- Z. Li, X. Bian, X. Li and G.E. Karniadakis, "Incorporation of memory effects in coarse-grained modeling via the Mori-Zwanzig formalism," J. Chem. Phys. 143, 243128, 2015, DI: 10.1063/1.4935490.

- Z. Li, Y-H. Tang, X. Li and G.E. Karniadakis, "Mesoscale modeling of phase transition dynamics of thermoresponisve polymers," Chem. Commun. 51, 11038-11040, 2015.
- Z. Li, X. Bian, B. Caswell and G.E. Kaarniadakis, "Construction of dissipative particle dynamics models for complex fluids via the Mori-Zwannzig formulation." Soft Matter 2014, DOI: 10.1039/C4SM01387E.

- C. Kim and G.E. Karniadakis, "Time correlation functions of Brownian motion and evaluation of friction coefficent in the near-Brownian-limt regime," Multiscale Model. Simul. 12(1), 225-258, 2014.

- Z. Li, Y-H. Tang, H. Lei, B. Caswell and G.E. Karniadakis, "Energy-conserving dissipative particle dynamics with temperature-dependent properties," J. Comput. Phys., 265, 113-127, 2014.

- M. Deng and G.E. Karniadakis, "Electrostatic correlations near charged planar surfaces," J. Chemial Physics, 141, 094703, 2014.

- C. Kim and G.E. Karniadakis, "Microscopic theory of Brownian motion revisited: The Rayleigh model," Physical Review E, 87, 032129, 2013.

- X. Li, A. Popel and G.E. Karniadakis, "Blood-plasma separation in Y-shaped bifurcating microfluidic channels: A dissipative particle dynamics simulation study," Physical Biology, 9, 026010, 2012.

- H. Lei and G.E. Karniadakis, "Quantifying the rheological and hemodynamic characteristics of sickle cell anemia," Biophysical Journal, 102, 185-194, 2012.

- H. Lei and G.E. Karniadakis, "Predicting the morphology of sickle red blood cells using coarse-grained models of intracellular aligned hemoglobin polymers," Soft Matter, 8, 4507-4516, 2012.

- M. Deng, X. Li, H. Liang, B. Caswell and G.E. Karniadakis, "Simulation and modeling of slip flow over surface grafted with polymer brushes and alycocalyx fibers, J. Fluid Mech. 711, 192-211, 2012.

- X. Li, B. Caswell and G.E. Karniadakis, "Effect of chain chirality on self-assembly of sickle hemoglobin," Biophysical Journal, 103, 1130-1140, 2012.

- D. Fedosov, W. Pan, B. Caswell and G.E. Karniadakis, "Predicting human blood viscosity in silico, PNAS, 108(29), 11772-11777, 2011.

- D. Fedosov, B. Caswell and G.E. Karniadakis, "Wall shear stress-based method for adhesive dynamics of red blood cells in malaria, Biophysical Journal, 100, 2084-2093, 2011.

- D. Fedosov, H. Lei, B. Caswell, S. Suresh and G.E. Karniadakis, "Multiscale modeling of blood flow in malaria," PLOS Comput. Bio., 7(12), e1002270, 2011.

- H. Lei, D.A. Fedosov and G.E. Karnidakis, "Time-dependent and outflow boundary conditions for Dissipative Particle Dyanmics," J. Comput. Phys., 230, 3765-3779, 2011.

