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Journal Articles
- 2024
[j17]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)- [j16]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) - 2022
- [j15]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) - 2021
- [j14]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) - 2019
- [j13]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): 597-604 (2019) - 2018
- [j12]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) - [j11]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) - [j10]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) - 2015
- [j9]Scott Christley, Chase Cockrell, Gary An:
Computational Studies of the Intestinal Host-Microbiota Interactome. Comput. 3(1): 2-28 (2015) - [j8]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) - 2014
- [j7]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) - 2013
- [j6]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: 279-289 (2013) - 2012
- [j5]Scott Christley, Gary An:
A proposal for augmenting biological model construction with a semi-intelligent computational modeling assistant. Comput. Math. Organ. Theory 18(4): 380-403 (2012) - [j4]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): 895-907 (2012) - 2010
- [j3]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): 18-30 (2010) - 2009
- [j2]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: 56 (2009) - 2008
- [j1]Yoram Vodovotz, Márie Csete, John Bartels, Steven Chang, Gary An:
Translational Systems Biology of Inflammation. PLoS Comput. Biol. 4(4) (2008)
Conference and Workshop Papers
- 2013
- [c5]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: 4 - 2011
- [c4]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: 37-44 - 2010
- [c3]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 - [c2]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: 3 - 2007
- [c1]Wayne W. Wakeland, Louis M. Macovsky, Gary An:
A hybrid simulation model for studying acute inflammatory response. SpringSim (2) 2007: 39-46
Informal and Other Publications
- 2023
- [i3]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 abs/2303.09056 (2023) - 2022
- [i2]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 abs/2204.10382 (2022) - 2018
- [i1]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 abs/1802.10440 (2018)
Coauthor Index
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last updated on 2024-10-07 22:19 CEST by the dblp team
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