Comparing Online Learning Algorithms to Stochastic Approaches for the Multi-Period Newsvendor Problem. - Shawn T. O'Neil; Amitabh Chaudhary (ALENEX, 2008)

Robust haplotype reconstruction of eukaryotic read data with Hapler. - Shawn T. O'Neil; Scott J. Emrich (ICCABS, 2011)

The topology aware file distribution problem. - Shawn T. O'Neil; Amitabh Chaudhary; Danny Z. Chen; Haitao Wang 001 (J. Comb. Optim., 2013)

Implementing Persistent O(1) Stacks and Queues in R. - Shawn T. O'Neil (R J., 2015)

Newsvendor Problems with Demand Shocks and Unknown Demand Distributions. - Shawn T. O'Neil; Xuying Zhao; Daewon Sun; Jerry C. Wei (Decis. Sci., 2016)

TidyTensor: Utilities for multidimensional arrays as named hierarchical structures. - Shawn T. O'Neil (J. Open Source Softw., 2021)

Demonstrating an approach for evaluating synthetic geospatial and temporal epidemiologic data utility: results from analyzing >1.8 million SARS-CoV-2 tests in the United States National COVID Cohort Collaborative (N3C). - Jason A. Thomas; Randi E. Foraker; Noa Zamstein; Jon D. Morrow; Philip R. O. Payne; Adam B. Wilcox; Melissa A. Haendel; Christopher G. Chute; Kenneth R. Gersing; Anita Walden; Tellen D. Bennett; David A. Eichmann; et al. (J. Am. Medical Informatics Assoc., 2022)

Dynamic Retrieval Augmented Generation of Ontologies using Artificial Intelligence (DRAGON-AI). - Sabrina Toro; Anna V. Anagnostopoulos; Sue Bello; Kai Lewis Blumberg; Rhiannon Cameron; Leigh Carmody; Alexander D. Diehl; Damion M. Dooley; William D. Duncan; Petra Fey; Pascale Gaudet; Nomi L. Harris; et al. (CoRR, 2023)

CurateGPT: A flexible language-model assisted biocuration tool. - J. Harry Caufield; Carlo Kroll; Shawn T. O'Neil; Justin T. Reese; Marcin P. Joachimiak; Harshad Hegde; Nomi L. Harris; Madan Krishnamurthy; James A. McLaughlin; Damian Smedley; Melissa A. Haendel; Peter N. Robinson; et al. (CoRR, 2024)

Finding Long-COVID: temporal topic modeling of electronic health records from the N3C and RECOVER programs. - Shawn T. O'Neil; Charisse R. Madlock-Brown; Kenneth Wilkins; Brenda M. McGrath; Hannah E. Davis; Gina S. Assaf; Hannah Wei; Parya Zareie; Evan T. French; Johanna Loomba; Julie A. McMurry; Andrea Zhou; et al. (npj Digit. Medicine, 2024)

Dynamic Retrieval Augmented Generation of Ontologies using Artificial Intelligence (DRAGON-AI). - Sabrina Toro; Anna V. Anagnostopoulos; Susan M. Bello; Kai Lewis Blumberg; Rhiannon Cameron; Leigh Carmody; Alexander D. Diehl; Damion M. Dooley; William D. Duncan; Petra Fey; Pascale Gaudet; Nomi L. Harris; et al. (J. Biomed. Semant., 2024)

Integrating multiple indices of habitat quality to inform habitat management for a sagebrush indicator species. - Megan C. Milligan; Peter S. Coates; Shawn T. O'Neil; Brianne E. Brussee; Michael P. Chenaille; Derek A. Friend; Kathleen Steele; Justin R. Small; Timothy S. Bowden; Arlene D. Kosic; Katherine S. Miller; Michael L. Casazza (Ecol. Informatics, 2025)

National COVID Cohort Collaborative data enhancements: a path for expanding common data models. - Kellie M. Walters; Marshall Clark; Sofia Dard; Stephanie S. Hong; Elizabeth Kelly; Kristin Kostka; Adam M. Lee; Robert T. Miller; Michele Morris; Matvey B. Palchuk; Emily R. Pfaff; Adam B. Wilcox; et al. (J. Am. Medical Informatics Assoc., 2025)