- D. Fedosov, B. Caswell and G.E. Karniadakis, "Steady shear rheometry of DPD models of polymer fluids in reverse Poiseuille flow," J. Chem. Phys., 132, 144103, 2010.
- X. Luo, A. Beskok, G.E. Karniadakis, "Modeling electrokinetic flows by the smoothed profile method. J. Comp. Phys, 229, 3828-3847, 2010.
- H. Lei, B. Caswell and G.E. Karniadakis, "Direct construction of mesoscopic models from microscopic simulations," Phys. Rev. E, 81, 026704, 2010.
- W. Pan, B. Caswell and G.E. Karniadakis, "Rheology, Microstructure and Migration in Brownian Colloidal Suspensions," Langmuir, 26(1), 133-142, 2010.
- D. Fedosov and G.E. Karniadakis, "Triple-decker: Interfacing atomistic-mesocopic-continuum flow regimes, J. Comp. Phys., 228, 1157-1171, 2009.
- D. Fedosov, G.E. Karniadakis and B. Caswell, "DPD simulation of depletion layer and polymer migration in micro- and nano-channels for dilute polymer solutions," J. Chem. Phys. 128, 144903, 2008.
- W. Pan, I.V. Pivkin and G.E. Karniadakis, "Single-particle hydrodynamics in DPD: A new formulation," Europhysics Letters, 84(1), 10012, 2008.
- W. Pan, D.A. Fedosov and G.E. Karniadakis, "Hydrodynamic interactions for single dissipative-particle-dynamics particles and their clusters and filaments,'' Phys. Rev. E., 78, 046706, 2008.
- W. Pan, I.V. Pivkin and G.E. Karniadakis, "Single-particle hydrodynamics in DPD: A new formulation," EPL, 84, 10012, doi: 10.1209/0295-5075/84/10112, 2008.
- D.A. Fedosov, I.V. Pivkin and G.E. Karniadakis, "Velocity limit in DPD simulations of wall-bounded flows," J. Comp. Phys. 227(4), 2540-2559, Feb. 2008.
- V. Symeonidis, G.E. Karniadakis and B. Caswell, ''Schmidt number effects in simulation of polymer dissipative particle dynamics,'' J. Chem. Phys., 125, 184902, 2006.
- E. Climent, K. Yeo, M. Maxey and G.E. Karniadakis, ''Dynamic self-assembly of spinning particles,'' J. Fluids Engin. 129, 379-387, April 2007.
- V. Symeonidis and G.E. Karniadakis, ''A family of time-staggered schemes for integrating hybrid DPD models for polymers: Algorithms and applications,'' J. Comp. Phys. vol. 218, 82-101, 2006.
- D. Liu, M.R. Maxey and G.E. Karniadakis, ''Simulations of dynamic self-assembly in confined microgeometries,'' J. Micromech. Microeng. 15(12), 2298-2308, 2005.
- E. Keaveny, I. Pivkin, M.R. Maxey and G.E. Karniadakis, ''A comparative study between dissipative particle dynamics and molecular dynamics for simple- and complex-geometry flows,'' J. Chem. Phys. vol 123, 104107, 2005.
- J. Xu, S. Dong, M.R. Maxey and G.E. Karniadakis, ''Wall slippage effect in microbubble drag reduction,'' 2nd International Symposium on Seawater Drag Reduction, Busan, Korea, May 23-26, 2005.
- M.R. Maxey, D. Liu, S. Dong and G.E. Karniadakis, ''New advances in force-coupled method from micro to macro,'' Proceeding of IUTAM Symposium: Computational Approaches to Disperse Multiphase Flow, Argonne, Illinois, October 2004.
- M.R. Maxey, D. Liu, G.E. Karniadakis and E. Climent, ''Self-assembled particle structures for microflow systems,'' International Conference on Multiphase Flow, Yokohama, Japan, May 30 - June 4 2004.
- D. Liu, M.R. Maxey and G.E. Karniadakis, ''Modeling and optimization of colloidal micro-pumps,'' J. Micromech. Microeng., 14, 567-575, 2004.
- E. Climent, M.R. Maxey and G.E. Karniadakis, "Dynamics of self-assembled chaining in magnetorehological fluids," Langmuir, 20(2), 507-513, 2004.
