William D. Duncan

Publication Activity (10 Years)

Years Active: 2006-2024
Publications (10 Years): 33

Top Topics

Domain Specific

Development Kit

Ontology Development

Top Venues

J. Biomed. Semant.

Database J. Biol. Databases Curation

Publications

William D. Duncan, Matthew Diller, Damion M. Dooley, William R. Hogan, John Beverley
Concretizing plan specifications as realizables within the OBO foundry. J. Biomed. Semant. 15 (1) (2024)
John Beverley, Robin McGill, Sam Smith, Jie Zheng, Giacomo De Colle, Finn Wilson, Matthew Diller, William D. Duncan, William R. Hogan, Yongqun He
Credentials in the Occupation Ontology. CoRR (2024)
Alexander Bartnik, Lucas M. Serra, Mackenzie T. Smith, William D. Duncan, Lauren Wishnie, Alan Ruttenberg, Michael G. Dwyer, Alexander D. Diehl
MRIO: the Magnetic Resonance Imaging Acquisition and Analysis Ontology. Neuroinformatics 22 (3) (2024)
Lauren E. Chan, Anne E. Thessen, William D. Duncan, Nicolas Matentzoglu, Charles Schmitt, Cynthia J. Grondin, Nicole Vasilevsky, Julie A. McMurry, Peter N. Robinson, Christopher J. Mungall, Melissa A. Haendel
The Environmental Conditions, Treatments, and Exposures Ontology (ECTO): connecting toxicology and exposure to human health and beyond. J. Biomed. Semant. 14 (1) (2023)
Sabrina Toro, Anna V. Anagnostopoulos, Sue Bello, Kai Blumberg, Rhiannon Cameron, Leigh Carmody, Alexander D. Diehl, Damion M. Dooley, William D. Duncan, Petra Fey, Pascale Gaudet, Nomi L. Harris, Marcin P. Joachimiak, Leila Kiani, Tiago Lubiana, Monica C. Munoz-Torres, Shawn T. O'Neil, David Osumi-Sutherland, Aleix Puig, Justin P. Reese, Leonore Reiser, Sofia M. C. Robb, Troy Ruemping, James Seager, Eric Sid, Raymund Stefancsik, Magalie Weber, Valerie Wood, Melissa A. Haendel, Christopher J. Mungall
Dynamic Retrieval Augmented Generation of Ontologies using Artificial Intelligence (DRAGON-AI). CoRR (2023)
John Beverley, Sam Smith, Matthew Diller, William D. Duncan, Jie Zheng, John W. Judkins, William R. Hogan, Robin McGill, Damion M. Dooley, Yongqun He
The Occupation Ontology (OccO): Building a Bridge between Global Occupational Standards. JOWO (2023)
Nicolas Matentzoglu, Damien Goutte-Gattat, Shawn Zheng Kai Tan, James P. Balhoff, Seth Carbon, Anita R. Caron, William D. Duncan, Joe E. Flack, Melissa A. Haendel, Nomi L. Harris, William R. Hogan, Charles Tapley Hoyt, Rebecca C. Jackson, Hyeongsik Kim, Hüseyin Kir, Martin Larralde, Julie A. McMurry, James A. Overton, Bjoern Peters, Clare Pilgrim, Raymund Stefancsik, Sofia M. C. Robb, Sabrina Toro, Nicole A. Vasilevsky, Ramona L. Walls, Christopher J. Mungall, David Osumi-Sutherland
Ontology Development Kit: a toolkit for building, maintaining, and standardising biomedical ontologies. CoRR (2022)
Nicolas Matentzoglu, James P. Balhoff, Susan M. Bello, Chris Bizon, Matthew H. Brush, Tiffany J. Callahan, Christopher G. Chute, William D. Duncan, Chris T. A. Evelo, Davera Gabriel, John Graybeal, Alasdair J. G. Gray, Benjamin M. Gyori, Melissa A. Haendel, Henriette Harmse, Nomi L. Harris, Ian Harrow, Harshad Hegde, Amelia L. Hoyt, Charles Tapley Hoyt, Dazhi Jiao, Ernesto Jiménez-Ruiz, Simon Jupp, Hyeongsik Kim, Sebastian Köhler, Thomas Liener, Qinqin Long, James Malone, James A. McLaughlin, Julie A. McMurry, Sierra Moxon, Monica C. Munoz-Torres, David Osumi-Sutherland, James A. Overton, Bjoern Peters, Tim E. Putman, Núria Queralt-Rosinach, Kent A. Shefchek, Harold Solbrig, Anne E. Thessen, Tania Tudorache, Nicole A. Vasilevsky, Alex H. Wagner, Christopher J. Mungall
