Martin J. O'Connor

According to our database, Martin J. O'Connor authored at least 84 papers between 1994 and 2024.

Collaborative distances:

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

2024

Ensuring Adherence to Standards in Experiment-Related Metadata Entered Via Spreadsheets.

Martin J. O'Connor, Josef Hardi, Marcos Martínez Romero, Sowmya Somasundaram, Brendan Honick, Stephen A. Fisher, Ajay Pillai, Mark A. Musen

CoRR, 2024

2023

A Comprehensive Approach to Ensuring Quality in Spreadsheet-Based Metadata.

Martin J. O'Connor, Marcos Martínez Romero, Mete Ugur Akdogan, Josef Hardi, Mark A. Musen

CoRR, 2023

2022

Modeling community standards for metadata as templates makes data FAIR.

Mark A. Musen, Martin J. O'Connor, Erik Schultes, Marcos Martínez Romero, Josef Hardi, John Graybeal

CoRR, 2022

2019

Using association rule mining and ontologies to generate metadata recommendations from multiple biomedical databases.

Marcos Martínez Romero, Martin J. O'Connor, Attila L. Egyedi, Debra Willrett, Josef Hardi, John Graybeal, Mark A. Musen

Database J. Biol. Databases Curation, 2019

Unleashing the value of Common Data Elements through the CEDAR Workbench.

Martin J. O'Connor, Denise B. Warzel, Marcos Martínez Romero, Josef Hardi, Debra Willrett, Aras Efekhari, John Graybeal, Mark A. Musen

Proceedings of the AMIA 2019, 2019

2018

CEDAR OnDemand: a browser extension to generate ontology-based scientific metadata.

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

BMC Bioinform., 2018

Using semantic technologies to enhance metadata submissions to public repositories in biomedicine.

Attila L. Egyedi, Martin J. O'Connor, Marcos Martínez Romero, Debra Willrett, Josef Hardi, John Graybeal, Mark A. Musen

Proceedings of the 11th International Conference Semantic Web Applications and Tools for Life Sciences, 2018

Using Ontologies to Drive the Creation of High-Quality Metadata in CEDAR.

Rafael S. Gonçalves, Csongor I. Nyulas, Marcos Martínez Romero, Martin J. O'Connor, John Graybeal, Mark A. Musen

Proceedings of the ISWC 2018 Posters & Demonstrations, Industry and Blue Sky Ideas Tracks co-located with 17th International Semantic Web Conference (ISWC 2018), Monterey, USA, October 8th - to, 2018

2017

NCBO Ontology Recommender 2.0: an enhanced approach for biomedical ontology recommendation.

Marcos Martínez Romero, Clément Jonquet, Martin J. O'Connor, John Graybeal, Alejandro Pazos, Mark A. Musen

J. Biomed. Semant., 2017

Embracing Semantic Technology for Better Metadata Authoring in Biomedicine.

Attila L. Egyedi, Martin J. O'Connor, Marcos Martínez Romero, Debra Willrett, Josef Hardi, John Graybeal, Mark A. Musen

Proceedings of the 10th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4LS 2017), 2017

Metadata in the BioSample Online Repository are Impaired by Numerous Anomalies.

Rafael S. Gonçalves, Martin J. O'Connor, Marcos Martínez Romero, John Graybeal, Mark A. Musen

Proceedings of the First Workshop on Enabling Open Semantic Science co-located with 16th International Semantic Web Conference (ISWC 2017), 2017

The CEDAR Workbench: An Ontology-Assisted Environment for Authoring Metadata that Describe Scientific Experiments.

Rafael S. Gonçalves, Martin J. O'Connor, Marcos Martínez Romero, Attila L. Egyedi, Debra Willrett, John Graybeal, Mark A. Musen

Proceedings of the Semantic Web - ISWC 2017, 2017

Supporting Ontology-Based Standardization of Biomedical Metadata in the CEDAR Workbench.

Marcos Martínez Romero, Martin J. O'Connor, Michael Dorf, Jennifer Vendetti, Debra Willrett, Attila L. Egyedi, John Graybeal, Mark A. Musen

Proceedings of the 8th International Conference on Biomedical Ontology (ICBO 2017), Newcastle-upon-Tyne, United Kingdom, September 13th, 2017

Fast and Accurate Metadata Authoring Using Ontology-Based Recommendations.

