AMIA 2005, 2005
Proceedings of the AMIA 2005, 2005
Proceedings of the AMIA 2005, 2005
Proceedings of the AMIA 2005, 2005
Proceedings of the AMIA 2005, 2005
2004
Nucleic Acids Res., 2004
Investigating Implicit Knowledge in Ontologies with Application to the Anatomical Domain.
Proceedings of the Biocomputing 2004, 2004
Proceedings of the MEDINFO 2004, 2004
Aligning Knowledge Sources in the UMLS: Methods, Quantitative Results, and Applications.
Proceedings of the MEDINFO 2004, 2004
Proceedings of the KR-MED 2004, 2004
Proceedings of the KR-MED 2004, 2004
Gene expression correlation and gene ontology-based similarity: an assessment of quantitative relationships.
Proceedings of the 2004 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 2004
Incorporating Ontology-Driven Similarity Knowledge into Functional Genomics: An Exploratory Study.
Proceedings of the 4th IEEE International Symposium on BioInformatics and BioEngineering (BIBE 2004), 2004
2003
Proceedings of The Twelfth Text REtrieval Conference, 2003
Proceedings of the 8th Pacific Symposium on Biocomputing, 2003
An Evaluation of Hybrid Methods for Matching Biomedical Terminologies: Mapping the Gene Ontology to the UMLS<sup>®</sup>$.
Proceedings of the New Navigators: from Professionals to Patients, 2003
Evaluation of WordNet as a source of lay knowledge for molecular biology and genetic diseases: A feasibility study.
Proceedings of the New Navigators: from Professionals to Patients, 2003
Proceedings of the Workshop on Natural Language Processing in Biomedicine, 2003
Proceedings of the AMIA 2003, 2003
Proceedings of the AMIA 2003, 2003
Strength in Numbers: Exploring Redundancy in Hierarchical Relations across Biomedical Terminologies.
Proceedings of the AMIA 2003, 2003
2002
Int. J. Medical Informatics, 2002
From Phenotype to Genotype: Experiences in Navigating the Available Information Resources.
Proceedings of the AMIA 2002, 2002
Representation of roles in biomedical ontologies: a case study in functional genomics.
Proceedings of the AMIA 2002, 2002
Evaluation of the UMLS as a terminology and knowledge resource for biomedical informatics.
Proceedings of the AMIA 2002, 2002
Proceedings of the ACL 2002 Workshop on Natural Language Processing in the Biomedical Domain, 2002
2001
Proceedings of the MEDINFO 2001, 2001
Methods for Exploring the Semantics of the Relationships between Co-occurring UMLS Concepts.
Proceedings of the MEDINFO 2001, 2001
Proceedings of the MEDINFO 2001, 2001
Natural Language Processing, Medical Terminologies, and Ontological Issues for Patient Records and Biomedical Knowledge.
Proceedings of the MEDINFO 2001, 2001
Proceedings of the 2nd International Conference on Formal Ontology in Information Systems, 2001
Proceedings of the AMIA 2001, 2001
Proceedings of the AMIA 2001, 2001
Circular hierarchical relationships in the UMLS: etiology, diagnosis, treatment, complications and prevention.
Proceedings of the AMIA 2001, 2001
2000
1999
1998
Case Report: Evaluation of the Unified Medical Language System as a Medical Knowledge Source.
J. Am. Medical Informatics Assoc., 1998
A Collaborative Approach to Building a Terminology for Medical Procedures using a Web-based Application : From Specifications to daily use.
Proceedings of the MEDINFO '98, 1998
Integration of the analytical and alphabetical ICD10 in a coding help system. Proposal of a theoretical model for the ICD representation.
Proceedings of the MEDINFO '98, 1998
Proceedings of the MEDINFO '98, 1998
Proceedings of the AMIA 1998, 1998
1997
Application of Information Technology: A Web Terminology Server Using UMLS for the Description of Medical Procedures.
J. Am. Medical Informatics Assoc., 1997