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BibTeX records: Gary An
@article{DBLP:journals/ploscb/ShinAC24, author = {Bryan Shin and Gary An and Chase Cockrell}, title = {Examining B-cell dynamics and responsiveness in different inflammatory milieus using an agent-based model}, journal = {PLoS Comput. Biol.}, volume = {20}, number = {1}, year = {2024}, url = {https://doi.org/10.1371/journal.pcbi.1011776}, doi = {10.1371/JOURNAL.PCBI.1011776}, timestamp = {Sat, 16 Mar 2024 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/ploscb/ShinAC24.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/corr/abs-2303-09056, author = {Gary An and Chase Cockrell}, title = {Generating synthetic multi-dimensional molecular-mediator time series data for artificial intelligence-based disease trajectory forecasting and drug development digital twins: Considerations}, journal = {CoRR}, volume = {abs/2303.09056}, year = {2023}, url = {https://doi.org/10.48550/arXiv.2303.09056}, doi = {10.48550/ARXIV.2303.09056}, eprinttype = {arXiv}, eprint = {2303.09056}, timestamp = {Mon, 20 Mar 2023 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/corr/abs-2303-09056.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/npjdm/LaubenbacherNHA22, author = {Reinhard C. Laubenbacher and Anna Niarakis and Tom{\'{a}}s Helikar and Gary An and B. Shapiro and Rahuman S. Malik{-}Sheriff and T. J. Sego and Adam C. Knapp and Paul Macklin and James A. Glazier}, title = {Building digital twins of the human immune system: toward a roadmap}, journal = {npj Digit. Medicine}, volume = {5}, year = {2022}, url = {https://doi.org/10.1038/s41746-022-00610-z}, doi = {10.1038/S41746-022-00610-Z}, timestamp = {Mon, 01 May 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/npjdm/LaubenbacherNHA22.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/corr/abs-2204-10382, author = {Chase Cockrell and Scott Christley and Gary An}, title = {Facilitating automated conversion of scientific knowledge into scientific simulation models with the Machine Assisted Generation, Calibration, and Comparison {(MAGCC)} Framework}, journal = {CoRR}, volume = {abs/2204.10382}, year = {2022}, url = {https://doi.org/10.48550/arXiv.2204.10382}, doi = {10.48550/ARXIV.2204.10382}, eprinttype = {arXiv}, eprint = {2204.10382}, timestamp = {Mon, 25 Apr 2022 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/corr/abs-2204-10382.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/simulation/CockrellOCA21, author = {Chase Cockrell and Jonathan Ozik and Nick Collier and Gary An}, title = {Nested active learning for efficient model contextualization and parameterization: pathway to generating simulated populations using multi-scale computational models}, journal = {Simul.}, volume = {97}, number = {4}, year = {2021}, url = {https://doi.org/10.1177/0037549720975075}, doi = {10.1177/0037549720975075}, timestamp = {Mon, 03 May 2021 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/simulation/CockrellOCA21.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/jcb/PetersenYGCSAF19, author = {Brenden K. Petersen and Jiachen Yang and Will S. Grathwohl and Chase Cockrell and Claudio Santiago and Gary An and Daniel M. Faissol}, title = {Deep Reinforcement Learning and Simulation as a Path Toward Precision Medicine}, journal = {J. Comput. Biol.}, volume = {26}, number = {6}, pages = {597--604}, year = {2019}, url = {https://doi.org/10.1089/cmb.2018.0168}, doi = {10.1089/CMB.2018.0168}, timestamp = {Sat, 30 Sep 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/jcb/PetersenYGCSAF19.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bmcbi/OzikCWMCFGHAM18, author = {Jonathan Ozik and Nicholson T. Collier and Justin M. Wozniak and Charles M. Macal and Chase Cockrell and Samuel H. Friedman and Ahmadreza Ghaffarizadeh and Randy W. Heiland and Gary An and Paul Macklin}, title = {High-throughput cancer hypothesis testing with an integrated PhysiCell-EMEWS workflow}, journal = {{BMC} Bioinform.