Marcos Martínez Romero, Martin J. O'Connor, Ravi D. Shankar, Maryam Panahiazar, Debra Willrett, Attila Levente Egyedi, Olivier Gevaert, John Graybeal, Mark A. Musen

Proceedings of the AMIA 2017, 2017

2016

An Open Repository Model for Acquiring Knowledge About Scientific Experiments.

Martin J. O'Connor, Marcos Martínez Romero, Attila L. Egyedi, Debra Willrett, John Graybeal, Mark A. Musen

Proceedings of the Knowledge Engineering and Knowledge Management, 2016

CEDAR: Better Data Sharing Through the Authoring of Better Metadata.

Mark A. Musen, Martin J. O'Connor, Marcos Martínez Romero, Attila Levente Egyedi, Debra Willrett, John Graybeal

Proceedings of the AMIA 2016, 2016

2015

The center for expanded data annotation and retrieval.

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

J. Am. Medical Informatics Assoc., 2015

2014

Clustering rule bases using ontology-based similarity measures.

Saeed Hassanpour, Martin J. O'Connor, Amar K. Das

J. Web Semant., 2014

2013

A semantic-based method for extracting concept definitions from scientific publications: evaluation in the autism phenotype domain.

Saeed Hassanpour, Martin J. O'Connor, Amar K. Das

J. Biomed. Semant., 2013

2012

Adaptive System for Collaborative Online Laboratories.

Christophe Gravier, Jacques Fayolle, Jérémy Lardon, Martin J. O'Connor

IEEE Intell. Syst., 2012

A Pair of OWL 2 RL Reasoners.

Martin J. O'Connor, Amar K. Das

Proceedings of OWL: Experiences and Directions Workshop 2012, 2012

SWRL Rule Editor - A Web Application as Rich as Desktop Business Rule Editors.

João Paulo Orlando, Adriano Rivolli, Saeed Hassanpour, Martin J. O'Connor, Amar K. Das, Dilvan A. Moreira

Proceedings of the ICEIS 2012 - Proceedings of the 14th International Conference on Enterprise Information Systems, Volume 2, Wroclaw, Poland, 28 June, 2012

2011

Overcoming the ontology enrichment bottleneck with Quick Term Templates.

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

Appl. Ontology, 2011

Web-based Exploration of Temporal Data in Biomedicine.

Martin J. O'Connor, Mike Bingen, Amanda Richards, Samson W. Tu, Amar K. Das

Proceedings of the WEBIST 2011, 2011

SWEETInfo: a Web-Based System for Visualizing and Querying Temporal Data.

Martin J. O'Connor, Amanda Richards, Susana B. Martins, Mike Bingen, Samson W. Tu, Amar K. Das

Proceedings of the 5th International RuleML2011@BRF Challenge, 2011

A Framework for the Automatic Extraction of Rules from Online Text.

Saeed Hassanpour, Martin J. O'Connor, Amar K. Das

Proceedings of the Rule-Based Reasoning, Programming, and Applications, 2011

Acquiring OWL ontologies from XML documents.

Martin J. O'Connor, Amar K. Das

Proceedings of the 6th International Conference on Knowledge Capture (K-CAP 2011), 2011

Web-Based Querying and Temporal Visualization of Longitudinal Clinical Data.

Amanda Richards, Martin J. O'Connor, Susana B. Martins, Michael Uehara-Bingen, Samson W. Tu, Amar K. Das

Proceedings of the Artificial Intelligence in Medicine, 2011

A Rule-Based Method for Specifying and Querying Temporal Abstractions.

Martin J. O'Connor, Genaro Hernández, Amar K. Das

Proceedings of the Artificial Intelligence in Medicine, 2011

2010

SWRL-F - A Fuzzy Logic Extension of the Semantic Web Rule Language.

Tomasz Wiktor Wlodarczyk, Martin J. O'Connor, Chunming Rong, Mark A. Musen

Proceedings of the 6th International Workshop on Uncertainty Reasoning for the Semantic Web (URSW 2010), 2010

Mapping Master: A Flexible Approach for Mapping Spreadsheets to OWL.

Martin J. O'Connor, Christian Halaschek-Wiener, Mark A. Musen

Proceedings of the Semantic Web - ISWC 2010 - 9th International Semantic Web Conference, 2010

Visualizing Logical Dependencies in SWRL Rule Bases.

