Jonathan Ozik

52 papers B 1Misc 12Journal 24Unranked 15
YearRankTypeTitle / Venue / Authors
2025 J jnl
A Portfolio Approach to Massively Parallel Bayesian Optimization.
J. Artif. Intell. Res.
Mickaël Binois, Nicholson T. Collier, Jonathan Ozik
2025 J jnl
AERO: An autonomous platform for continuous research.
CoRR
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, Kyle Chard
2025 J jnl
Advancing calibration for stochastic agent-based models in epidemiology with Stein variational inference and Gaussian process surrogates.
CoRR
Connor Robertson, Cosmin Safta, Nicholson T. Collier, Jonathan Ozik, Jaideep Ray
2025 — conf
Automation and Collaboration in Complex Epidemiological Workflows with OSPREY.
ICPP Workshops
Jonathan Ozik, Nicholson T. Collier, Arindam Fadikar, Justin M. Wozniak, Valérie Hayot-Sasson, Kyle Conroy, Kyle Chard, Jacqueline Wentz, Erin Acquesta, Jaideep Ray
2024 J jnl
Bayesian calibration of stochastic agent based model via random forest.
CoRR
Connor Robertson, Cosmin Safta, Nicholson T. Collier, Jonathan Ozik, Jaideep Ray
2024 Misc conf
Distributed Model Exploration with EMEWS.
WSC
Nicholson T. Collier, Justin M. Wozniak, Arindam Fadikar, Abby Stevens, Jonathan Ozik
2024 J jnl
Spatial inequities in access to medications for treatment of opioid use disorder highlight scarcity of methadone providers under counterfactual scenarios.
PLoS Comput. Biol.
Eric Tatara, Qinyun Lin, Jonathan Ozik, Marynia Kolak, Nicholson T. Collier, Dylan Halpern, Luc Anselin, Harel Dahari, Basmattee Boodram, John A. Schneider
2024 — conf
Towards Improved Uncertainty Quantification of Stochastic Epidemic Models Using Sequential Monte Carlo.
IPDPS (Workshops)
Arindam Fadikar, Abby Stevens, Nicholson T. Collier, Kok Ben Toh, Olga Morozova, Anna Hotton, Jared Clark, David Higdon, Jonathan Ozik
2023 — conf
Developing Distributed High-performance Computing Capabilities of an Open Science Platform for Robust Epidemic Analysis.
IPDPS Workshops
Nicholson T. Collier, Justin M. Wozniak, Abby Stevens, Yadu N. Babuji, Mickaël Binois, Arindam Fadikar, Alexandra Würth, Kyle Chard, Jonathan Ozik
2023 J jnl
Developing Distributed High-performance Computing Capabilities of an Open Science Platform for Robust Epidemic Analysis.
CoRR
Nicholson T. Collier, Justin M. Wozniak, Abby Stevens, Yadu N. Babuji, Mickaël Binois, Arindam Fadikar, Alexandra Würth, Kyle Chard, Jonathan Ozik
2023 J jnl
Modeling suggests that virion production cycles within individual cells is key to understanding acute hepatitis B virus infection kinetics.
PLoS Comput. Biol.
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, Susan L. Uprichard, Kazuaki Chayama, Harel Dahari
2023 J jnl
NSF RESUME HPC Workshop: High-Performance Computing and Large-Scale Data Management in Service of Epidemiological Modeling.
CoRR
Abby Stevens, Jonathan Ozik, Kyle Chard, Jaline Gerardin, Justin M. Wozniak
2023 B conf
PSI/J: A Portable Interface for Submitting, Monitoring, and Managing Jobs.
e-Science
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, Daniel E. Laney
2023 J jnl
PSI/J: A Portable Interface for Submitting, Monitoring, and Managing Jobs.
CoRR
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, Daniel E. Laney
2023 Misc conf
Trajectory-Oriented Optimization of Stochastic Epidemiological Models.
WSC
Arindam Fadikar, Nicholson T. Collier, Abby Stevens, Jonathan Ozik, Mickaël Binois, Kok Ben Toh
2022 Misc conf
Distributed Agent-Based Simulation with Repast4Py.
WSC
Nicholson T. Collier, Jonathan Ozik
2022 J jnl
Sequentially calibrating a Bayesian microsimulation model to incorporate new information and assumptions.
BMC Medical Informatics Decis. Mak.
Maria DeYoreo, Carolyn M. Rutter, Jonathan Ozik, Nicholson T. Collier
2021 — conf
A Community Roadmap for Scientific Workflows Research and Development.
WORKS
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, Grigori Fursin, Daniel Garijo, Carole A. Goble, Dorran Howell, Shantenu Jha, Daniel S. Katz, Daniel E. Laney, Ulf Leser, Maciej Malawski, Kshitij Mehta, Loïc Pottier, Jonathan Ozik, J. Luc Peterson, Lavanya Ramakrishnan, Stian Soiland-Reyes, Douglas Thain, Matthew Wolf
2021 J jnl
A Community Roadmap for Scientific Workflows Research and Development.