A Simple Standard for Sharing Ontological Mappings (SSSOM). Database J. Biol. Databases Curation 2022 (2022) (2022)
Yongqun He, Hong Yu, Anthony Huffman, Asiyah Yu Lin, Darren A. Natale, John Beverley, Ling Zheng, Yehoshua Perl, Zhigang Wang, Yingtong Liu, Edison Ong, Yang Wang, Philip Huang, Long Tran, Jinyang Du, Zalan Shah, Easheta Shah, Roshan Desai, Hsin-Hui Huang, Yujia Tian, Eric Merrell, William D. Duncan, Sivaram Arabandi, Lynn M. Schriml, Jie Zheng, Anna Maria Masci, Liwei Wang, Hongfang Liu, Fatima Zohra Smaili, Robert Hoehndorf, Zoë May Pendlington, Paola Roncaglia, Xianwei Ye, Jiangan Xie, Yi-Wei Tang, Xiaolin Yang, Suyuan Peng, Luxia Zhang, Luonan Chen, Junguk Hur, Gilbert S. Omenn, Brian D. Athey, Barry Smith
A comprehensive update on CIDO: the community-based coronavirus infectious disease ontology. J. Biomed. Semant. 13 (1) (2022)
Nicolas Matentzoglu, Damien Goutte-Gattat, Shawn Zheng Kai Tan, James P. Balhoff, Seth Carbon, Anita R. Caron, William D. Duncan, Joe E. Flack, Melissa A. Haendel, Nomi L. Harris, William R. Hogan, Charles Tapley Hoyt, Rebecca C. Jackson, Hyeongsik Kim, Hüseyin Kir, Martin Larralde, Julie A. McMurry, James A. Overton, Bjoern Peters, Clare Pilgrim, Raymund Stefancsik, Sofia M. C. Robb, Sabrina Toro, Nicole A. Vasilevsky, Ramona L. Walls, Christopher J. Mungall, David Osumi-Sutherland
Ontology Development Kit: a toolkit for building, maintaining and standardizing biomedical ontologies. Database J. Biol. Databases Curation 2022 (2022) (2022)
Asiyah Yu Lin, Yuki Yamagata, William D. Duncan, Leigh C. Carmody, Tatsuya Kushida, Hiroshi Masuya, John Beverley, Biswanath Dutta, Michael DeBellis, Zoë May Pendlington, Paola Roncaglia, Yongqun He
A Community Effort for COVID-19 Ontology Harmonization. ICBO (2021)
Marcin P. Joachimiak, Harshad Hegde, William D. Duncan, Justin T. Reese, Luca Cappelletti, Anne E. Thessen, Christopher J. Mungall
KG-Microbe: A Reference Knowledge-Graph and Platform for Harmonized Microbial Information. ICBO (2021)
Nicolas Matentzoglu, James P. Balhoff, Susan M. Bello, Chris Bizon, Matthew H. Brush, Tiffany J. Callahan, Christopher G. Chute, William D. Duncan, Chris T. A. Evelo, Davera Gabriel, John Graybeal, Alasdair J. G. Gray, Benjamin M. Gyori, Melissa A. Haendel, Henriette Harmse, Nomi L. Harris, Ian Harrow, Harshad Hegde, Amelia L. Hoyt, Charles Tapley Hoyt, Dazhi Jiao, Ernesto Jiménez-Ruiz, Simon Jupp, Hyeongsik Kim, Sebastian Köhler, Thomas Liener, Qinqin Long, James Malone, James A. McLaughlin, Julie A. McMurry, Sierra A. T. Moxon, Monica C. Munoz-Torres, David Osumi-Sutherland, James A. Overton, Bjoern Peters, Tim E. Putman, Núria Queralt-Rosinach, Kent A. Shefchek, Harold Solbrig, Anne E. Thessen, Tania Tudorache, Nicole A. Vasilevsky, Alex H. Wagner, Christopher J. Mungall
A Simple Standard for Sharing Ontological Mappings (SSSOM). CoRR (2021)
Rebecca C. Jackson, Nicolas Matentzoglu, James A. Overton, Randi Vita, James P. Balhoff, Pier Luigi Buttigieg, Seth Carbon, Mélanie Courtot, Alexander D. Diehl, Damion M. Dooley, William D. Duncan, Nomi L. Harris, Melissa A. Haendel, Suzanna E. Lewis, Darren A. Natale, David Osumi-Sutherland, Alan Ruttenberg, Lynn M. Schriml, Barry Smith, Christian J. Stoeckert Jr., Nicole A. Vasilevsky, Ramona L. Walls, Jie Zheng, Christopher J. Mungall, Bjoern Peters
OBO Foundry in 2021: operationalizing open data principles to evaluate ontologies. Database J. Biol. Databases Curation 2021 (2021)
