Publications

PEER-REVIEWED JOURNALS

2025

1. M. Esmaily, D. Jia, An augmented streamline upwind/Petrov-Galerkin method for the time-spectral convection-diffusion equation, Journal of Computational Physics, 520, 113484, 2025 [Link].

2024

2. G. Rydquist, M. Esmaily, Investigating the effect of turbulence on hemolysis through cell-resolved fluid-structure interaction simulations, Physical Review Fluids, 9, 073102, 2024 [Link]. 

3. M. Esmaily, D. Jia, A new stabilized time-spectral finite element solver for fast simulation of blood flow, Computer Methods in Applied Mechanics and Engineering, 425, 116939, 2024 [Link].  

2023

4. G. Rydquist, M. Esmaily, Analysis of the suitability of an effective viscosity to represent interactions between red blood cells in shear flow, Journal of Biomechanical Engineering, 146(2): 021007, 2023 [Link]. 

5. D. Jia, M. Esmaily,  A time-consistent stabilized finite element method for fluids with applications to hemodynamics, Scientific Report, 13, 19120, 2023 [Link]. 

6. M. Esmaily, D. Jia, A stabilized formulation for the solution of the incompressible unsteady Stokes equations in the frequency domain, Journal of Computational Physics, 437, 111736, 2023 [Link]. 

2022

7. P. Lu, P. Wang, B. Wu, Y. Wang, Y. Liu, W. Cheng, X. Feng, X. Yuan, M. Atteya, H. Ferro, Y. Sug, G. Rydquist, M. Esmaily, J. Butcher, C. Chang, J. Lenz, D. Zheng, B. Zhou, A SOX17-PDGFB signaling axis regulates aortic root development, Nature Communications, 13(1), 1-17, 2022 [Link].

8. G. Rydquist, M. Esmaily, A cell-resolved, Lagrangian solver for modeling red blood cells dynamics in macroscale flows, Journal of Computational Physics, 461, 111204, 2022 [Link]. 

9. D. Jia, M. Esmaily, Characterization of the ejector pump performance for the Assisted Bidirectional Glenn operation, Fluids, 7(1), 31, 2022 [Link].

2021

10. M. Esmaily, Lyapunov exponent of finite-density inertial particles subjected to Stokes drag, Physical Review Fluids, 6, 114301, 2021 [Link]. 

11. C. Meng, A. Bhattacharjee, M. Esmaily, A scalable spectral Stokes solver for simulation of time-periodic flows in complex geometries, Journal of Computational Physics, 445, 110601, 2021 [Link].

12. D. Jia, M. Peroni, T. Khalapyan, and M. Esmaily, An efficient Assisted Bidirectional Glenn design with lowered Superior Vena Cava pressure for stage-one single ventricle patients, Journal of Biomechanical Engineering, 143 (7), 071008, 2021 [Link]. 

13. D. Jia, J. Baker, A. Rameau, and M. Esmaily, Simulation of a vacuum helmet to contain pathogen-bearing droplets in dental, otolaryngologic, and ophthalmologic outpatient interventions, Physics of Fluids, 33, 013307, 2021 [Link].

2020

14. G. Rydquist, M. Esmaily, An optimal O(N) scheme for simulations of colliding, particle-laden flows on unstructured grids, Journal of Computational Physics, 420, 109703, 2020 [Link].

15. P. Pakseresht, M. Esmaily, S.V. Apte, A correction scheme for wall-bounded two-way coupled point-particle simulations, Journal of Computational Physics, 420, 109711, 2020 [Link].

16. M. Esmaily and A. Mani, A modal analysis of the behavior of inertial particles in turbulence subjected to Stokes drag, Physical Review Fluids, 5(8), 084303, 2020 [Link].

17. M. Esmaily, L. Villafane, A. Banko, G. Iaccarino, J. Eaton, A. Mani, A benchmark for particle- laden turbulent duct flow: A joint computational and experimental study, International Journal of Multiphase Flow, 132, 103410, 2020 [Link].

2019

18. A. Banko, L. Villafane, J.H. Kim, M. Esmaily, J.K. Eaton, Stochastic Modeling of Direct Radiation Transmission in Particle-Laden Turbulent Flow, Journal of Quantitative Spectroscopy and Radiative Transfer, 226, 1-18, 2018 [Link].

