Martin J. O'Connor

Publication Activity (10 Years)

Years Active: 1994-2023
Publications (10 Years): 20

Top Topics

Semantic Technologies

Top Venues

Publications

Martin J. O'Connor, Marcos Martínez Romero, Mete Ugur Akdogan, Josef Hardi, Mark A. Musen
A Comprehensive Approach to Ensuring Quality in Spreadsheet-Based Metadata. CoRR (2023)
Mark A. Musen, Martin J. O'Connor, Erik Schultes, Marcos Martínez Romero, Josef Hardi, John Graybeal
Modeling community standards for metadata as templates makes data FAIR. CoRR (2022)
Rafael S. Gonçalves, Martin J. O'Connor, Marcos Martínez Romero, Attila L. Egyedi, Debra Willrett, John Graybeal, Mark A. Musen
The CEDAR Workbench: An Ontology-Assisted Environment for Authoring Metadata that Describe Scientific Experiments. CoRR (2019)
Martin J. O'Connor, Denise B. Warzel, Marcos Martínez Romero, Josef Hardi, Debra Willrett, Aras Efekhari, John Graybeal, Mark A. Musen
Unleashing the value of Common Data Elements through the CEDAR Workbench. AMIA (2019)
Marcos Martínez Romero, Martin J. O'Connor, Attila L. Egyedi, Debra Willrett, Josef Hardi, John Graybeal, Mark A. Musen
Using association rule mining and ontologies to generate metadata recommendations from multiple biomedical databases. CoRR (2019)
Marcos Martínez Romero, Martin J. O'Connor, Attila L. Egyedi, Debra Willrett, Josef Hardi, John Graybeal, Mark A. Musen
Using association rule mining and ontologies to generate metadata recommendations from multiple biomedical databases. Database J. Biol. Databases Curation 2019 (2019)
Syed Ahmad Chan Bukhari, Marcos Martínez Romero, Martin J. O'Connor, Attila L. Egyedi, Debra Willrett, John Graybeal, Mark A. Musen, Kei-Hoi Cheung, Steven H. Kleinstein
CEDAR OnDemand: a browser extension to generate ontology-based scientific metadata. BMC Bioinform. 19 (1) (2018)
Attila L. Egyedi, Martin J. O'Connor, Marcos Martínez Romero, Debra Willrett, Josef Hardi, John Graybeal, Mark A. Musen
Using semantic technologies to enhance metadata submissions to public repositories in biomedicine. SWAT4LS (2018)
Rafael S. Gonçalves, Csongor I. Nyulas, Marcos Martínez Romero, Martin J. O'Connor, John Graybeal, Mark A. Musen
Using Ontologies to Drive the Creation of High-Quality Metadata in CEDAR. ISWC (P&D/Industry/BlueSky) (2018)
Rafael S. Gonçalves, Martin J. O'Connor, Marcos Martínez Romero, John Graybeal, Mark A. Musen
Metadata in the BioSample Online Repository are Impaired by Numerous Anomalies. CoRR (2017)
Rafael S. Gonçalves, Martin J. O'Connor, Marcos Martínez Romero, John Graybeal, Mark A. Musen
Metadata in the BioSample Online Repository are Impaired by Numerous Anomalies. SemSci@ISWC (2017)
Marcos Martínez Romero, Clément Jonquet, Martin J. O'Connor, John Graybeal, Alejandro Pazos, Mark A. Musen
NCBO Ontology Recommender 2.0: an enhanced approach for biomedical ontology recommendation. J. Biomed. Semant. 8 (1) (2017)
Marcos Martínez Romero, Martin J. O'Connor, Ravi D. Shankar, Maryam Panahiazar, Debra Willrett, Attila Levente Egyedi, Olivier Gevaert, John Graybeal, Mark A. Musen
Fast and Accurate Metadata Authoring Using Ontology-Based Recommendations. AMIA (2017)
Marcos Martínez Romero, Martin J. O'Connor, Michael Dorf, Jennifer Vendetti, Debra Willrett, Attila L. Egyedi, John Graybeal, Mark A. Musen
Supporting Ontology-Based Standardization of Biomedical Metadata in the CEDAR Workbench. ICBO (2017)