Sierra A. T. Moxon, Harold Solbrig, Deepak R. Unni, Dazhi Jiao, Richard M. Bruskiewich, James P. Balhoff, Gaurav Vaidya, William D. Duncan, Harshad Hegde, Mark Miller, Matthew H. Brush, Nomi L. Harris, Melissa A. Haendel, Christopher J. Mungall
The Linked Data Modeling Language (LinkML): A General-Purpose Data Modeling Framework Grounded in Machine-Readable Semantics. ICBO (2021)
Bin Hu, Shane Canon, Emiley A. Eloe-Fadrosh, Fnu Anubhav, Michal Babinski, Yuri Corilo, Karen Davenport, William D. Duncan, Kjiersten Fagnan, Mark Flynn, Brian Foster, David Hays, Marcel Huntemann, Elais Player Jackson, Julia Kelliher, Po-E Li, Chien-Chi Lo, Douglas Mans, Lee Ann McCue, Nigel Mouncey, Christopher J. Mungall, Paul D. Piehowski, Samuel O. Purvine, Montana Smith, Neha Jacob Varghese, Donald Winston, Yan Xu, Patrick S. G. Chain
Challenges in Bioinformatics Workflows for Processing Microbiome Omics Data at Scale. Frontiers Bioinform. 1 (2021)
William D. Duncan, Faiza Ahmed, Fnu Anubhav, Jeffrey Baumes, Jonathan Beezley, Mark Borkum, Lisa M. Bramer, Shane Canon, Patrick S. G. Chain, Danielle Christianson, Yuri Corilo, Karen Davenport, Brandon Davis, Meghan Drake, Kjiersten Fagnan, Mark Flynn, David Hays, Bin Hu, Marcel Huntemann, Julia Kelliher, Sofya Lebedeva, Po-E Li, Mary Lipton, Chien-Chi Lo, Douglas Mans, Stanton Martin, Lee Ann McCue, David Millard, Kayd Miller, Nigel Mouncey, Paul D. Piehowski, Elais Player Jackson, Anastasiya Prymolenna, Samuel O. Purvine, Tbk Reddy, Rachel Richardson, Migun Shakya, Montana Smith, Jagadish Chandrabose Sundaramurthi, Mark A. Miller, Deepak R. Unni, Pajau Vangay, Bruce Wilson, Donald Winston, Elisha A. Wood-Charlson, Yan Xu, Emiley A. Eloe-Fadrosh, Christopher J. Mungall
Leveraging Ontologies within the National Microbiome Data Collaborative. ICBO (2021)
Lauren E. Chan, Nicole A. Vasilevsky, Anne E. Thessen, Nicolas Matentzoglu, William D. Duncan, Christopher J. Mungall, Melissa A. Haendel
A Semantic Model Leveraging Pattern-based Ontology Terms to Bridge Environmental Exposures and Health Outcomes. ICBO (2021)
Thankam Paul Thyvalikakath, William D. Duncan, Zasim Azhar Siddiqui, Michelle LaPradd, George Eckert, Titus Schleyer, Donald Rindal, Mark Jurkovich, Tracy Shea, Gregg H. Gilbert
Leveraging Electronic Dental Record Data for Clinical Research in the National Dental PBRN Practices. Appl. Clin. Inform. 11 (02) (2020)
Yongqun He, Hong Yu, Edison Ong, Yang Wang, Yingtong Liu, Anthony Huffman, Hsin-Hui Huang, John Beverley, Asiyah Yu Lin, William D. Duncan, Sivaram Arabandi, Jiangan Xie, Junguk Hur, Xiaolin Yang, Luonan Chen, Gilbert S. Omenn, Brian D. Athey, Barry Smith
CIDO: The Community-Based Coronavirus Infectious Disease Ontology. ICBO/ODLS (2020)
William D. Duncan, Thankam Thyvalikakath, Melissa A. Haendel, Carlo Torniai, Pedro Hernández, Mei Song, Amit Acharya, Daniel J. Caplan, Titus Schleyer, Alan Ruttenberg
Structuring, reuse and analysis of electronic dental data using the Oral Health and Disease Ontology. J. Biomed. Semant. 11 (1) (2020)
Lucas M. Serra, Michael G. Dwyer, William D. Duncan, Alexander D. Diehl
Early steps of an Ontology for Magnetic Resonance Imaging: MRIO. ICBO (2019)
Lucas M. Serra, William D. Duncan, Alexander D. Diehl
An ontology for representing hematologic malignancies: the cancer cell ontology. BMC Bioinform. (5) (2019)
Mackenzie T. Smith, Lauren M. Wishnie, William D. Duncan, Mark Jensen, Alexander D. Diehl
Tripartite Term Enrichment Analysis of Multiple Sclerosis Patient Reported Outcomes. ICBO (2019)