19. J.K. Shang, M. Esmaily, A. Verma, O. Reinhartz, R.S. Figliola, T-Y. Hsia, J.A. Feinstein, A.L. Marsden, Patient-specific multiscale modeling of the Assisted Bidirectional Glenn, The Annals of Thoracic Surgery, 107(4), 1232-1239, 2019  [Link].

20. M. Bassenne, M. Esmaily, D. Livescu, P. Moin, and J. Urzay, A dynamic spectrally enriched subgrid-scale model for preferential concentration in particle-laden turbulence, International Journal of Multiphase Flow, 116, 270-280, 2019 [Link].

2018

21. M. Esmaily and J. Horwitz, A correction scheme for two-way coupled point-particle simulations on anisotropic grids, Journal of Computational Physics, 375, 960-982, 2018 [Link].

22. M. Esmaily, L. Jofre, A. Mani, G. Iaccarino, A scalable geometric multigrid method for nonsymmetric elliptic systems with applications to variable-density flows, Journal of Computational Physics, 357(15), 142-158, 2018 [Link]. 

23. C. Bertoglio, A. Caiazzo, Y. Bazilevs, M. Braack, M. Esmaily, V. Gravemeier, A. Marsden, O. Pironneau, I.E. Vignon-Clemente, W.A. Wall, Benchmark problems for numerical treatment of backflow at open boundaries, International Journal for Numerical Methods in Biomedical Engineering, 34(2), e2918, 2018 [Link].

2017

24. A. Verma, M. Esmaily, J.K. Shang, R.S. Figliola, J.A. Feinstein, T.-Y. Hsia, A.L. Marsden, Optimization of the Assisted Bidirectional Glenn procedure for first stage single ventricle repair, World Journal for Pediatric and Congenital Heart Surgery, 9(2), 157-170, 2017 [link].

2016

25. M. Esmaily and Ali Mani, Analysis of the clustering of inertial particles in turbulent flows, Physical Review Fluids, 1, 084202, 2016 [Link].

26. E. Barbar, I.D. Boyd, M. Esmaily, Monte Carlo modeling of radiative heat transfer in particle-laden flow, Journal of Quantitative Spectroscopy and Radiative Transfer, 184, 146-160, 2016 [link].

2015

27. M. Esmaily, T-Y. Hsia,  A. Marsden, The Assisted Bidirectional Glenn: a novel surgical approach for first stage single ventricle heart palliation, The Journal of Thoracic and Cardiovascular Surgery, 149(3), 699-705, 2015  [link].

28. M. Esmaily, Y. Bazilevs, A. Marsden, A bi-partitioned iterative algorithm for solving linear systems arising from incompressible flow problems, Computer Methods in Applied Mechanics and Engineering, 286(1), 40-62, 2015 [link].

29. M. Esmaily, Y. Bazilevs, A. Marsden, Impact of data distribution on the parallel performance of iterative linear solvers with emphasis on CFD of incompressible flows, Computational Mechanics, 55(1), 93-103, 2015 [link].

30. M. Esmaily, B. Murtuza, T-Y. Hsia,  A. Marsden, Simulations reveal adverse hemodynamics in single ventricle patients with multiple systemic to pulmonary shunts, Journal of Biomechanical Engineering, 137(3), 031001-031001-12, 2015 [link].

31. A. Marsden, M. Esmaily, Multiscale Modeling of Cardiovascular Flows for Clinical Decision Support, Applied Mechanics Reviews, 67(3), 030804, 2015 [link]. 

32. J. Zhou, M. Esmaily, T. Conover, A. Marsden, R. Figliola, In vitro study assessment of the assisted bidirectional Glenn procedure for stage one single ventricle repair, Cardiovascular Engineering and Technology, 6(3), 256-257, 2015 [link].

2014

33. D. Sengupta, E. Kung, M. Esmaily, A.M. Kahn, O. Shirinsky, G.A. Lyskina, J.C. Burns, A.L. Marsden, Thrombotic risk stratification using computational modeling in patients with coronary artery aneurysms following Kawasaki disease, Biomechanics and Modeling in Mechanobiology, 13(6), 1261-1276, 2014 [link].