}, volume = {19-S}, number = {18}, pages = {81--97}, year = {2018}, url = {https://doi.org/10.1186/s12859-018-2510-x}, doi = {10.1186/S12859-018-2510-X}, timestamp = {Sun, 15 Mar 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/bmcbi/OzikCWMCFGHAM18.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/ploscb/CockrellA18, author = {Chase Cockrell and Gary An}, title = {Examining the controllability of sepsis using genetic algorithms on an agent-based model of systemic inflammation}, journal = {PLoS Comput. Biol.}, volume = {14}, number = {2}, year = {2018}, url = {https://doi.org/10.1371/journal.pcbi.1005876}, doi = {10.1371/JOURNAL.PCBI.1005876}, timestamp = {Sat, 25 Dec 2021 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/ploscb/CockrellA18.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/tcss/OzikCWMA18, author = {Jonathan Ozik and Nicholson T. Collier and Justin M. Wozniak and Charles M. Macal and Gary An}, title = {Extreme-Scale Dynamic Exploration of a Distributed Agent-Based Model With the {EMEWS} Framework}, journal = {{IEEE} Trans. Comput. Soc. Syst.}, volume = {5}, number = {3}, pages = {884--895}, year = {2018}, url = {https://doi.org/10.1109/TCSS.2018.2859189}, doi = {10.1109/TCSS.2018.2859189}, timestamp = {Mon, 08 Jun 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/tcss/OzikCWMA18.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/corr/abs-1802-10440, author = {Brenden K. Petersen and Jiachen Yang and Will S. Grathwohl and Chase Cockrell and Claudio Santiago and Gary An and Daniel M. Faissol}, title = {Precision medicine as a control problem: Using simulation and deep reinforcement learning to discover adaptive, personalized multi-cytokine therapy for sepsis}, journal = {CoRR}, volume = {abs/1802.10440}, year = {2018}, url = {http://arxiv.org/abs/1802.10440}, eprinttype = {arXiv}, eprint = {1802.10440}, timestamp = {Mon, 13 Aug 2018 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/corr/abs-1802-10440.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/computation/ChristleyCA15, author = {Scott Christley and Chase Cockrell and Gary An}, title = {Computational Studies of the Intestinal Host-Microbiota Interactome}, journal = {Comput.}, volume = {3}, number = {1}, pages = {2--28}, year = {2015}, url = {https://doi.org/10.3390/computation3010002}, doi = {10.3390/COMPUTATION3010002}, timestamp = {Thu, 01 Oct 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/computation/ChristleyCA15.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/ploscb/ZiraldoSAKHSBAM15, author = {Cordelia Ziraldo and Alexey Solovyev and Ana Allegretti and Shilpa Krishnan and M. Kristi Henzel and Gwendolyn A. Sowa and David M. Brienza and Gary An and Qi Mi and Yoram Vodovotz}, title = {A Computational, Tissue-Realistic Model of Pressure Ulcer Formation in Individuals with Spinal Cord Injury}, journal = {PLoS Comput. Biol.}, volume = {11}, number = {6}, year = {2015}, url = {https://doi.org/10.1371/journal.pcbi.1004309}, doi = {10.1371/JOURNAL.PCBI.1004309}, timestamp = {Tue, 11 Jan 2022 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/ploscb/ZiraldoSAKHSBAM15.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/ploscb/CockrellCA14, author = {Chase Cockrell and Scott Christley and Gary An}, title = {Investigation of Inflammation and Tissue Patterning in the Gut Using a Spatially Explicit General-Purpose Model of Enteric Tissue (SEGMEnT)}, journal = {PLoS Comput. Biol.}, volume = {10}, number = {3}, year = {2014}, url = {https://doi.org/10.1371/journal.pcbi.1003507}, doi = {10.1371/JOURNAL.PCBI.1003507}, timestamp = {Thu, 10 Sep 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/ploscb/CockrellCA14.