CoRR
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, Grigori Fursin, Daniel Garijo, Carole A. Goble, Dorran Howell, Shantenu Jha, Daniel S. Katz, Daniel E. Laney, Ulf Leser, Maciej Malawski, Kshitij Mehta, Loïc Pottier, Jonathan Ozik, J. Luc Peterson, Lavanya Ramakrishnan, Stian Soiland-Reyes, Douglas Thain, Matthew Wolf
2021 J jnl
A population data-driven workflow for COVID-19 modeling and learning.
Int. J. High Perform. Comput. Appl.
Jonathan Ozik, Justin M. Wozniak, Nicholson T. Collier, Charles M. Macal, Mickaël Binois
2021 — conf
Application of Distributed Agent-based Modeling to Investigate Opioid Use Outcomes in Justice Involved Populations.
IPDPS Workshops
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
2021 J jnl
Building and experimenting with an agent-based model to study the population-level impact of CommunityRx, a clinic-based community resource referral intervention.
PLoS Comput. Biol.
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
2021 — conf
Load Balancing Schemes for Large Synthetic Population-Based Complex Simulators.
IPDPS Workshops
Bogdan Mucenic, Chaitanya Kaligotla, Abby Stevens, Jonathan Ozik, Nicholson T. Collier, Charles M. Macal
2021 J jnl
Nested active learning for efficient model contextualization and parameterization: pathway to generating simulated populations using multi-scale computational models.
Simul.
Chase Cockrell, Jonathan Ozik, Nick Collier, Gary An
2021 J jnl
Workflows Community Summit: Advancing the State-of-the-art of Scientific Workflows Management Systems Research and Development.
CoRR
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, Yadu N. Babuji, Rosa M. Badia, Bartosz Balis, Silvina Caíno-Lores, Scott Callaghan, Frederik Coppens, Michael R. Crusoe, Kaushik De, Frank Di Natale, Tu Mai Anh Do, Bjoern Enders, Thomas Fahringer, Anne Fouilloux, Grigori Fursin, Alban Gaignard, Alex Ganose, Daniel Garijo, Sandra Gesing, Carole A. Goble, Adil Hasan, Sebastiaan Huber, Daniel S. Katz, Ulf Leser, Douglas Lowe, Bertram Ludäscher, Ketan Maheshwari, Maciej Malawski, Rajiv Mayani, Kshitij Mehta, André Merzky, Todd S. Munson, Jonathan Ozik, Loïc Pottier, Sashko Ristov, Mehdi Roozmeh, Renan Souza, Frédéric Suter, Benjamín Tovar, Matteo Turilli, Karan Vahi, Alvaro Vidal-Torreira, Wendy R. Whitcup, Michael Wilde, Alan R. Williams, Matthew Wolf, Justin M. Wozniak
2021 J jnl
Workflows Community Summit: Bringing the Scientific Workflows Community Together.
CoRR
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, Yadu N. Babuji, Rosa M. Badia, Vivien Bonazzi, Tainã Coleman, Michael R. Crusoe, Ewa Deelman, Frank Di Natale, Paolo Di Tommaso, Thomas Fahringer, Rosa Filgueira, Grigori Fursin, Alex Ganose, Björn A. Grüning, Daniel S. Katz, Olga A. Kuchar, Ana Kupresanin, Bertram Ludäscher, Ketan Maheshwari, Marta Mattoso, Kshitij Mehta, Todd S. Munson, Jonathan Ozik, Tom Peterka, Loic Pottier, Tim Randles, Stian Soiland-Reyes, Benjamín Tovar, Matteo Turilli, Thomas D. Uram, Karan Vahi, Michael Wilde, Matthew Wolf, Justin M. Wozniak
2020 — conf
Experiences in Developing a Distributed Agent-based Modeling Toolkit with Python.
PyHPC@SC
Nicholson T. Collier, Jonathan Ozik, Eric R. Tatara
2020 — conf
High-bypass Learning: Automated Detection of Tumor Cells That Significantly Impact Drug Response.
MLHPC/AI4S@SC
Justin M. Wozniak, Hyun Seung Yoo, Jamaludin Mohd-Yusof, Bogdan Nicolae, Nicholson T. Collier, Jonathan Ozik, Thomas S. Brettin, Rick Stevens
2020 J jnl
Model Exploration of an Information-Based Healthcare Intervention Using Parallelization and Active Learning.
J. Artif. Soc. Soc. Simul.
Chaitanya Kaligotla, Jonathan Ozik, Nicholson T. Collier, Charles M. Macal, Kelly Boyd, Jennifer A. Makelarski, Elbert S. Huang, Stacy T. Lindau
2019 Misc conf
Hybrid Simulation Development - Is It Just Analytics?