Rafael S. Gonçalves, Martin J. O'Connor, Marcos Martínez Romero, Attila L. Egyedi, Debra Willrett, John Graybeal, Mark A. Musen
The CEDAR Workbench: An Ontology-Assisted Environment for Authoring Metadata that Describe Scientific Experiments. ISWC (2) (2017)
Attila L. Egyedi, Martin J. O'Connor, Marcos Martínez Romero, Debra Willrett, Josef Hardi, John Graybeal, Mark A. Musen
Embracing Semantic Technology for Better Metadata Authoring in Biomedicine. SWAT4LS (2017)
Mark A. Musen, Martin J. O'Connor, Marcos Martínez Romero, Attila Levente Egyedi, Debra Willrett, John Graybeal
CEDAR: Better Data Sharing Through the Authoring of Better Metadata. AMIA (2016)
Martin J. O'Connor, Marcos Martínez Romero, Attila L. Egyedi, Debra Willrett, John Graybeal, Mark A. Musen
An Open Repository Model for Acquiring Knowledge About Scientific Experiments. EKAW (2016)
Marcos Martínez Romero, Clément Jonquet, Martin J. O'Connor, John Graybeal, Alejandro Pazos, Mark A. Musen
NCBO Ontology Recommender 2.0: An Enhanced Approach for Biomedical Ontology Recommendation. CoRR (2016)
Mark A. Musen, Carol A. Bean, Kei-Hoi Cheung, Michel Dumontier, Kim A. Durante, Olivier Gevaert, Alejandra N. González-Beltrán, Purvesh Khatri, Steven H. Kleinstein, Martin J. O'Connor, Yannick Pouliot, Philippe Rocca-Serra, Susanna-Assunta Sansone, Jeffrey A. Wiser
The center for expanded data annotation and retrieval. J. Am. Medical Informatics Assoc. 22 (6) (2015)
Saeed Hassanpour, Martin J. O'Connor, Amar K. Das
Clustering rule bases using ontology-based similarity measures. J. Web Semant. 25 (2014)
Saeed Hassanpour, Martin J. O'Connor, Amar K. Das
A semantic-based method for extracting concept definitions from scientific publications: evaluation in the autism phenotype domain. J. Biomed. Semant. 4 (2013)
João Paulo Orlando, Adriano Rivolli, Saeed Hassanpour, Martin J. O'Connor, Amar K. Das, Dilvan A. Moreira
SWRL Rule Editor - A Web Application as Rich as Desktop Business Rule Editors. ICEIS (2) (2012)
Martin J. O'Connor, Amar K. Das
A Pair of OWL 2 RL Reasoners. OWLED (2012)
Christophe Gravier, Jacques Fayolle, Jérémy Lardon, Martin J. O'Connor
Adaptive System for Collaborative Online Laboratories. IEEE Intell. Syst. 27 (4) (2012)
Saeed Hassanpour, Martin J. O'Connor, Amar K. Das
A Framework for the Automatic Extraction of Rules from Online Text. RuleML Europe (2011)
Philippe Rocca-Serra, Alan Ruttenberg, Martin J. O'Connor, Patricia L. Whetzel, Daniel Schober, Jay Greenbaum, Mélanie Courtot, Ryan Remy Brinkman, Susanna-Assunta Sansone, Richard H. Scheuermann, Bjoern Peters
Overcoming the ontology enrichment bottleneck with Quick Term Templates. Appl. Ontology 6 (1) (2011)
Martin J. O'Connor, Amar K. Das
Acquiring OWL ontologies from XML documents. K-CAP (2011)
Martin J. O'Connor, Genaro Hernandez, Amar K. Das
A Rule-Based Method for Specifying and Querying Temporal Abstractions. AIME (2011)
Martin J. O'Connor, Amanda Richards, Susana B. Martins, Mike Bingen, Samson W. Tu, Amar K. Das
SWEETInfo: a Web-Based System for Visualizing and Querying Temporal Data. RuleML America (2) (2011)
Martin J. O'Connor, Mike Bingen, Amanda Richards, Samson W. Tu, Amar K. Das
Web-based Exploration of Temporal Data in Biomedicine. WEBIST (2011)
Amanda Richards, Martin J. O'Connor, Susana B. Martins, Michael Uehara-Bingen, Samson W. Tu, Amar K. Das
Web-Based Querying and Temporal Visualization of Longitudinal Clinical Data. AIME (2011)