Yongqun He, William D. Duncan, Daniel J. Cooper, Jens Hansen, Ravi Iyengar, Edison Ong, Kendal Walker, Omar Tibi, Sam Smith, Lucas M. Serra, Jie Zheng, Sirarat Sarntivijai, Stephan C. Schürer, K. Sue O'Shea, Alexander D. Diehl
OSCI: standardized stem cell ontology representation and use cases for stem cell investigation. BMC Bioinform. (5) (2019)
William D. Duncan, Philip Whalen, Aditya Muralidharan, Jonathan Kiddy
Enhancing Semantic Analysis of Pathology Reports. ICBO (2018)
J. Neil Otte, Cooper Stansbury, Jonathan Vajda, Frank J. Manion, Elizabeth Umberfield, Yongqun He, Marcelline R. Harris, Jihad S. Obeid, Mathias Brochhausen, William D. Duncan, Cui Tao
Coordinated Evolution of Ontologies of Informed Consent. ICBO (2018)
William D. Duncan, Thankam Thyvalikakath, Zasim Azhar Siddiqui, Michelle LaPradd, Chen Wen, Jim Zheng, Anna Roberts, Daniel Hood, Aparna Manimangala, Donald Rindal, Mark Jurkovich, Tracy Shea, David Bogacz, Terrence Yu, Jeffry Fellows, Valerie Gordan, Gregg H. Gilbert
Using the Oral Health and Disease Ontology to Study Dental Outcomes in National Dental PBRN Practices. ICBO (2018)
William D. Duncan, Carmelo Gaudioso, Alexander D. Diehl
Towards an Ontology for Representing Malignant Neoplasms. ICBO (2017)
Darren A. Natale, Cecilia N. Arighi, Judith A. Blake, Jonathan P. Bona, Chuming Chen, Sheng-Chih Chen, Karen R. Christie, Julie Cowart, Peter D'Eustachio, Alexander D. Diehl, Harold J. Drabkin, William D. Duncan, Hongzhan Huang, Jia Ren, Karen Ross, Alan Ruttenberg, Veronica Shamovsky, Barry Smith, Qinghua Wang, Jian Zhang, Abdelrahman Elsayed, Cathy H. Wu
Protein Ontology (PRO): enhancing and scaling up the representation of protein entities. Nucleic Acids Res. 45 (Database-Issue) (2017)
William D. Duncan
Ontological distinctions between hardware and software. Appl. Ontology 12 (1) (2017)
William D. Duncan, Travis Allen, Jonathan P. Bona, Olivia Helfer, Barry Smith, Alan Ruttenberg, Alexander D. Diehl
The ImmPort Antibody Ontology. ICBO/BioCreative (2016)
Patrick L. Ray, Alexander P. Cox, Mark Jensen, Travis Allen, William D. Duncan, Alexander D. Diehl
Representing vision and blindness. J. Biomed. Semant. 7 (2016)
Mark Jensen, Alexander P. Cox, Jonathan P. Bona, William D. Duncan, Patrick L. Ray, Alexander D. Diehl
Applications of OBI 'assay'. ICBO (2014)
Erik Thomsen, Frederick Reed, William D. Duncan, Tatanya Malyuta, Barry Smith
Ontological Support for Living Plan Specification, Execution and Evaluation. STIDS (2014)
William D. Duncan, Titus Schleyer, Alan Ruttenberg
Representing Intracoronal Tooth Restorations in the Ontology for Oral Health and Disease. ICBO (2013)
Mark Jensen, Alexander P. Cox, Naveed Chaudhry, Marcus Ng, Donat Sule, William D. Duncan, Patrick Ray, Bianca Weinstock-Guttman, Barry Smith, Alan Ruttenberg, Kinga Szigeti, Alexander D. Diehl
The neurological disease ontology. J. Biomed. Semant. 4 (2013)
Rouhshi Low, Mark Burdon, Sharon Christensen, William D. Duncan, Paul Barnes, Ernest Foo
Protecting the protectors: Legal liabilities from the use of Web 2.0 for Australian disaster response. ISTAS (2010)
Mark Burdon, Juan Manuel González Nieto, Sharon Christensen, Ed Dawson, William D. Duncan, Bill Lane
Access Control in Federated Databases: How Legal Issues Shape Security. EGOV (2007)
Martin P. Betts, Peter Black, Sharon Christensen, Ed Dawson, Rong Du, William D. Duncan, Ernest Foo, Juan Manuel González Nieto
Towards Secure and Legal E-Tendering. J. Inf. Technol. Constr. 11 (2006)