Modeling Endogenous Coordination Using a Dynamic Language. - Jonathan Ozik; Michael J. North (WCSS, 2008)

Modeling Dynamic Multiscale Social Processes in Agent-Based Models. - Jonathan Ozik; David L. Sallach; Charles M. Macal (IEEE Intell. Syst., 2008)

Data Theory, Discourse Mining and Thresholds. - David L. Sallach; Jonathan Ozik (AAAI Fall Symposium: Complex Adaptive Systems and the Threshold Effect, 2009)

Test-driven agent-based simulation development. - Nicholson T. Collier; Jonathan Ozik (WSC, 2013)

The ReLogo agent-based modeling language. - Jonathan Ozik; Nicholson T. Collier; John T. Murphy; Michael J. North (WSC, 2013)

Complex adaptive systems modeling with Repast Simphony. - Michael J. North; Nicholson T. Collier; Jonathan Ozik; Eric R. Tatara; Charles M. Macal; Mark J. Bragen; Pam Sydelko (Complex Adapt. Syst. Model., 2013)

Modeling Solar PV Adoption: A Social-Behavioral Agent-Based Framework. - Charles M. Macal; Diane J. Graziano; Jonathan Ozik (AAAI Fall Symposia, 2014)

Adaptive Simulation with Repast Simphony and Swift. - Jonathan Ozik; Michael Wilde; Nicholson T. Collier; Charles M. Macal (Euro-Par Workshops (1), 2014)

Simulating water, individuals, and management using a coupled and distributed approach. - Jonathan Ozik; Nicholson T. Collier; John T. Murphy; Mark Altaweel; Richard B. Lammers; Alexander A. Prusevich; Andrew D. Kliskey; Lilian N. Alessa (WSC, 2014)

Large-Scale Agent-Based Modeling with Repast HPC: A Case Study in Parallelizing an Agent-Based Model. - Nicholson T. Collier; Jonathan Ozik; Charles M. Macal (Euro-Par Workshops, 2015)

Simulating regional hydrology and water management: an integrated agent-based approach. - John T. Murphy; Jonathan Ozik; Nicholson T. Collier; Mark Altaweel; Richard B. Lammers; Alexander A. Prusevich; Andrew D. Kliskey; Lilian N. Alessa (WSC, 2015)

Repast Simphony Statecharts. - Jonathan Ozik; Nicholson T. Collier; Todd Combs; Charles M. Macal; Michael J. North (J. Artif. Soc. Soc. Simul., 2015)

From desktop to Large-Scale Model Exploration with Swift/T. - Jonathan Ozik; Nicholson T. Collier; Justin M. Wozniak; Carmine Spagnuolo (WSC, 2016)

Endogenous Social Networks from Large-Scale Agent-Based Models. - Eric Tatara; Nicholson T. Collier; Jonathan Ozik; Charles M. Macal (IPDPS Workshops, 2017)

Streaming supercomputing needs workflow-enabled programming-in-the-large. - Justin M. Wozniak; Jonathan Ozik; Daniel S. Katz; Michael Wilde (CoRR, 2017)

Portable and Reusable Deep Learning Infrastructure with Containers to Accelerate Cancer Studies. - George F. Zaki; Justin M. Wozniak; Jonathan Ozik; Nicholson T. Collier; Thomas S. Brettin; Rick Stevens (ESPM2@SC, 2018)

Modeling an Information-based Community Health Intervention on the South Side of Chicago. - Chaitanya Kaligotla; Jonathan Ozik; Nicholson T. Collier; Charles M. Macal; Stacy T. Lindau; Emily Abramsohn; Elbert S. Huang (WSC, 2018)

Chisim: an Agent-based simulation Model of Social Interactions in a Large Urban Area. - Charles M. Macal; Nicholson T. Collier; Jonathan Ozik; Eric R. Tatara; John T. Murphy (WSC, 2018)

High-throughput cancer hypothesis testing with an integrated PhysiCell-EMEWS workflow. - Jonathan Ozik; Nicholson T. Collier; Justin M. Wozniak; Charles M. Macal; Chase Cockrell; Samuel H. Friedman; Ahmadreza Ghaffarizadeh; Randy W. Heiland; Gary An; Paul Macklin (BMC Bioinform., 2018)

CANDLE/Supervisor: a workflow framework for machine learning applied to cancer research. - Justin M. Wozniak; Rajeev Jain; Prasanna Balaprakash; Jonathan Ozik; Nicholson T. Collier; John Bauer; Fangfang Xia; Thomas S. Brettin; Rick Stevens; Jamaludin Mohd-Yusof; Cristina Garcia-Cardona; Brian Van Essen; et al. (BMC Bioinform., 2018)

