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2020 – today
- 2024
[j13]Eric Tatara, Qinyun Lin
, Jonathan Ozik, Marynia Kolak, Nicholson T. Collier, Dylan Halpern, Luc Anselin, Harel Dahari, Basmattee Boodram, John A. Schneider:
Spatial inequities in access to medications for treatment of opioid use disorder highlight scarcity of methadone providers under counterfactual scenarios. PLoS Comput. Biol. 20(7): 1012307 (2024)- [c26]Arindam Fadikar, Abby Stevens, Nicholson T. Collier, Kok Ben Toh, Olga Morozova, Anna Hotton, Jared Clark, David Higdon, Jonathan Ozik:
Towards Improved Uncertainty Quantification of Stochastic Epidemic Models Using Sequential Monte Carlo. IPDPS (Workshops) 2024: 843-852 - [i8]Connor Robertson, Cosmin Safta, Nicholson T. Collier, Jonathan Ozik, Jaideep Ray:
Bayesian calibration of stochastic agent based model via random forest. CoRR abs/2406.19524 (2024) - 2023
- [j12]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:
Modeling suggests that virion production cycles within individual cells is key to understanding acute hepatitis B virus infection kinetics. PLoS Comput. Biol. 19(8) (2023) - [c25]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:
PSI/J: A Portable Interface for Submitting, Monitoring, and Managing Jobs. e-Science 2023: 1-10 - [c24]Nicholson T. Collier, Justin M. Wozniak, Abby Stevens, Yadu N. Babuji, Mickaël Binois, Arindam Fadikar, Alexandra Würth, Kyle Chard, Jonathan Ozik:
Developing Distributed High-performance Computing Capabilities of an Open Science Platform for Robust Epidemic Analysis. IPDPS Workshops 2023: 868-877 - [c23]Arindam Fadikar, Nicholson T. Collier, Abby Stevens, Jonathan Ozik, Mickaël Binois, Kok Ben Toh:
Trajectory-Oriented Optimization of Stochastic Epidemiological Models. WSC 2023: 1244-1255 - [i7]Nicholson T. Collier, Justin M. Wozniak, Abby Stevens, Yadu N. Babuji, Mickaël Binois, Arindam Fadikar, Alexandra Würth, Kyle Chard, Jonathan Ozik:
Developing Distributed High-performance Computing Capabilities of an Open Science Platform for Robust Epidemic Analysis. CoRR abs/2304.14244 (2023) - [i6]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:
PSI/J: A Portable Interface for Submitting, Monitoring, and Managing Jobs. CoRR abs/2307.07895 (2023) - [i5]Abby Stevens, Jonathan Ozik, Kyle Chard, Jaline Gerardin, Justin M. Wozniak:
NSF RESUME HPC Workshop: High-Performance Computing and Large-Scale Data Management in Service of Epidemiological Modeling. CoRR abs/2308.04602 (2023) - 2022
- [j11]Maria DeYoreo, Carolyn M. Rutter, Jonathan Ozik, Nicholson T. Collier:
Sequentially calibrating a Bayesian microsimulation model to incorporate new information and assumptions. BMC Medical Informatics Decis. Mak. 22(1): 12 (2022) - [c22]Nicholson T. Collier, Jonathan Ozik:
Distributed Agent-Based Simulation with Repast4Py. WSC 2022: 192-206 - 2021
- [j10]Jonathan Ozik, Justin M. Wozniak, Nicholson T. Collier, Charles M. Macal, Mickaël Binois:
A population data-driven workflow for COVID-19 modeling and learning. Int. J. High Perform. Comput. Appl. 35(5) (2021) - [j9]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:
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. 17(10) (2021) - [j8]Chase Cockrell, Jonathan Ozik, Nick Collier, Gary An:
Nested active learning for efficient model contextualization and parameterization: pathway to generating simulated populations using multi-scale computational models. Simul. 97(4) (2021) - [c21]Bogdan Mucenic, Chaitanya Kaligotla, Abby Stevens, Jonathan Ozik, Nicholson T. Collier, Charles M. Macal:
Load Balancing Schemes for Large Synthetic Population-Based Complex Simulators. IPDPS Workshops 2021: 985-988 - [c20]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:
Application of Distributed Agent-based Modeling to Investigate Opioid Use Outcomes in Justice Involved Populations. IPDPS Workshops 2021: 989-997 - [c19]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:
A Community Roadmap for Scientific Workflows Research and Development. WORKS 2021: 81-90 - [i4]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:
Workflows Community Summit: Bringing the Scientific Workflows Community Together. CoRR abs/2103.09181 (2021) - [i3]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:
Workflows Community Summit: Advancing the State-of-the-art of Scientific Workflows Management Systems Research and Development. CoRR abs/2106.05177 (2021) - [i2]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:
A Community Roadmap for Scientific Workflows Research and Development. CoRR abs/2110.02168 (2021) - 2020
- [j7]Chaitanya Kaligotla, Jonathan Ozik, Nicholson T. Collier, Charles M. Macal, Kelly Boyd, Jennifer A. Makelarski, Elbert S. Huang, Stacy T. Lindau:
Model Exploration of an Information-Based Healthcare Intervention Using Parallelization and Active Learning. J. Artif. Soc. Soc. Simul. 23(4) (2020) - [c18]Nicholson T. Collier, Jonathan Ozik, Eric R. Tatara:
Experiences in Developing a Distributed Agent-based Modeling Toolkit with Python. PyHPC@SC 2020: 1-12 - [c17]Justin M. Wozniak, Hyun Seung Yoo, Jamaludin Mohd-Yusof, Bogdan Nicolae, Nicholson T. Collier, Jonathan Ozik, Thomas S. Brettin, Rick Stevens:
High-bypass Learning: Automated Detection of Tumor Cells That Significantly Impact Drug Response. MLHPC/AI4S@SC 2020: 40-49
2010 – 2019
- 2019
- [c16]Eric Tatara, Nicholson T. Collier, Jonathan Ozik, Alexander Gutfraind, Scott J. Cotler, Harel Dahari, Marian Major, Basmattee Boodram:
Multi-Objective Model Exploration of Hepatitis C Elimination in an Agent-Based Model of People who Inject Drugs. WSC 2019: 1008-1019 - [c15]David Bell, Derek Groen, Navonil Mustafee, Jonathan Ozik, Steffen Straßburger:
Hybrid Simulation Development - Is It Just Analytics? WSC 2019: 1352-1365 - 2018
- [j6]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:
CANDLE/Supervisor: a workflow framework for machine learning applied to cancer research. BMC Bioinform. 19-S(18): 59-69 (2018) - [j5]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:
High-throughput cancer hypothesis testing with an integrated PhysiCell-EMEWS workflow. BMC Bioinform. 19-S(18): 81-97 (2018) - [j4]Jonathan Ozik, Nicholson T. Collier, Justin M. Wozniak, Charles M. Macal, Gary An:
Extreme-Scale Dynamic Exploration of a Distributed Agent-Based Model With the EMEWS Framework. IEEE Trans. Comput. Soc. Syst. 5(3): 884-895 (2018) - [c14]George F. Zaki, Justin M. Wozniak, Jonathan Ozik, Nicholson T. Collier, Thomas S. Brettin, Rick Stevens:
Portable and Reusable Deep Learning Infrastructure with Containers to Accelerate Cancer Studies. ESPM2@SC 2018: 54-61 - [c13]Charles M. Macal, Nicholson T. Collier, Jonathan Ozik, Eric R. Tatara, John T. Murphy:
Chisim: an Agent-based simulation Model of Social Interactions in a Large Urban Area. WSC 2018: 810-820 - [c12]Chaitanya Kaligotla, Jonathan Ozik, Nicholson T. Collier, Charles M. Macal, Stacy T. Lindau, Emily Abramsohn, Elbert S. Huang:
Modeling an Information-based Community Health Intervention on the South Side of Chicago. WSC 2018: 2600-2611 - 2017
- [c11]Eric Tatara, Nicholson T. Collier, Jonathan Ozik, Charles M. Macal:
Endogenous Social Networks from Large-Scale Agent-Based Models. IPDPS Workshops 2017: 1492-1499 - [i1]Justin M. Wozniak, Jonathan Ozik, Daniel S. Katz, Michael Wilde:
Streaming supercomputing needs workflow-enabled programming-in-the-large. CoRR abs/1702.07425 (2017) - 2016
- [c10]Jonathan Ozik, Nicholson T. Collier, Justin M. Wozniak, Carmine Spagnuolo:
From desktop to Large-Scale Model Exploration with Swift/T. WSC 2016: 206-220 - 2015
- [j3]Jonathan Ozik, Nicholson T. Collier, Todd Combs, Charles M. Macal, Michael J. North:
Repast Simphony Statecharts. J. Artif. Soc. Soc. Simul. 18(3) (2015) - [c9]Nicholson T. Collier, Jonathan Ozik, Charles M. Macal:
Large-Scale Agent-Based Modeling with Repast HPC: A Case Study in Parallelizing an Agent-Based Model. Euro-Par Workshops 2015: 454-465 - [c8]John T. Murphy, Jonathan Ozik, Nicholson T. Collier, Mark Altaweel, Richard B. Lammers, Alexander A. Prusevich, Andrew D. Kliskey, Lilian N. Alessa:
Simulating regional hydrology and water management: an integrated agent-based approach. WSC 2015: 3913-3924 - 2014
- [c7]Charles M. Macal, Diane J. Graziano, Jonathan Ozik:
Modeling Solar PV Adoption: A Social-Behavioral Agent-Based Framework. AAAI Fall Symposia 2014 - [c6]Jonathan Ozik, Michael Wilde, Nicholson T. Collier, Charles M. Macal:
Adaptive Simulation with Repast Simphony and Swift. Euro-Par Workshops (1) 2014: 418-429 - [c5]Jonathan Ozik, Nicholson T. Collier, John T. Murphy, Mark Altaweel, Richard B. Lammers, Alexander A. Prusevich, Andrew D. Kliskey, Lilian N. Alessa:
Simulating water, individuals, and management using a coupled and distributed approach. WSC 2014: 1120-1131 - 2013
- [j2]Michael J. North, Nicholson T. Collier, Jonathan Ozik, Eric R. Tatara, Charles M. Macal, Mark J. Bragen, Pam Sydelko:
Complex adaptive systems modeling with Repast Simphony. Complex Adapt. Syst. Model. 1: 3 (2013) - [c4]Nicholson T. Collier, Jonathan Ozik:
Test-driven agent-based simulation development. WSC 2013: 1551-1559 - [c3]Jonathan Ozik, Nicholson T. Collier, John T. Murphy, Michael J. North:
The ReLogo agent-based modeling language. WSC 2013: 1560-1568
2000 – 2009
- 2009
- [c2]David L. Sallach, Jonathan Ozik:
Data Theory, Discourse Mining and Thresholds. AAAI Fall Symposium: Complex Adaptive Systems and the Threshold Effect 2009 - 2008
- [j1]Jonathan Ozik, David L. Sallach, Charles M. Macal:
Modeling Dynamic Multiscale Social Processes in Agent-Based Models. IEEE Intell. Syst. 23(4): 36-42 (2008) - [c1]Jonathan Ozik, Michael J. North:
Modeling Endogenous Coordination Using a Dynamic Language. WCSS 2008: 265-276
Coauthor Index
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