Saeed Hassanpour, Martin J. O'Connor, Amar K. Das

Proceedings of the Semantic Web Rules - International Symposium, 2010

M²: A Language for Mapping Spreadsheets to OWL.

Martin J. O'Connor, Christian Halaschek-Wiener, Mark A. Musen

Proceedings of the 7th International Workshop on OWL: Experiences and Directions (OWLED 2010), 2010

Semantic Reasoning with XML-based Biomedical Information Models.

Martin J. O'Connor, Amar K. Das

Proceedings of the MEDINFO 2010, 2010

A Software Tool for Visualizing, Managing and Eliciting SWRL Rules.

Saeed Hassanpour, Martin J. O'Connor, Amar K. Das

Proceedings of the Semantic Web: Research and Applications, 2010

A Method for Representing and Querying Temporal Information in OWL.

Martin J. O'Connor, Amar K. Das

Proceedings of the Biomedical Engineering Systems and Technologies, 2010

A Lightweight Model for Representing and Reasoning with Temporal Information in Biomedical Ontologies.

Martin J. O'Connor, Amar K. Das

Proceedings of the HEALTHINF 2010, 2010

2009

Knowledge-data integration for temporal reasoning in a clinical trial system.

Martin J. O'Connor, Ravi D. Shankar, David B. Parrish, Amar K. Das

Int. J. Medical Informatics, 2009

Software-engineering challenges of building and deploying reusable problem solvers.

Martin J. O'Connor, Csongor Nyulas, Samson W. Tu, David L. Buckeridge, Anna Okhmatovskaia, Mark A. Musen

Artif. Intell. Eng. Des. Anal. Manuf., 2009

SQWRL: A Query Language for OWL.

Martin J. O'Connor, Amar K. Das

Proceedings of the 5th International Workshop on OWL: Experiences and Directions (OWLED 2009), 2009

Axiomé: A Tool for the Elicitation and Management of SWRL Rules.

Saeed Hassanpour, Martin J. O'Connor, Amar K. Das

Proceedings of the 5th International Workshop on OWL: Experiences and Directions (OWLED 2009), 2009

A Rule Management and Elicitation Tool for SWRL Rule Bases.

Saeed Hassanpour, Martin J. O'Connor, Amar K. Das

Proceedings of the 3rd International RuleML-2009 Challenge, 2009

Exploration of SWRL Rule Bases through Visualization, Paraphrasing, and Categorization of Rules.

Saeed Hassanpour, Martin J. O'Connor, Amar K. Das

Proceedings of the Rule Interchange and Applications, International Symposium, 2009

Semantic Reasoning with Image Annotations for Tumor Assessment.

Mia A. Levy, Martin J. O'Connor, Daniel L. Rubin

Proceedings of the AMIA 2009, 2009

A Bayesian Network Model for Analysis of Detection Performance in Surveillance Systems.

Masoumeh T. Izadi, David L. Buckeridge, Anna Okhmatovskaia, Samson W. Tu, Martin J. O'Connor, Csongor Nyulas, Mark A. Musen

Proceedings of the AMIA 2009, 2009

2008

Model Formulation: Understanding Detection Performance in Public Health Surveillance: Modeling Aberrancy-detection Algorithms.

David L. Buckeridge, Anna Okhmatovskaia, Samson W. Tu, Martin J. O'Connor, Csongor Nyulas, Mark A. Musen

J. Am. Medical Informatics Assoc., 2008

The SWRLAPI: A Development Environment for Working with SWRL Rules.

Martin J. O'Connor, Ravi D. Shankar, Mark A. Musen, Amar K. Das, Csongor Nyulas

Proceedings of the Fifth OWLED Workshop on OWL: Experiences and Directions, 2008

An Ontology-Driven Framework for Deploying JADE Agent Systems.

Csongor Nyulas, Martin J. O'Connor, Samson W. Tu, David L. Buckeridge, Anna Okhmatovskaia, Mark A. Musen

Proceedings of the 2008 IEEE/WIC/ACM International Conference on Intelligent Agent Technology, 2008

Representing and Reasoning with Temporal Constraints in Clinical Trials Using Semantic Technologies.

Ravi D. Shankar, Susana B. Martins, Martin J. O'Connor, David B. Parrish, Amar K. Das

Proceedings of the Biomedical Engineering Systems and Technologies, 2008

An Ontological Approach to Representing and Reasoning with Temporal Constraints in Clinical Trial Protocols.