Extreme-Scale Dynamic Exploration of a Distributed Agent-Based Model With the EMEWS Framework. - Jonathan Ozik; Nicholson T. Collier; Justin M. Wozniak; Charles M. Macal; Gary An (IEEE Trans. Comput. Soc. Syst., 2018)

Hybrid Simulation Development - Is It Just Analytics? - David Bell; Derek Groen; Navonil Mustafee; Jonathan Ozik; Steffen Straßburger (WSC, 2019)

Multi-Objective Model Exploration of Hepatitis C Elimination in an Agent-Based Model of People who Inject Drugs. - Eric Tatara; Nicholson T. Collier; Jonathan Ozik; Alexander Gutfraind; Scott J. Cotler; Harel Dahari; Marian Major; Basmattee Boodram (WSC, 2019)

Experiences in Developing a Distributed Agent-based Modeling Toolkit with Python. - Nicholson T. Collier; Jonathan Ozik; Eric R. Tatara (PyHPC@SC, 2020)

High-bypass Learning: Automated Detection of Tumor Cells That Significantly Impact Drug Response. - Justin M. Wozniak; Hyun Seung Yoo; Jamaludin Mohd-Yusof; Bogdan Nicolae; Nicholson T. Collier; Jonathan Ozik; Thomas S. Brettin; Rick Stevens (MLHPC/AI4S@SC, 2020)

Model Exploration of an Information-Based Healthcare Intervention Using Parallelization and Active Learning. - Chaitanya Kaligotla; Jonathan Ozik; Nicholson T. Collier; Charles M. Macal; Kelly Boyd; Jennifer A. Makelarski; Elbert S. Huang; Stacy T. Lindau (J. Artif. Soc. Soc. Simul., 2020)

Load Balancing Schemes for Large Synthetic Population-Based Complex Simulators. - Bogdan Mucenic; Chaitanya Kaligotla; Abby Stevens; Jonathan Ozik; Nicholson T. Collier; Charles M. Macal (IPDPS Workshops, 2021)

Application of Distributed Agent-based Modeling to Investigate Opioid Use Outcomes in Justice Involved Populations. - Eric Tatara; John A. Schneider; Madeline Quasebarth; Nicholson T. Collier; Harold Pollack; Basmattee Boodram; Samuel H. Friedman; Elizabeth Salisbury-Afshar; Mary Ellen Mackesy-Amiti; Jonathan Ozik (IPDPS Workshops, 2021)

A Community Roadmap for Scientific Workflows Research and Development. - Rafael Ferreira da Silva; Henri Casanova; Kyle Chard; Ilkay Altintas; Rosa M. Badia; Bartosz Balis; Tainã Coleman; Frederik Coppens; Frank Di Natale; Bjoern Enders; Thomas Fahringer; Rosa Filgueira; et al. (WORKS, 2021)

Workflows Community Summit: Bringing the Scientific Workflows Community Together. - Rafael Ferreira da Silva; Henri Casanova; Kyle Chard; Dan Laney; Dong H. Ahn; Shantenu Jha; Carole A. Goble; Lavanya Ramakrishnan; J. Luc Peterson; Bjoern Enders; Douglas Thain; Ilkay Altintas; et al. (CoRR, 2021)

Workflows Community Summit: Advancing the State-of-the-art of Scientific Workflows Management Systems Research and Development. - Rafael Ferreira da Silva; Henri Casanova; Kyle Chard; Tainã Coleman; Dan Laney; Dong H. Ahn; Shantenu Jha; Dorran Howell; Stian Soiland-Reyes; Ilkay Altintas; Douglas Thain; Rosa Filgueira; et al. (CoRR, 2021)

A population data-driven workflow for COVID-19 modeling and learning. - Jonathan Ozik; Justin M. Wozniak; Nicholson T. Collier; Charles M. Macal; Mickaël Binois (Int. J. High Perform. Comput. Appl., 2021)

Building and experimenting with an agent-based model to study the population-level impact of CommunityRx, a clinic-based community resource referral intervention. - Stacy Tessler Lindau; Jennifer A. Makelarski; Chaitanya Kaligotla; Emily Abramsohn; David G. Beiser; Chiahung Chou; Nicholson T. Collier; Elbert S. Huang; Charles M. Macal; Jonathan Ozik; Elizabeth L. Tung (PLoS Comput. Biol., 2021)