- D. Liu, M.R. Maxey and G.E. Karniadakis, ''FCM-spectral element method for simulating colloidal micro-devices,'' 2nd MIT Conference on Computational Fluid and Solid Mechanics Solid Mechanics edited by K.J. Bathe, June 17-20 2003.
- D. Liu, M.R. Maxey and G.E. Karniadakis, ''Simulation and optimization of colloidal micro-pumps,'' NanoTech 2003 Conference, February 23-27 2003, San Francisco, CA.
- D. Liu, M.R. Maxey and G.E. Karniadakis, '' A fast method for particulate microflows,'' J. Microelectromechanical Systems, 11(6), 691-702, 2002.
- G.E. Karniadakis and A. Beskok, ''Microflows: Fundamentals and Simulation," Springer, 2001. (first textbook/monograph in this field).
- D. Liu, M.R. Maxey and G.E. Karniadakis, ''A fast algorithm for particulate micro-flows in complex geometries,'' 2001 ASME International Mechanical Engineering Congress, November 11-16 2001, New York.
- G. Lin and G.E. Karniadakis, ''High-order modeling of micro-pulsed plasma thrusters,'' AIAA 2002-2872, 3rd AIAA Theoretical Fluid Mechanics Meeting, June 24-26 2002, St. Louis, Missouri.
- R.M. Kirby, G.E. Karniadakis, O. Mikulchenko and K. Mayaram, ''Integrated simulation for MEMS: Coupling flow-structure-thermal-electrical domains,'' Chapter 5, The MEMS Handbook, CRC Press, ISBN:084930077-0
- R.M. Kirby, G.E. Karniadakis, O. Mikulchenko and K. Mayaram, ''An integrated simulator for coupled domain problems in MEMS,'' J. Microelectromechanical Systems, vol. 10(3), pp. 379-399, 2001.
- A. Beskok and G.E. Karniadakis, ''A model for flows in channels, pipes and ducts at micro- and nano-scales,'' J. Microscale Thermophysical Engineering, vol. 3, pp. 43-77, 1999.
- H.F. Liu, N. Gatsonis, A. Beskok and G.E. Karniadakis, Simulation models for rarefied flow past a sphere in a pipe,'' Proc. 21st Symposium on Rarefied Gas Dynamics, France, 1998.
- A. Beskok and G.E. Karniadakis, ''Modeling separation in rarefied gas flows,'' AIAA 97-1783, 4th AIAA Shear Flow Conference, Snowmass Village, CO, 1997.
- A. Beskok, G.E. Karniadakis and W. Trimmer, ''Rarefaction and compressibility effects in gas microflows,'' J. Fluids Engineering, vol. 118, p. 448, 1996.
- A. Beskok, W. Trimmer and G.E. Karniadakis, ''Rarefaction, compressibility and thermal creep effects for gas microflows,'' ASME Annual Winter Meeting, November 1995, San Francisco, CA.
- S.J. Sherwin, G.E. Karniadakis and S.A. Orszag, ''Numerical simulation of the ion etching process,'' J. Comp. Phys., vol. 110, p. 373, 1994.
- A. Beskok and G.E. Karniadakis, ''Simulation of heat and momentum transfer in complex micro-geometries,'' J. Thermophys. and Heat Transfer, vol. 8, no. 4, p. 647, 1994.
- S.J. Sherwin, E. Barough, G.E. Karniadakis and S.A. Orszag, ''Modeling of multilayer etching processes,'' J. of Vacuum Science and Technology, vol. 11, p. 1310, 1993.
- A. Beskok and G.E. Karniadakis, ''Simulation of heat and momentum transfer in complex micro-geometries,'' AIAA 93-3269, 1st Shear Flow Conference, Orlando, 1993.
- S.J. Sherwin, E. Barough, S.A. Orszag and G.E. Karniadakis, ''Application of an ENO scheme to simulate the ion etching process,'' Proc. Fourth Int. Conf. on Hyperb. problems, Taormina, Italy, April, 1992.
- A. Beskok and G.E. Karniadakis, ''Simulation of slip-flows in complex micro-geometries,'' Proc. ASME, Winter Annual Meeting, Anaheim, CA, 1992.
- E. Barough, B. Bradie, U. Hollerbach, G.E. Karniadakis and S.A. Orszag, ''Comprehensive 3-D notching simulator with non-planar substrates,'' Proc. on Optical/Laser Microlithography, vol. 3, p. 334, SPIE, 1990.