Publications by authors named "William D Duncan"

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LinkML: An Open Data Modeling Framework.
Sierra A T Moxon, Harold Solbrig, Nomi L Harris, Patrick Kalita, Mark A Miller, William D Duncan

Gigascience· December 2025

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Extending mammal specimens with their essential phenotypic traits.
Bryan S McLean, David Bloom, Edward B Davis, Robert P Guralnick, Sharlene E Santana, William D Duncan

J Mammal· October 2025

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Representing Dental Caries and Dysbiosis within the Oral Microbiome in the Oral Health and Disease Ontology.
William D Duncan, Amarpreet Sabharwal, Alexander D Diehl, Nivedita Dutta, Matthew Diller

Res Sq· September 2025

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Utilizing BERTopic Modeling for Concept Discovery in the Domain of Gerotranscendence and Solitude.
B Damayanthi Jesudas, Finn Wilson, Rachel A Mavrovich, Sean Kindya, Feng-Yu Yeh, William D Duncan

Res Sq· September 2025

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Ontology-based modeling, integration, and analysis of heterogeneous clinical, pathological, and molecular kidney data for precision medicine.
Yongqun Oliver He, Laura Barisoni, Avi Z Rosenberg, Peter Robinson, Alexander D Diehl, William D Duncan

AMIA Annu Symp Proc· May 2025

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Ontology-based modeling, integration, and analysis of heterogeneous clinical, pathological, and molecular kidney data for precision medicine.
Yongqun Oliver He, Laura Barisoni, Avi Z Rosenberg, Peter N Robinson, Alexander D Diehl, William D Duncan

bioRxiv· February 2025

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Dynamic Retrieval Augmented Generation of Ontologies using Artificial Intelligence (DRAGON-AI).
Sabrina Toro, Anna V Anagnostopoulos, Susan M Bello, Kai Blumberg, Rhiannon Cameron, William D Duncan

J Biomed Semantics· October 2024

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Concretizing plan specifications as realizables within the OBO foundry.
William D Duncan, Matthew Diller, Damion Dooley, William R Hogan, John Beverley

J Biomed Semantics· August 2024

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MRIO: the Magnetic Resonance Imaging Acquisition and Analysis Ontology.
Alexander Bartnik, Lucas M Serra, Mackenzie Smith, William D Duncan, Lauren Wishnie

Neuroinformatics· July 2024

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Supragingival Bacterium Oral Infection-Induced Periodontitis and Robust miRNA Expression Kinetics.
Chairmandurai Aravindraja, Syam Jeepipalli, William D Duncan, Krishna Mukesh Vekariya, Shaik O Rahaman

Int J Mol Sci· June 2024

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Survival analysis of posterior composite restorations in National Dental PBRN general dentistry practices.
Thankam Thyvalikakath, Zasim Azhar Siddiqui, George Eckert, Michelle LaPradd, William D Duncan

J Dent· February 2024

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Aligning Standards Communities for Omics Biodiversity Data: Sustainable Darwin Core-MIxS Interoperability.
Raïssa Meyer, Ward Appeltans, William D Duncan, Mariya Dimitrova, Yi-Ming Gan

Biodivers Data J· October 2023

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Improving the Quality and Utility of Electronic Health Record Data through Ontologies.
Asiyah Yu Lin, Sivaram Arabandi, Thomas Beale, William D Duncan, Amanda Hicks

Standards (Basel)· September 2023

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MRIO: The Magnetic Resonance Imaging Acquisition and Analysis Ontology.
Alexander Bartnik, Lucas M Serra, Mackenzie Smith, William D Duncan, Lauren Wishnie

bioRxiv· August 2023

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The Environmental Conditions, Treatments, and Exposures Ontology (ECTO): connecting toxicology and exposure to human health and beyond.
Lauren E Chan, Anne E Thessen, William D Duncan, Nicolas Matentzoglu, Charles Schmitt

J Biomed Semantics· February 2023

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Ontology Development Kit: a toolkit for building, maintaining and standardizing biomedical ontologies.
Nicolas Matentzoglu, Damien Goutte-Gattat, Shawn Zheng Kai Tan, James P Balhoff, Seth Carbon, William D Duncan

Database (Oxford)· October 2022

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A comprehensive update on CIDO: the community-based coronavirus infectious disease ontology.
Yongqun He, Hong Yu, Anthony Huffman, Asiyah Yu Lin, Darren A Natale, William D Duncan

J Biomed Semantics· October 2022

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A Simple Standard for Sharing Ontological Mappings (SSSOM).
Nicolas Matentzoglu, James P Balhoff, Susan M Bello, Chris Bizon, Matthew Brush, William D Duncan

Database (Oxford)· May 2022

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A community effort for COVID-19 Ontology Harmonization.
Asiyah Yu Lin, Yuki Yamagata, William D Duncan, Leigh C Carmody, Tatsuya Kushida

CEUR Workshop Proc· January 2022

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Challenges in Bioinformatics Workflows for Processing Microbiome Omics Data at Scale.
Bin Hu, Shane Canon, Emiley A Eloe-Fadrosh, Anubhav, Michal Babinski, William D Duncan

Front Bioinform· January 2022

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OBO Foundry in 2021: operationalizing open data principles to evaluate ontologies.
Rebecca Jackson, Nicolas Matentzoglu, James A Overton, Randi Vita, James P Balhoff, William D Duncan

Database (Oxford)· October 2021

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Correction for Vangay et al., "Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities".
Pajau Vangay, Josephine Burgin, Anjanette Johnston, Kristen L Beck, Daniel C Berrios, William D Duncan

mSystems· May 2021

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Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities.
Pajau Vangay, Josephine Burgin, Anjanette Johnston, Kristen L Beck, Daniel C Berrios, William D Duncan

mSystems· February 2021

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Structuring, reuse and analysis of electronic dental data using the Oral Health and Disease Ontology.
William D Duncan, Thankam Thyvalikakath, Melissa Haendel, Carlo Torniai, Pedro Hernandez

J Biomed Semantics· August 2020

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The National Microbiome Data Collaborative: enabling microbiome science.
Elisha M Wood-Charlson, Anubhav, Deanna Auberry, Hannah Blanco, Mark I Borkum, William D Duncan

Nat Rev Microbiol· June 2020

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