**Publications**

The CM4 team measures its success, in part, on its fundamental contributions to the scientific literature, focusing primarily on mathematics and materials science, as well as the generation and dissemination of algorithms and open-source software.

Please note: Some links may only be provided through paid subscription services, which may limit access. Consult your institution’s library for assistance in obtaining these documents.

**2014**

Deng M and GE Karniadakis. 2014. “Coarse-Grained Modeling of Protein Unfolding Dynamics.” *Multiscale Modeling & Simulation* 12(1):109-118. DOI: 10.1137/130921519.

Karagiannis G and G Lin. 2014 “Selection of Polynomial Chaos Bases via Bayesian Model Uncertainty Methods with Applications to Sparse Approximation of PDEs with Stochastic Inputs.”* Journal of Computational Physics* 259:114-134. DOI: 10.1016/j.jcp.2013.11.016.

Kim C and GE Karniadakis. 2014. “Time Correlation Functions of Brownian Motion and Evaluation of Friction Coefficient in the Near-Brownian-Limit Regime.” *Multiscale Modeling & Simulation* 12(1):225-248. DOI: 10.1137/130929916.

Liang F, Y Cheng, and G Lin. 2014. “Simulated Stochastic Approximation Annealing for Global Optimization with a Square-Root Cooling Schedule.” *Journal of the American Statistical Association*. Published Online, Jan. 06, 2014. DOI: 10.1080/01621459.2013.872993.

Li W, G Lin, and D Zhang. 2014. “An adaptive ANOVA-based PCKF for high-dimensional nonlinear inverse modeling.” *Journal of Computational Physics* 258:752-772. DOI: 10.1016/j.jcp.2013.11.019.

Li Z, Y-H Tang, H Lei, B Caswell, and GE Karniadakis. 2014. “Energy-conserving dissipative particle dynamics with temperature-dependent properties.” *Journal of Computational Physics* 265:113-127. DOI: 10.1016/j.jcp.2014.02.003.

Pan W, J Bao, and AM Tartakovsky. 2014. “Smoothed Particle Hydrodynamics Continuous Boundary Force Method for Navier-Stokes Equations Subject to a Robin Boundary Condition.” *Journal of Computational Physics* 259:242-259. DOI: 10.1016/j.jcp.2013.12.014.

*Related Highlight*: Surpassing Boundaries in Fluid Dyamics

Perdikaris P and GE Karniadakis. 2014. “Fractional-order Viscoelasticity in One-dimensional Blood Flow Models.” *Annals of Biomedical Engineering*. Published Online, Jan. 11, 2014. DOI: 10.1007/s10439-014-0970-3.

Quemeneur F, JK Sigurdsson, M Renner, PJ Atzberger, P Bassereau, and D Lacoste. 2014. “Shape matters in protein mobility within membranes.” *Proceedings of the National Academy of Sciences of the United States of America* 111(14):5083-5087. DOI: 10.1073/pnas.1321054111.

Tang Y-H and GE Karniadakis. 2014. “Accelerating dissipative particle dynamics simulations on GPUs: Algorithms, numerics and applications.” *Computer Physics Communications*, Available Online June 23, 2014. DOI: 10.1016/j.cpc.2014.06.015.

Venturi D and GE Karniadakis. 2014. “Convolutionless Nakajima-Zwanzig Equations for Stochastic Analysis in Nonlinear Dynamical Systems.” *Proceedings of the Royal Society A* 470(2166):20130754. DOI: 10.1098/rspa.2013.0754.

Zayernouri M and GE Karniadakis. 2014. “Exponentially accurate spectral and spectral element methods for fractional ODEs.” *Journal of Computational Physics* 257(Part A):460-480. DOI: 10.1016/j.jcp.2013.09.039.

Zayernouri M and GE Karniadakis. 2014. “Fractional Spectral Collocation Method.” *SIAM Journal on Scientific Computing* 36(1):A40-A62. DOI: 10.1137/130933216.

**2013**

Fedosov D, M Dao, GE Karniadakis, and S Suresh. 2013. “Computational Biorheology of Human Blood Flow in Health and Disease.” *Annals of Biomedical Engineering, Special Issue: Frontiers in Bioengineering*. Published Online, Oct. 12, 2013. DOI: 10.1007/s10439-013-0922-3.

Kim C and GE Karniadakis. 2013. “Microscopic theory of Brownian motion revisited: The Rayleigh Model.” *Physical Review E* 87(3):032129. DOI: 10.1103/PhysRevE.87.032129.

Lei H and GE Karniadakis. 2013. “Probing vasoocclusion phenomena in sickle cell anemia via mesoscopic simulations.” *Proceedings of the National Academy of Sciences (PNAS)* 110(28):11326-11330. DOI: 10.1073/pnas.1221297110.

Pan W and AM Tartakovsky. 2013. “Dissipative particle dynamics model for colloid transport in porous media.” *Advances in Water Resources* 58:41-48. DOI: 10.1016/j.advwatres.2013.04.004.

Peng Z, X Li, I Pivkin, M Dao, GE Karniadakis, and S Suresh. 2013. “Lipid-bilayer and cytoskeletal interactions in a red blood cell.” *Proceedings of the National Academy of Sciences (PNAS)* 110(33):13356-13361. DOI: 10.1073/pnas.1311827110.

Rolfe BA, J Chun, and YL Joo. 2013. “Dynamics of Micelle-Nanoparticle Systems Undergoing Shear: A Coarse-Grained Molecular Dynamics Approach.” *Soft Matter*, 9(43):10294-10305. DOI: 10.1039/C3SM52194J.

Stinis P. 2013. “Renormalized reduced models for singular PDEs.” *Communications in Applied Mathematics and Computational Science *8(1):39-66. DOI: 10.2140/camcos.2013.8.39.

Wang Y, JK Sigurdsson, E Brandt, and PJ Atzberger. 2013. “Dynamic implicit-solvent coarse-grained models of lipid bilayer membranes: Fluctuating hydrodynamics thermostat.” *Physical Review E* 88(2):023301. DOI: 10.1103/PhysRevE.88.023301.

Zayernouri M and GE Karniadakis. 2013. “Fractional Sturm-Liouville eigen-problems: Theory and numerical approximation.” *Journal of Computational Physics *252(1):495-517. DOI: 10.1016/j.jcp.2013.06.031.