Ravi D. Shankar, Susana B. Martins, Martin J. O'Connor, Amar K. Das

Proceedings of the First International Conference on Health Informatics, 2008

Using an Integrated Ontology and Information Model for Querying and Reasoning about Phenotypes: The Case of Autism.

Samson W. Tu, Lakshika Tennakoon, Martin J. O'Connor, Ravi D. Shankar, Amar K. Das

Proceedings of the AMIA 2008, 2008

Predicting Outbreak Detection in Public Health Surveillance: Quantitative Analysis to Enable Evidence-Based Method Selection.

David L. Buckeridge, Anna Okhmatovskaia, Samson W. Tu, Martin J. O'Connor, Csongor Nyulas, Mark A. Musen

Proceedings of the AMIA 2008, 2008

Semantic Integration of Software Systems in Translational Clinical Trials.

Ravi D. Shankar, Martin J. O'Connor, David B. Parrish, Amar K. Das

Proceedings of the Semantic Scientific Knowledge Integration, 2008

Developing a Web-Based Application using OWL and SWRL.

Martin J. O'Connor, Ravi D. Shankar, Csongor Nyulas, Samson W. Tu, Amar K. Das

Proceedings of the AI Meets Business Rules and Process Management, 2008

2007

Querying the Semantic Web with SWRL.

Martin J. O'Connor, Samson W. Tu, Csongor Nyulas, Amar K. Das, Mark A. Musen

Proceedings of the Advances in Rule Interchange and Applications, International Symposium, 2007

Efficiently Querying Relational Databases Using OWL and SWRL.

Martin J. O'Connor, Ravi D. Shankar, Samson W. Tu, Csongor Nyulas, Amar K. Das, Mark A. Musen

Proceedings of the Web Reasoning and Rule Systems, First International Conference, 2007

Knowledge-Level Querying of Temporal Patterns in Clinical Research Systems.

Martin J. O'Connor, Ravi D. Shankar, David B. Parrish, Amar K. Das

Proceedings of the MEDINFO 2007 - Proceedings of the 12th World Congress on Health (Medical) Informatics, 2007

An Ontology-based Architecture for Integration of Clinical Trials Management Applications.

Ravi D. Shankar, Susana B. Martins, Martin J. O'Connor, David B. Parrish, Amar K. Das

Proceedings of the AMIA 2007, 2007

An Ontology-Driven Method for Hierarchical Mining of Temporal Patterns: Application to HIV Drug Resistance Research.

Rashmi Raj, Martin J. O'Connor, Amar K. Das

Proceedings of the AMIA 2007, 2007

Using Semantic Web Technologies for Knowledge-Driven Querying of Biomedical Data.

Martin J. O'Connor, Ravi D. Shankar, Samson W. Tu, Csongor Nyulas, Dave Parrish, Mark A. Musen, Amar K. Das

Proceedings of the Artificial Intelligence in Medicine, 2007

2006

Towards Semantic Interoperability in a Clinical Trials Management System.

Ravi D. Shankar, Susana B. Martins, Martin J. O'Connor, David B. Parrish, Amar K. Das

Proceedings of the Semantic Web - ISWC 2006, 5th International Semantic Web Conference, 2006

Epoch: an ontological framework to support clinical trials management.

Ravi D. Shankar, Susana B. Martins, Martin J. O'Connor, David B. Parrish, Amar K. Das

Proceedings of the International Workshop on Healthcare Information and Knowledge Management, 2006

Knowledge-Based System for Managing Complex Clinical Trials.

Ravi D. Shankar, Susana B. Martins, Martin J. O'Connor, David B. Parrish, Amar K. Das

Proceedings of the 19th IEEE International Symposium on Computer-Based Medical Systems (CBMS 2006), 2006

An Ontology-Driven Mediator for Querying Time-Oriented Biomedical Data.

Martin J. O'Connor, Ravi D. Shankar, Amar K. Das

Proceedings of the 19th IEEE International Symposium on Computer-Based Medical Systems (CBMS 2006), 2006

Ontology-Driven Mapping of Temporal Data in Biomedical Databases.

Preetha S. Narayanan, Martin J. O'Connor, Amar K. Das

Proceedings of the AMIA 2006, 2006

A Dynamic Distributed Architecture for Temporal Data Abstraction.

