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start [2017/05/24 20:58] xl24 [Development] |
start [2021/02/25 04:47] (current) xl24 [Members] |
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==== Members ==== | ==== Members ==== | ||
+ | * [[https://scholar.google.com/citations?user=4Phq4OcAAAAJ&hl=en|Ansel Blumers]] | ||
* [[https://scholar.google.com/citations?user=jlI9vl0AAAAJ&hl=zh-CN|Hung-Yu Chang]] | * [[https://scholar.google.com/citations?user=jlI9vl0AAAAJ&hl=zh-CN|Hung-Yu Chang]] | ||
- | * [[Yixiang Deng]] | + | * [[https://www.researchgate.net/profile/Yixiang_Deng|Yixiang Deng]] |
* [[https://scholar.google.com/citations?user=UkEzo8sAAAAJ&hl=en|He Li]] | * [[https://scholar.google.com/citations?user=UkEzo8sAAAAJ&hl=en|He Li]] | ||
* [[http://www.dam.brown.edu/people/xli/|Xuejin Li]] | * [[http://www.dam.brown.edu/people/xli/|Xuejin Li]] | ||
* [[Zhen Li]] | * [[Zhen Li]] | ||
- | * [[Lu Lu]] | + | * [[https://scholar.google.com/citations?hl=en&user=cm3NWHgAAAAJ|Zixiang Liu]] |
+ | * [[https://lululxvi.github.io|Lu Lu]] | ||
* [[Yu-Hang Tang]] | * [[Yu-Hang Tang]] | ||
* [[Liu Yang]] | * [[Liu Yang]] | ||
* [[Alireza Yazdani]] | * [[Alireza Yazdani]] | ||
* [[https://www.researchgate.net/profile/Minglang_Yin|Minglang Yin]] | * [[https://www.researchgate.net/profile/Minglang_Yin|Minglang Yin]] | ||
- | * [[Lifei Zhao]] | ||
* [[https://www.researchgate.net/profile/Xiaoning_Zheng|Xiaoning Zheng]] | * [[https://www.researchgate.net/profile/Xiaoning_Zheng|Xiaoning Zheng]] | ||
* [[http://www.cfm.brown.edu/people/gk/|Prof. George Karniadakis]] | * [[http://www.cfm.brown.edu/people/gk/|Prof. George Karniadakis]] | ||
+ | * [[https://www.brown.edu/academics/applied-mathematics/martin-maxey|Prof. Martin Maxey]] | ||
* [[https://vivo.brown.edu/display/bcaswell|Prof. Bruce Caswell]] | * [[https://vivo.brown.edu/display/bcaswell|Prof. Bruce Caswell]] | ||
- | * [[https://www.brown.edu/academics/applied-mathematics/martin-maxey|Prof. Martin Maxey]] | ||
- | |||
---- | ---- | ||
==== Weekly Seminar ==== | ==== Weekly Seminar ==== | ||
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A couple of software projects have been actively developed within the group and available under the GPL license to the general public. | A couple of software projects have been actively developed within the group and available under the GPL license to the general public. | ||
- | [[user-meso:main|USER-MESO]] \\ | + | [[https://github.com/yhtang/MESO|USER-MESO]] \\ |
[[https://data.mendeley.com/datasets/89849t3ngk/1|USER-MESO 2.0]] | [[https://data.mendeley.com/datasets/89849t3ngk/1|USER-MESO 2.0]] | ||
[[https://github.com/yhtang/OpenRBC|OpenRBC]] | [[https://github.com/yhtang/OpenRBC|OpenRBC]] | ||
+ | |||
+ | [[https://github.com/yhtang/MUI-demo|MUI]] | ||
---- | ---- | ||
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[[list_of_the_crunch_group_publications_on_dpd|Main article: List of Crunch Group Publications on DPD]] | [[list_of_the_crunch_group_publications_on_dpd|Main article: List of Crunch Group Publications on DPD]] | ||
+ | - L. Lu, H. Li, X. Bian, X. Li, and G. E. Karniadakis. [[http://dx.doi.org/10.1016/j.bpj.2017.05.05| Mesoscopic adaptive resolution scheme toward understanding of interactions between sickle cell fibers]]. //Biophys. J.//, 2017, 113, 48-59. (Cover Article) | ||
+ | - H.-Y. Chang, X. Li, and G. E. Karniadakis. [[http://dx.doi.org/10.1016/j.bpj.2017.06.015|Modeling of biomechanics and biorheology of red blood cells in type-2 diabetes mellitus]]. //Biophys. J.//, 2017, 113, 481-490. (BJ Highlighted Article) | ||
- Y.-H. Tang, L. Lu, H. Li, C. Evangelinos, L. Grinberg, V. Sachdeva, and G. E. Karniadakis. [[http://www.cell.com/biophysj/fulltext/S0006-3495(17)30436-8|OpenRBC: A fast simulator of red blood cells at protein resolution]]. //Biophys. J.//, 2017, 112, 2030-2037. | - Y.-H. Tang, L. Lu, H. Li, C. Evangelinos, L. Grinberg, V. Sachdeva, and G. E. Karniadakis. [[http://www.cell.com/biophysj/fulltext/S0006-3495(17)30436-8|OpenRBC: A fast simulator of red blood cells at protein resolution]]. //Biophys. J.//, 2017, 112, 2030-2037. | ||