WSC
David Bell, Derek Groen, Navonil Mustafee, Jonathan Ozik, Steffen Straßburger
2019 Misc conf
Multi-Objective Model Exploration of Hepatitis C Elimination in an Agent-Based Model of People who Inject Drugs.
WSC
Eric Tatara, Nicholson T. Collier, Jonathan Ozik, Alexander Gutfraind, Scott J. Cotler, Harel Dahari, Marian Major, Basmattee Boodram
2018 J jnl
CANDLE/Supervisor: a workflow framework for machine learning applied to cancer research.
BMC Bioinform.
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, Matthew Baughman
2018 Misc conf
Chisim: an Agent-based simulation Model of Social Interactions in a Large Urban Area.
WSC
Charles M. Macal, Nicholson T. Collier, Jonathan Ozik, Eric R. Tatara, John T. Murphy
2018 J jnl
Extreme-Scale Dynamic Exploration of a Distributed Agent-Based Model With the EMEWS Framework.
IEEE Trans. Comput. Soc. Syst.
Jonathan Ozik, Nicholson T. Collier, Justin M. Wozniak, Charles M. Macal, Gary An
2018 J jnl
High-throughput cancer hypothesis testing with an integrated PhysiCell-EMEWS workflow.
BMC Bioinform.
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
2018 Misc conf
Modeling an Information-based Community Health Intervention on the South Side of Chicago.
WSC
Chaitanya Kaligotla, Jonathan Ozik, Nicholson T. Collier, Charles M. Macal, Stacy T. Lindau, Emily Abramsohn, Elbert S. Huang
2018 — conf
Portable and Reusable Deep Learning Infrastructure with Containers to Accelerate Cancer Studies.
ESPM2@SC
George F. Zaki, Justin M. Wozniak, Jonathan Ozik, Nicholson T. Collier, Thomas S. Brettin, Rick Stevens
2017 — conf
Endogenous Social Networks from Large-Scale Agent-Based Models.
IPDPS Workshops
Eric Tatara, Nicholson T. Collier, Jonathan Ozik, Charles M. Macal
2017 J jnl
Streaming supercomputing needs workflow-enabled programming-in-the-large.
CoRR
Justin M. Wozniak, Jonathan Ozik, Daniel S. Katz, Michael Wilde
2016 Misc conf
From desktop to Large-Scale Model Exploration with Swift/T.
WSC
Jonathan Ozik, Nicholson T. Collier, Justin M. Wozniak, Carmine Spagnuolo
2015 — conf
Large-Scale Agent-Based Modeling with Repast HPC: A Case Study in Parallelizing an Agent-Based Model.
Euro-Par Workshops
Nicholson T. Collier, Jonathan Ozik, Charles M. Macal
2015 J jnl
Repast Simphony Statecharts.
J. Artif. Soc. Soc. Simul.
Jonathan Ozik, Nicholson T. Collier, Todd Combs, Charles M. Macal, Michael J. North
2015 Misc conf
Simulating regional hydrology and water management: an integrated agent-based approach.
WSC
John T. Murphy, Jonathan Ozik, Nicholson T. Collier, Mark Altaweel, Richard B. Lammers, Alexander A. Prusevich, Andrew D. Kliskey, Lilian N. Alessa
2014 — conf
Adaptive Simulation with Repast Simphony and Swift.
Euro-Par Workshops (1)
Jonathan Ozik, Michael Wilde, Nicholson T. Collier, Charles M. Macal
2014 — conf
Modeling Solar PV Adoption: A Social-Behavioral Agent-Based Framework.
AAAI Fall Symposia
Charles M. Macal, Diane J. Graziano, Jonathan Ozik
2014 Misc conf
Simulating water, individuals, and management using a coupled and distributed approach.
WSC
Jonathan Ozik, Nicholson T. Collier, John T. Murphy, Mark Altaweel, Richard B. Lammers, Alexander A. Prusevich, Andrew D. Kliskey, Lilian N. Alessa
2013 J jnl
Complex adaptive systems modeling with Repast Simphony.
Complex Adapt. Syst. Model.
Michael J. North, Nicholson T. Collier, Jonathan Ozik, Eric R. Tatara, Charles M. Macal, Mark J. Bragen, Pam Sydelko
2013 Misc conf
Test-driven agent-based simulation development.
WSC
Nicholson T. Collier, Jonathan Ozik
2013 Misc conf
The ReLogo agent-based modeling language.
WSC
Jonathan Ozik, Nicholson T. Collier, John T. Murphy, Michael J. North
2009 — conf
Data Theory, Discourse Mining and Thresholds.
AAAI Fall Symposium: Complex Adaptive Systems and the Threshold Effect
David L. Sallach, Jonathan Ozik
2008 J jnl
Modeling Dynamic Multiscale Social Processes in Agent-Based Models.
IEEE Intell. Syst.
Jonathan Ozik, David L. Sallach, Charles M. Macal
2008 — conf
Modeling Endogenous Coordination Using a Dynamic Language.
WCSS
Jonathan Ozik, Michael J. North