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/jcphy/ScheffMFACDDLVA13, author = {Jeremy D. Scheff and Panteleimon D. Mavroudis and Panagiota T. Foteinou and Gary An and Steve E. Calvano and John Doyle and Thomas E. Dick and Stephen F. Lowry and Yoram Vodovotz and Ioannis P. Androulakis}, title = {A multiscale modeling approach to inflammation: {A} case study in human endotoxemia}, journal = {J. Comput. Phys.}, volume = {244}, pages = {279--289}, year = {2013}, url = {https://doi.org/10.1016/j.jcp.2012.09.024}, doi = {10.1016/J.JCP.2012.09.024}, timestamp = {Wed, 19 Feb 2020 00:00:00 +0100}, biburl = {https://dblp.org/rec/journals/jcphy/ScheffMFACDDLVA13.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/springsim/CockrellCACW13, author = {Chase Cockrell and Scott Christley and Gary An and Eugene Chang and Marc Ward}, editor = {Levent Yilmaz and Tuncer I. {\"{O}}ren and Greg Madey and Maarten Sierhuis and Yu Zhang}, title = {Examining the dynamics of epithelial metaplasia and pouchitis in an ileal pouch with a spatially-explicit computational multi-scale gut model {(MSGM)}}, booktitle = {Proceedings of the Agent-Directed Simulation Symposium, part of the 2013 Spring Simulation Multiconference, SpringSim '13, San Diego, CA, USA, April 07 - 10, 2013}, pages = {4}, publisher = {{SCS/ACM}}, year = {2013}, url = {http://dl.acm.org/citation.cfm?id=2499596}, timestamp = {Fri, 20 Sep 2013 07:56:35 +0200}, biburl = {https://dblp.org/rec/conf/springsim/CockrellCACW13.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/cmot/ChristleyA12, author = {Scott Christley and Gary An}, title = {A proposal for augmenting biological model construction with a semi-intelligent computational modeling assistant}, journal = {Comput. Math. Organ. Theory}, volume = {18}, number = {4}, pages = {380--403}, year = {2012}, url = {https://doi.org/10.1007/s10588-011-9101-y}, doi = {10.1007/S10588-011-9101-Y}, timestamp = {Thu, 04 Jun 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/cmot/ChristleyA12.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/simulation/AlbertsKDA12, author = {Samuel Alberts and Michael K. Keenan and Roshan M. D'Souza and Gary An}, title = {Data-parallel techniques for simulating a mega-scale agent-based model of systemic inflammatory response syndrome on graphics processing units}, journal = {Simul.}, volume = {88}, number = {8}, pages = {895--907}, year = {2012}, url = {https://doi.org/10.1177/0037549711425180}, doi = {10.1177/0037549711425180}, timestamp = {Mon, 08 Jun 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/simulation/AlbertsKDA12.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/springsim/ChristleyA11, author = {Scott Christley and Gary An}, editor = {Levent Yilmaz and Tuncer I. {\"{O}}ren}, title = {A proposed method for dynamic knowledge representation via agent-directed composition from biomedical and simulation ontologies: an example using gut mucus layer dynamics}, booktitle = {2011 Spring Simulation Multi-conference, SpringSim '11, Boston, MA, USA, April 03-07, 2011. Volume 1: Proceedings of the 2011 Workshop on Agent-Directed Simulation {(ADS)}}, pages = {37--44}, publisher = {{SCS/ACM}}, year = {2011}, url = {http://dl.acm.org/citation.cfm?id=2048360}, timestamp = {Thu, 01 Dec 2011 15:40:11 +0100}, biburl = {https://dblp.org/rec/conf/springsim/ChristleyA11.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/ijats/SolovyevMZDZAVM10, author = {Alexey Solovyev and Maxim Mikheev and Leming Zhou and Joyeeta Dutta{-}Moscato and Cordelia Ziraldo and Gary An and Yoram Vodovotz and Qi Mi}, title = {{SPARK:} {A} Framework for Multi-Scale Agent-Based Biomedical Modeling}, journal = {Int. J. Agent Technol. Syst.