Tomasz Wiktor Wlodarczyk, Chunming Rong, Martin J. O'Connor, Mark A. Musen
SWRL-F: a fuzzy logic extension of the semantic web rule language. WIMS (2011)
Martin J. O'Connor, Christian Halaschek-Wiener, Mark A. Musen
: A Language for Mapping Spreadsheets to OWL. OWLED (2010)
Saeed Hassanpour, Martin J. O'Connor, Amar K. Das
A Software Tool for Visualizing, Managing and Eliciting SWRL Rules. ESWC (2) (2010)
Saeed Hassanpour, Martin J. O'Connor, Amar K. Das
Visualizing Logical Dependencies in SWRL Rule Bases. RuleML (2010)
Martin J. O'Connor, Christian Halaschek-Wiener, Mark A. Musen
Mapping Master: A Flexible Approach for Mapping Spreadsheets to OWL. ISWC (2) (2010)
Martin J. O'Connor, Amar K. Das
Semantic Reasoning with XML-based Biomedical Information Models. MedInfo (2010)
Martin J. O'Connor, Amar K. Das
A Method for Representing and Querying Temporal Information in OWL. BIOSTEC (Selected Papers) (2010)
Martin J. O'Connor, Amar K. Das
A Lightweight Model for Representing and Reasoning with Temporal Information in Biomedical Ontologies. HEALTHINF (2010)
Tomasz Wiktor Wlodarczyk, Martin J. O'Connor, Chunming Rong, Mark A. Musen
SWRL-F - A Fuzzy Logic Extension of the Semantic Web Rule Language. URSW (2010)
Martin J. O'Connor, Csongor Nyulas, Samson W. Tu, David L. Buckeridge, Anna Okhmatovskaia, Mark A. Musen
Software-engineering challenges of building and deploying reusable problem solvers. Artif. Intell. Eng. Des. Anal. Manuf. 23 (4) (2009)
Masoumeh T. Izadi, David L. Buckeridge, Anna Okhmatovskaia, Samson W. Tu, Martin J. O'Connor, Csongor Nyulas, Mark A. Musen
A Bayesian Network Model for Analysis of Detection Performance in Surveillance Systems. AMIA (2009)
Saeed Hassanpour, Martin J. O'Connor, Amar K. Das
A Rule Management and Elicitation Tool for SWRL Rule Bases. RuleML Challenge (2009)
Martin J. O'Connor, Amar K. Das
SQWRL: A Query Language for OWL. OWLED (2009)
Saeed Hassanpour, Martin J. O'Connor, Amar K. Das
Exploration of SWRL Rule Bases through Visualization, Paraphrasing, and Categorization of Rules. RuleML (2009)
Martin J. O'Connor, Ravi D. Shankar, David B. Parrish, Amar K. Das
Knowledge-data integration for temporal reasoning in a clinical trial system. Int. J. Medical Informatics 78 (Supplement-1) (2009)
Mia A. Levy, Martin J. O'Connor, Daniel L. Rubin
Semantic Reasoning with Image Annotations for Tumor Assessment. AMIA (2009)
Saeed Hassanpour, Martin J. O'Connor, Amar K. Das
Axiomé: A Tool for the Elicitation and Management of SWRL Rules. OWLED (2009)
Ravi D. Shankar, Susana B. Martins, Martin J. O'Connor, David B. Parrish, Amar K. Das
Representing and Reasoning with Temporal Constraints in Clinical Trials Using Semantic Technologies. BIOSTEC (Selected Papers) (2008)
David L. Buckeridge, Anna Okhmatovskaia, Samson W. Tu, Martin J. O'Connor, Csongor Nyulas, Mark A. Musen
Model Formulation: Understanding Detection Performance in Public Health Surveillance: Modeling Aberrancy-detection Algorithms. J. Am. Medical Informatics Assoc. 15 (6) (2008)
Ravi D. Shankar, Susana B. Martins, Martin J. O'Connor, Amar K. Das
An Ontological Approach to Representing and Reasoning with Temporal Constraints in Clinical Trial Protocols. HEALTHINF (1) (2008)
Csongor Nyulas, Martin J. O'Connor, Samson W. Tu, David L. Buckeridge, Anna Okhmatovskaia, Mark A. Musen
An Ontology-Driven Framework for Deploying JADE Agent Systems. IAT (2008)
