Gary An

Publication Activity (10 Years)

Years Active: 2007-2024
Publications (10 Years): 13

Top Topics

Simulation Model

Temporal Difference

Reinforcement Learning

Computational Models

Top Venues

PLoS Comput. Biol.

J. Comput. Biol.

Publications

Reinhard C. Laubenbacher, Fred Adler, Gary An, Filippo Castiglione, Stephen Eubank, Luis L. Fonseca, James A. Glazier, Tomás Helikar, Marti Jett-Tilton, Denise Kirschner, Paul Macklin, Borna Mehrad, Beth Moore, Virginia Pasour, Ilya Shmulevich, Amber Smith, Isabel Voigt, Thomas E. Yankeelov, Tjalf Ziemssen
Toward mechanistic medical digital twins: some use cases in immunology. Frontiers Digit. Health 6 (2024)
Bryan Shin, Gary An, Chase Cockrell
Examining B-cell dynamics and responsiveness in different inflammatory milieus using an agent-based model. PLoS Comput. Biol. 20 (1) (2024)
Gary An, Chase Cockrell
Generating synthetic multi-dimensional molecular-mediator time series data for artificial intelligence-based disease trajectory forecasting and drug development digital twins: Considerations. CoRR (2023)
Chase Cockrell, Scott Christley, Gary An
Facilitating automated conversion of scientific knowledge into scientific simulation models with the Machine Assisted Generation, Calibration, and Comparison (MAGCC) Framework. CoRR (2022)
Reinhard C. Laubenbacher, Anna Niarakis, Tomás Helikar, Gary An, B. Shapiro, Rahuman S. Malik-Sheriff, T. J. Sego, Adam C. Knapp, Paul Macklin, James A. Glazier
Building digital twins of the human immune system: toward a roadmap. npj Digit. Medicine 5 (2022)
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)
Brenden K. Petersen, Jiachen Yang, Will S. Grathwohl, Chase Cockrell, Claudio Santiago, Gary An, Daniel M. Faissol
Deep Reinforcement Learning and Simulation as a Path Toward Precision Medicine. J. Comput. Biol. 26 (6) (2019)
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) (2018)
Chase Cockrell, Gary An
Examining the controllability of sepsis using genetic algorithms on an agent-based model of systemic inflammation. PLoS Comput. Biol. 14 (2) (2018)
Brenden K. Petersen, Jiachen Yang, Will S. Grathwohl, Chase Cockrell, Claudio Santiago, Gary An, Daniel M. Faissol
Precision medicine as a control problem: Using simulation and deep reinforcement learning to discover adaptive, personalized multi-cytokine therapy for sepsis. CoRR (2018)
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. (18) (2018)
Scott Christley, Chase Cockrell, Gary An
Computational Studies of the Intestinal Host-Microbiota Interactome. Comput. 3 (1) (2015)
Cordelia Ziraldo, Alexey Solovyev, Ana Allegretti, Shilpa Krishnan, M. Kristi Henzel, Gwendolyn A. Sowa, David M. Brienza, Gary An, Qi Mi, Yoram Vodovotz
A Computational, Tissue-Realistic Model of Pressure Ulcer Formation in Individuals with Spinal Cord Injury. PLoS Comput. Biol. 11 (6) (2015)
Chase Cockrell, Scott Christley, Gary An
Investigation of Inflammation and Tissue Patterning in the Gut Using a Spatially Explicit General-Purpose Model of Enteric Tissue (SEGMEnT). PLoS Comput. Biol. 10 (3) (2014)
Chase Cockrell, Scott Christley, Gary An, Eugene Chang, Marc Ward
Examining the dynamics of epithelial metaplasia and pouchitis in an ileal pouch with a spatially-explicit computational multi-scale gut model (MSGM). SpringSim (ADS) (2013)
Jeremy D. Scheff, Panteleimon D. Mavroudis, Panagiota T. Foteinou, Gary An, Steve E. Calvano, John Doyle, Thomas E. Dick, Stephen F. Lowry, Yoram Vodovotz, Ioannis P. Androulakis
A multiscale modeling approach to inflammation: A case study in human endotoxemia. J. Comput. Phys. 244 (2013)
Samuel Alberts, Michael K. Keenan, Roshan M. D'Souza, Gary An
Data-parallel techniques for simulating a mega-scale agent-based model of systemic inflammatory response syndrome on graphics processing units. Simul. 88 (8) (2012)
Scott Christley, Gary An
A proposal for augmenting biological model construction with a semi-intelligent computational modeling assistant. Comput. Math. Organ. Theory 18 (4) (2012)
Scott Christley, Gary An
A proposed method for dynamic knowledge representation via agent-directed composition from biomedical and simulation ontologies: an example using gut mucus layer dynamics. SpringSim (ADS) (2011)
Alexey Solovyev, Maxim Mikheev, Leming Zhou, Joyeeta Dutta-Moscato, Cordelia Ziraldo, Gary An, Yoram Vodovotz, Qi Mi
SPARK: a framework for multi-scale agent-based biomedical modeling. SpringSim (2010)
Emilia Apostolova, Sean Neilan, Gary An, Noriko Tomuro, Steven L. Lytinen
Djangology: A Light-weight Web-based Tool for Distributed Collaborative Text Annotation. LREC (2010)
Alexey Solovyev, Maxim Mikheev, Leming Zhou, Joyeeta Dutta-Moscato, Cordelia Ziraldo, Gary An, Yoram Vodovotz, Qi Mi
SPARK: A Framework for Multi-Scale Agent-Based Biomedical Modeling. Int. J. Agent Technol. Syst. 2 (3) (2010)
Jesper Tegnér, Albert Compte, Charles Auffray, Gary An, Gunnar Cedersund, Gilles Clermont, Boris S. Gutkin, Zoltán N. Oltvai, Klaas Enno Stephan, Randy Thomas, Pablo Villoslada
Computational disease modeling - fact or fiction? BMC Syst. Biol. 3 (2009)
Yoram Vodovotz, Márie Csete, John Bartels, Steven Chang, Gary An
Translational Systems Biology of Inflammation. PLoS Comput. Biol. 4 (4) (2008)
Wayne W. Wakeland, Louis M. Macovsky, Gary An
A hybrid simulation model for studying acute inflammatory response. SpringSim (2) (2007)