}, volume = {2}, number = {3}, pages = {18--30}, year = {2010}, url = {https://doi.org/10.4018/jats.2010070102}, doi = {10.4018/JATS.2010070102}, timestamp = {Sat, 30 Sep 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/ijats/SolovyevMZDZAVM10.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/lrec/ApostolovaNATL10, author = {Emilia Apostolova and Sean Neilan and Gary An and Noriko Tomuro and Steven L. Lytinen}, editor = {Nicoletta Calzolari and Khalid Choukri and Bente Maegaard and Joseph Mariani and Jan Odijk and Stelios Piperidis and Mike Rosner and Daniel Tapias}, title = {Djangology: {A} Light-weight Web-based Tool for Distributed Collaborative Text Annotation}, booktitle = {Proceedings of the International Conference on Language Resources and Evaluation, {LREC} 2010, 17-23 May 2010, Valletta, Malta}, publisher = {European Language Resources Association}, year = {2010}, url = {http://www.lrec-conf.org/proceedings/lrec2010/summaries/543.html}, timestamp = {Mon, 19 Aug 2019 15:22:48 +0200}, biburl = {https://dblp.org/rec/conf/lrec/ApostolovaNATL10.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/springsim/SolovyevMZDZAVM10, author = {Alexey Solovyev and Maxim Mikheev and Leming Zhou and Joyeeta Dutta{-}Moscato and Cordelia Ziraldo and Gary An and Yoram Vodovotz and Qi Mi}, editor = {Robert M. McGraw and Eric S. Imsand and Michael J. Chinni}, title = {{SPARK:} a framework for multi-scale agent-based biomedical modeling}, booktitle = {Proceedings of the 2010 Spring Simulation Multiconference, SpringSim 2010, Orlando, Florida, USA, April 11-15, 2010}, pages = {3}, publisher = {{SCS/ACM}}, year = {2010}, url = {https://doi.org/10.1145/1878537.1878541}, doi = {10.1145/1878537.1878541}, timestamp = {Sat, 30 Sep 2023 01:00:00 +0200}, biburl = {https://dblp.org/rec/conf/springsim/SolovyevMZDZAVM10.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/bmcsb/TegnerCAACCGOSTV09, author = {Jesper Tegn{\'{e}}r and Albert Compte and Charles Auffray and Gary An and Gunnar Cedersund and Gilles Clermont and Boris S. Gutkin and Zolt{\'{a}}n N. Oltvai and Klaas Enno Stephan and Randy Thomas and Pablo Villoslada}, title = {Computational disease modeling - fact or fiction?}, journal = {{BMC} Syst. Biol.}, volume = {3}, pages = {56}, year = {2009}, url = {https://doi.org/10.1186/1752-0509-3-56}, doi = {10.1186/1752-0509-3-56}, timestamp = {Tue, 05 May 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/bmcsb/TegnerCAACCGOSTV09.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@article{DBLP:journals/ploscb/VodovotzCBCA08, author = {Yoram Vodovotz and M{\'{a}}rie Csete and John Bartels and Steven Chang and Gary An}, title = {Translational Systems Biology of Inflammation}, journal = {PLoS Comput. Biol.}, volume = {4}, number = {4}, year = {2008}, url = {https://doi.org/10.1371/journal.pcbi.1000014}, doi = {10.1371/JOURNAL.PCBI.1000014}, timestamp = {Thu, 10 Sep 2020 01:00:00 +0200}, biburl = {https://dblp.org/rec/journals/ploscb/VodovotzCBCA08.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
@inproceedings{DBLP:conf/springsim/WakelandMA07, author = {Wayne W. Wakeland and Louis M. Macovsky and Gary An}, editor = {Maurice J. Ades}, title = {A hybrid simulation model for studying acute inflammatory response}, booktitle = {Proceedings of the 2007 Spring Simulation Multiconference, SpringSim 2007, Norfolk, Virginia, USA, March 25-29, 2007, Volume 2}, pages = {39--46}, publisher = {{SCS/ACM}}, year = {2007}, url = {http://dl.acm.org/citation.cfm?id=1404680.1404686}, timestamp = {Mon, 10 Dec 2012 00:00:00 +0100}, biburl = {https://dblp.org/rec/conf/springsim/WakelandMA07.bib}, bibsource = {dblp computer science bibliography, https://dblp.org} }
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