- A. L. Blumers, Y.-H. Tang, Z. Li, X. Li and G. E. Karniadakis. [[http://www.sciencedirect.com/science/article/pii/S0010465517301042|GPU-accelerated red blood cells simulations with transport dissipative particle dynamics]]. //Comput. Phys. Commun.//, 2017, 217, 171-179. | - A. L. Blumers, Y.-H. Tang, Z. Li, X. Li and G. E. Karniadakis. [[http://www.sciencedirect.com/science/article/pii/S0010465517301042|GPU-accelerated red blood cells simulations with transport dissipative particle dynamics]]. //Comput. Phys. Commun.//, 2017, 217, 171-179. | ||
- | - Z Li, HS Lee, E Darve, GE Karniadakis. [[http://aip.scitation.org/doi/full/10.1063/1.4973347|Computing the non-Markovian coarse-grained interactions derived from the Mori–Zwanzig formalism in molecular systems: Application to polymer melts]]. //J. Chem. Phys.//, 2017, 146, 014104. | + | - X. Li, E. Du, M. Dao, S. Suresh, and G. E. Karniadakis. [[http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005426|Patient-specific modeling of individual sickle cell behavior under transient hypoxia]]. //PLOS Comput. Biol.//, 2017, 13, e1005426. |
- X Bian, C Kim, GE Karniadakis. [[http://pubs.rsc.org/en/content/articlehtml/2016/sm/c6sm01153e|111 years of Brownian motion]]. //Soft Matter//, 2016, 12, 6331-6346. | - X Bian, C Kim, GE Karniadakis. [[http://pubs.rsc.org/en/content/articlehtml/2016/sm/c6sm01153e|111 years of Brownian motion]]. //Soft Matter//, 2016, 12, 6331-6346. | ||
- | - Y.-H. Tang, Z. Li, X. J. Li, M. G. Deng and G. E. Karniadakis. [[http://pubs.acs.org/doi/abs/10.1021/acs.macromol.6b00365|Non-equilibrium dynamics of vesicles and micelles by self-assembly of block copolymers with double thermoresponsivity]]. //Macromolecules//, 2016, 49, 2895–2903. | + | - H.-Y. Chang, X. Li, H. Li, and G. E. Karniadakis. [[http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005173|MD/DPD multiscale framework for predicting morphology and stresses of red blood cells in health and disease]]. //PLOS Comput. Biol.// 2016, 12, e1005173. |
- Y.-H. Tang, S. Kudo, X. Bian, Z. Li and G. E. Karniadakis. [[http://www.sciencedirect.com/science/article/pii/S0021999115003228|Multiscale Universal Interface: A Concurrent Framework for Coupling Heterogeneous Solvers]]. //J. Comput. Phys.//, 2015, 297, 13-31. | - Y.-H. Tang, S. Kudo, X. Bian, Z. Li and G. E. Karniadakis. [[http://www.sciencedirect.com/science/article/pii/S0021999115003228|Multiscale Universal Interface: A Concurrent Framework for Coupling Heterogeneous Solvers]]. //J. Comput. Phys.//, 2015, 297, 13-31. | ||
- Z. Li, Y.-H. Tang, X. J. Li and G. E. Karniadakis. [[http://pubs.rsc.org/en/content/articlehtml/2015/cc/c5cc01684c|Mesoscale modeling of phase transition of thermoresponsive polymers]]. //Chem. Commun.//, 2015, 51, 11038-11040. | - Z. Li, Y.-H. Tang, X. J. Li and G. E. Karniadakis. [[http://pubs.rsc.org/en/content/articlehtml/2015/cc/c5cc01684c|Mesoscale modeling of phase transition of thermoresponsive polymers]]. //Chem. Commun.//, 2015, 51, 11038-11040. | ||
+ | - K. Lykov, X. J. Li, I. V. Pivkin and G. E. Karniadakis. [[http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1004410|Inflow/Outflow boundary conditions for particle-based blood flow simulations: Application to arterial bifurcations and trees]]. //PLOS Comput. Biol.//, 2015, 11, e1004410. | ||
- Y.-H. Tang and G. E. Karniadakis. [[http://www.sciencedirect.com/science/article/pii/S0010465514002203|Accelerating Dissipative Particle Dynamics Simulations on GPUs: Algorithms, Numerics and Applications]]. //Comput. Phys. Commun.//, 2014, 185, 2809-2822. | - Y.-H. Tang and G. E. Karniadakis. [[http://www.sciencedirect.com/science/article/pii/S0010465514002203|Accelerating Dissipative Particle Dynamics Simulations on GPUs: Algorithms, Numerics and Applications]]. //Comput. Phys. Commun.//, 2014, 185, 2809-2822. | ||
- Z. Li, Y.-H. Tang, H. Lei, B. Caswell and G.E. Karniadakis. [[http://www.sciencedirect.com/science/article/pii/S0021999114000977|Energy-conserving dissipative particle dynamics with temperature-dependent properties]]. //J. Comput. Phys.//, 2014, 265, 113-127. | - Z. Li, Y.-H. Tang, H. Lei, B. Caswell and G.E. Karniadakis. [[http://www.sciencedirect.com/science/article/pii/S0021999114000977|Energy-conserving dissipative particle dynamics with temperature-dependent properties]]. //J. Comput. Phys.//, 2014, 265, 113-127. |