Ravi D. Shankar, Martin J. O'Connor, David B. Parrish, Amar K. Das
Semantic Integration of Software Systems in Translational Clinical Trials. AAAI Spring Symposium: Semantic Scientific Knowledge Integration (2008)
Martin J. O'Connor, Ravi D. Shankar, Csongor Nyulas, Samson W. Tu, Amar K. Das
Developing a Web-Based Application using OWL and SWRL. AAAI Spring Symposium: AI Meets Business Rules and Process Management (2008)
Martin J. O'Connor, Ravi D. Shankar, Mark A. Musen, Amar K. Das, Csongor Nyulas
The SWRLAPI: A Development Environment for Working with SWRL Rules. OWLED (2008)
Samson W. Tu, Lakshika Tennakoon, Martin J. O'Connor, Ravi D. Shankar, Amar K. Das
Using an Integrated Ontology and Information Model for Querying and Reasoning about Phenotypes: The Case of Autism. AMIA (2008)
David L. Buckeridge, Anna Okhmatovskaia, Samson W. Tu, Martin J. O'Connor, Csongor Nyulas, Mark A. Musen
Predicting Outbreak Detection in Public Health Surveillance: Quantitative Analysis to Enable Evidence-Based Method Selection. AMIA (2008)
Martin J. O'Connor, Ravi D. Shankar, Samson W. Tu, Csongor Nyulas, Dave Parrish, Mark A. Musen, Amar K. Das
Using Semantic Web Technologies for Knowledge-Driven Querying of Biomedical Data. AIME (2007)
Martin J. O'Connor, Ravi D. Shankar, Samson W. Tu, Csongor Nyulas, Amar K. Das, Mark A. Musen
Efficiently Querying Relational Databases Using OWL and SWRL. RR (2007)
Ravi D. Shankar, Susana B. Martins, Martin J. O'Connor, David B. Parrish, Amar K. Das
An Ontology-based Architecture for Integration of Clinical Trials Management Applications. AMIA (2007)
Martin J. O'Connor, Samson W. Tu, Csongor Nyulas, Amar K. Das, Mark A. Musen
Querying the Semantic Web with SWRL. RuleML (2007)
Rashmi Raj, Martin J. O'Connor, Amar K. Das
An Ontology-Driven Method for Hierarchical Mining of Temporal Patterns: Application to HIV Drug Resistance Research. AMIA (2007)
Martin J. O'Connor, Ravi D. Shankar, David B. Parrish, Amar K. Das
Knowledge-Level Querying of Temporal Patterns in Clinical Research Systems. MedInfo (2007)
Vijay P. Chauhan, Martin J. O'Connor, Amar K. Das
A Dynamic Distributed Architecture for Temporal Data Abstraction. AMIA (2006)
Preetha S. Narayanan, Martin J. O'Connor, Amar K. Das
Ontology-Driven Mapping of Temporal Data in Biomedical Databases. AMIA (2006)
Ravi D. Shankar, Susana B. Martins, Martin J. O'Connor, David B. Parrish, Amar K. Das
Knowledge-Based System for Managing Complex Clinical Trials. CBMS (2006)
Martin J. O'Connor, Ravi D. Shankar, Amar K. Das
An Ontology-Driven Mediator for Querying Time-Oriented Biomedical Data. CBMS (2006)
Ravi D. Shankar, Susana B. Martins, Martin J. O'Connor, David B. Parrish, Amar K. Das
Towards Semantic Interoperability in a Clinical Trials Management System. ISWC (2006)
Ravi D. Shankar, Susana B. Martins, Martin J. O'Connor, David B. Parrish, Amar K. Das
Epoch: an ontological framework to support clinical trials management. HIKM (2006)
Monica Crubézy, Martin J. O'Connor, David L. Buckeridge, Zachary Pincus, Mark A. Musen
Ontology-Centered Syndromic Surveillance for Bioterrorism. IEEE Intell. Syst. 20 (5) (2005)
Mohammed I. Rafiq, Martin J. O'Connor, Amar K. Das
Computational Method for Temporal Pattern Discovery in Biomedical Genomic Databases. CSB (2005)
Mark A. Musen, Monica Crubézy, Martin J. O'Connor, David L. Buckeridge
Knowledge-Based Syndromic Surveillance for Bioterrorism. AAAI Spring Symposium: AI Technologies for Homeland Security (2005)