Nested active learning for efficient model contextualization and parameterization: pathway to generating simulated populations using multi-scale computational models. - Chase Cockrell; Jonathan Ozik; Nick Collier; Gary An (Simul., 2021)

Distributed Agent-Based Simulation with Repast4Py. - Nicholson T. Collier; Jonathan Ozik (WSC, 2022)

Sequentially calibrating a Bayesian microsimulation model to incorporate new information and assumptions. - Maria DeYoreo; Carolyn M. Rutter; Jonathan Ozik; Nicholson T. Collier (BMC Medical Informatics Decis. Mak., 2022)

PSI/J: A Portable Interface for Submitting, Monitoring, and Managing Jobs. - Mihael Hategan-Marandiuc; André Merzky; Nicholson T. Collier; Ketan Maheshwari; Jonathan Ozik; Matteo Turilli; Andreas Wilke; Justin M. Wozniak; Kyle Chard; Ian T. Foster; Rafael Ferreira da Silva; Shantenu Jha; et al. (e-Science, 2023)

Developing Distributed High-performance Computing Capabilities of an Open Science Platform for Robust Epidemic Analysis. - Nicholson T. Collier; Justin M. Wozniak; Abby Stevens; Yadu N. Babuji; Mickaël Binois; Arindam Fadikar; Alexandra Würth; Kyle Chard; Jonathan Ozik (IPDPS Workshops, 2023)

Trajectory-Oriented Optimization of Stochastic Epidemiological Models. - Arindam Fadikar; Nicholson T. Collier; Abby Stevens; Jonathan Ozik; Mickaël Binois; Kok Ben Toh (WSC, 2023)

NSF RESUME HPC Workshop: High-Performance Computing and Large-Scale Data Management in Service of Epidemiological Modeling. - Abby Stevens; Jonathan Ozik; Kyle Chard; Jaline Gerardin; Justin M. Wozniak (CoRR, 2023)

Modeling suggests that virion production cycles within individual cells is key to understanding acute hepatitis B virus infection kinetics. - Atesmachew Hailegiorgis; Yuji Ishida; Nicholson T. Collier; Michio Imamura; Zhenzhen Shi; Vladimir Reinharz; Masataka Tsuge; Danny Barash; Nobuhiko Hiraga; Hiroshi Yokomichi; Chise Tateno; Jonathan Ozik; et al. (PLoS Comput. Biol., 2023)

Towards Improved Uncertainty Quantification of Stochastic Epidemic Models Using Sequential Monte Carlo. - Arindam Fadikar; Abby Stevens; Nicholson T. Collier; Kok Ben Toh; Olga Morozova; Anna Hotton; Jared Clark; David Higdon; Jonathan Ozik (IPDPS (Workshops), 2024)

Distributed Model Exploration with EMEWS. - Nicholson T. Collier; Justin M. Wozniak; Arindam Fadikar; Abby Stevens; Jonathan Ozik (WSC, 2024)

Bayesian calibration of stochastic agent based model via random forest. - Connor Robertson; Cosmin Safta; Nicholson T. Collier; Jonathan Ozik; Jaideep Ray (CoRR, 2024)

Spatial inequities in access to medications for treatment of opioid use disorder highlight scarcity of methadone providers under counterfactual scenarios. - Eric Tatara; Qinyun Lin; Jonathan Ozik; Marynia Kolak; Nicholson T. Collier; Dylan Halpern; Luc Anselin; Harel Dahari; Basmattee Boodram; John A. Schneider (PLoS Comput. Biol., 2024)

A Portfolio Approach to Massively Parallel Bayesian Optimization. - Mickaël Binois; Nicholson T. Collier; Jonathan Ozik (J. Artif. Intell. Res., 2025)

Advancing calibration for stochastic agent-based models in epidemiology with Stein variational inference and Gaussian process surrogates. - Connor Robertson; Cosmin Safta; Nicholson T. Collier; Jonathan Ozik; Jaideep Ray (CoRR, 2025)

AERO: An autonomous platform for continuous research. - Valérie Hayot-Sasson; Abby Stevens; Nicholson T. Collier; Sudershan Sridhar; Kyle Conroy; J. Gregory Pauloski; Yadu N. Babuji; Maxime Gonthier; Nathaniel Hudson; Dante D. Sánchez-Gallegos; Ian T. Foster; Jonathan Ozik; et al. (CoRR, 2025)