Vijay P. Chauhan, Martin J. O'Connor, Amar K. Das

Proceedings of the AMIA 2006, 2006

2005

Ontology-Centered Syndromic Surveillance for Bioterrorism.

Monica Crubézy, Martin J. O'Connor, David L. Buckeridge, Zachary Pincus, Mark A. Musen

IEEE Intell. Syst., 2005

Supporting Rule System Interoperability on the Semantic Web with SWRL.

Martin J. O'Connor, Holger Knublauch, Samson W. Tu, Benjamin N. Grosof, Mike Dean, William E. Grosso, Mark A. Musen

Proceedings of the Semantic Web - ISWC 2005, 4th International Semantic Web Conference, 2005

Computational Method for Temporal Pattern Discovery in Biomedical Genomic Databases.

Mohammed I. Rafiq, Martin J. O'Connor, Amar K. Das

Proceedings of the Fourth International IEEE Computer Society Computational Systems Bioinformatics Conference, 2005

Knowledge-Based Syndromic Surveillance for Bioterrorism.

Mark A. Musen, Monica Crubézy, Martin J. O'Connor, David L. Buckeridge

Proceedings of the AI Technologies for Homeland Security, 2005

2004

Application of Information Technology: Translating Research into Practice: Organizational Issues in Implementing Automated Decision Support for Hypertension in Three Medical Centers.

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

J. Am. Medical Informatics Assoc., 2004

A Knowledge-Based Framework for Deploying Surveillance Problem Solvers.

David L. Buckeridge, Martin J. O'Connor, Haobo Xu, Mark A. Musen

Proceedings of the International Conference on Information and Knowledge Engineering. IKE'04, 2004

2003

BioSTORM: A System for Automated Surveillance of Diverse Data Sources.

Martin J. O'Connor, David L. Buckeridge, Michael Choy, Monica Crubézy, Zachary Pincus, Mark A. Musen

Proceedings of the AMIA 2003, 2003

2002

Patient Safety in Guideline-Based Decision Support for Hypertension Management: ATHENA DSS.

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

J. Am. Medical Informatics Assoc., 2002

The Chronus II temporal database mediator.

Martin J. O'Connor, Samson W. Tu, Mark A. Musen

Proceedings of the AMIA 2002, 2002

Knowledge-based bioterrorism surveillance.

David L. Buckeridge, Justin Graham, Martin J. O'Connor, Michael Choy, Samson W. Tu, Mark A. Musen

Proceedings of the AMIA 2002, 2002

2001

RASTA: A Distributed Temporal Abstraction System to Facilitate Knowledge-Driven Monitoring of Clinical Databases.

Martin J. O'Connor, William E. Grosso, Samson W. Tu, Mark A. Musen

Proceedings of the MEDINFO 2001, 2001

A Client-Server Framework for Deploying a Decision-support System in a Resource-constrained Environment.

Martin J. O'Connor, Ravi D. Shankar, Samson W. Tu, Aneel A. Advani, Mary K. Goldstein, Robert W. Coleman, Mark A. Musen

Proceedings of the AMIA 2001, 2001

2000

Representation of temporal indeterminacy in clinical databases.

Martin J. O'Connor, Samson W. Tu, Mark A. Musen

Proceedings of the AMIA 2000, 2000

Implementing clinical practice guidelines while taking account of changing evidence: ATHENA DSS, an easily modifiable decision-support system for managing hypertension in primary care.

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

Proceedings of the AMIA 2000, 2000

1999

Applying temporal joins to clinical databases.

Martin J. O'Connor, Samson W. Tu, Mark A. Musen

Proceedings of the AMIA 1999, 1999

EON 2.0: Enhanced Middleware for Automation of Protocol-Directed Therapy.

Mark A. Musen, Samson W. Tu, Ravi D. Shankar, Martin J. O'Connor, Aneel A. Advani

Proceedings of the AMIA 1999, 1999

Integrating a modern knowledge-based system architecture with a legacy VA database: the ATHENA and EON projects at Stanford.

Aneel A. Advani, Samson W. Tu, Martin J. O'Connor, Robert W. Coleman, Mary K. Goldstein, Mark A. Musen

Proceedings of the AMIA 1999, 1999

1994

Micro-kernel support for migration.

Martin J. O'Connor, Brendan Tangney, Vinny Cahill, Neville Harris

Distributed Syst. Eng., 1994