Martin J. O'Connor, Holger Knublauch, Samson W. Tu, Benjamin N. Grosof, Mike Dean, William E. Grosso, Mark A. Musen
Supporting Rule System Interoperability on the Semantic Web with SWRL. ISWC (2005)
Mary K. Goldstein, Robert W. Coleman, Samson W. Tu, Ravi D. Shankar, Martin J. O'Connor, Mark A. Musen, Susana B. Martins, Philip W. Lavori, Michael G. Shlipak, Eugene Oddone, Aneel A. Advani, Parisa Gholami, Brian B. Hoffman
Application of Information Technology: Translating Research into Practice: Organizational Issues in Implementing Automated Decision Support for Hypertension in Three Medical Centers. J. Am. Medical Informatics Assoc. 11 (5) (2004)
David L. Buckeridge, Martin J. O'Connor, Haobo Xu, Mark A. Musen
A Knowledge-Based Framework for Deploying Surveillance Problem Solvers. IKE (2004)
Martin J. O'Connor, David L. Buckeridge, Michael Choy, Monica Crubézy, Zachary Pincus, Mark A. Musen
BioSTORM: A System for Automated Surveillance of Diverse Data Sources. AMIA (2003)
Mary K. Goldstein, Brian B. Hoffman, Robert W. Coleman, Samson W. Tu, Ravi D. Shankar, Martin J. O'Connor, Susana B. Martins, Aneel A. Advani, Mark A. Musen
Patient Safety in Guideline-Based Decision Support for Hypertension Management: ATHENA DSS. J. Am. Medical Informatics Assoc. 9 (Supplement) (2002)
David L. Buckeridge, Justin Graham, Martin J. O'Connor, Michael Choy, Samson W. Tu, Mark A. Musen
Knowledge-based bioterrorism surveillance. AMIA (2002)
Martin J. O'Connor, Samson W. Tu, Mark A. Musen
The Chronus II temporal database mediator. AMIA (2002)
Martin J. O'Connor, Ravi D. Shankar, Samson W. Tu, Aneel A. Advani, Mary K. Goldstein, Robert W. Coleman, Mark A. Musen
A Client-Server Framework for Deploying a Decision-support System in a Resource-constrained Environment. AMIA (2001)
Martin J. O'Connor, William E. Grosso, Samson W. Tu, Mark A. Musen
RASTA: A Distributed Temporal Abstraction System to Facilitate Knowledge-Driven Monitoring of Clinical Databases. MedInfo (2001)
Mary K. Goldstein, Brian B. Hoffman, Robert W. Coleman, Samson W. Tu, Ravi D. Shankar, Martin J. O'Connor, Susana B. Martins, Aneel A. Advani, Mark A. Musen
Patient safety in guideline-based decision support for hypertension management: ATHENA DSS. AMIA (2001)
Mary K. Goldstein, Brian B. Hoffman, Robert W. Coleman, Mark A. Musen, Samson W. Tu, Aneel A. Advani, Ravi D. Shankar, Martin J. O'Connor
Implementing clinical practice guidelines while taking account of changing evidence: ATHENA DSS, an easily modifiable decision-support system for managing hypertension in primary care. AMIA (2000)
Martin J. O'Connor, Samson W. Tu, Mark A. Musen
Representation of temporal indeterminacy in clinical databases. AMIA (2000)
Aneel A. Advani, Samson W. Tu, Martin J. O'Connor, Robert W. Coleman, Mary K. Goldstein, Mark A. Musen
Integrating a modern knowledge-based system architecture with a legacy VA database: the ATHENA and EON projects at Stanford. AMIA (1999)
Mark A. Musen, Samson W. Tu, Ravi D. Shankar, Martin J. O'Connor, Aneel A. Advani
EON 2.0: Enhanced Middleware for Automation of Protocol-Directed Therapy. AMIA (1999)
Martin J. O'Connor, Samson W. Tu, Mark A. Musen
Applying temporal joins to clinical databases. AMIA (1999)
Martin J. O'Connor, Brendan Tangney, Vinny Cahill, Neville Harris
Micro-kernel support for migration. Distributed Syst. Eng. 1 (4) (1994)