34. C.C. Long, M. Esmaily, A.L. Marsden, Y. Bazilevs, Computation of residence time in the simulation of pulsatile ventricular assist devices, Computational Mechanics, 54(4), 911-919, 2014 [link].

35. G. Arbia, C. Corsini, M. Esmaily, A.L. Marsden, F. Migliavacca, T-Y. Hsia, G. Pennati, I.E. Vignon-Clementel, Numerical blood flow simulation in surgical corrections: what do we need for an accurate analysis?, Journal of Surgical Research, 186(1), 44-55, 2014 [link]. 

2013

36. J. Lee, M. Esmaily, E. Kung, H. Cao, T. Beebe, L. Fang, Y. Miller, C-L. Lien, N. C. Chi, A.L. Marsden, T.K. Hsiai, Moving domain computational fluid dynamics to interface with an embryonic model of cardiac morphogenesis, PLoS ONE, 8(8), e72924, 2013 [link].

37. M. Esmaily, T-Y. Hsia,  A. Marsden, A non-discrete method for computation of residence time in fluid mechanics simulations, Physics of Fluids, 25(11), 110802, 2013 [link].

38. M. Esmaily, Y. Bazilevs, A. Marsden, A new preconditioning technique for implicitly coupled multidomain simulations with applications to hemodynamics, Computational Mechanics, 52(5), 1141-1152, 2013 [link].

39.  D.A. Steinman, et al., Variability of CFD solutions for pressure and flow in a giant aneurysm: The SBC2012 CFD challenge, Journal of Biomechanical Engineering, 135(2), 021016, 2013 [link].

40. M. Esmaily, I. Vignon-Clementel, R. Figliola, A. Marsden, A modular numerical method for implicit 0D/3D coupling in cardiovascular finite element simulations, Journal of Computational Physics, 224, 63-79, 2013 [link].

2012

41. M. Esmaily, F. Migliavacca, I. Vignon-Clementel, T-Y. Hsia, A. Marsden, Optimization of shunt placement for the Norwood surgery using multi-domain modeling, Journal of Biomechanical Engineering, 134(5), 051002, 2012 [link].

42. S. Sankaran, M. Esmaily, J. Guccione, A. Kahn, E. Tseng, A. Marsden, Patient-specific multiscale modeling of blood flow for coronary artery bypass graft surgery, Annals of Biomedical Engineering, 40(10), 2228-2242, 2012 [link].

2011

43. M. Esmaily, Y. Bazilevs, I. Vignon-Clementel, A. Marsden, A comparison of outlet boundary treatments for prevention of backflow divergence with relevance to blood flow simulations, Computational Mechanics, 48(3), 277-291, 2011 [link].

44. M. Esmaily, M.B. Shafii, Rotary magnetohydrodynamic micropump based on slug trapping valve, Journal of Microelectromechanical Systems, 20(1), 260-269, 2011 [link].

2009

45. M. Esmaily, M.B. Shafii, E.A. Dehkordi, Hydromagnetic micropump and flow controller. part A: experiments with nickel particles added to water, Experimental Thermal and Fluid Science, 33(6), 1021-1028, 2009 [link].

46.  M. B. Shafii, E.A. Dehkordi, M. Esmaily, E. E. Koochesfahani, Using nucleators to control freckles in unidirectional solidification, Experimental Thermal and Fluid Science, 33(8), 1209-1215, 2009 [link].

PATENTS

1. M. Esmaily, A. Marsden, A device for the assisted bidirectional Glenn procedure in pediatric cardiac surgery, (provisional patent). 

2. M. Esmaily, M. B. Shafii,  A rotary MHD micropump, Iranian patent No. 56123-003305-A87, January 2009.

3. M. Esmaily, M. B. Shafii, Hydromagnetic micropump and flow controller, Iranian Patent No. 49631-007236-A85, June 2008.

PEER-REVIEWED REPORTS

1. M. Esmaily and J. Horwitz, Investigation of a four-way coupling regime using a corrected point-particle approach, Center for Turbulence Research, Annual Research Brief, 49-62, 2017 [PDF].

2. M. Bassenne, M. Esmaily, D. Livescu, J. Urzay, P. Moin, A dynamic spectrally-enriched subgrid-scale model for LES of particle-laden turbulence, Center for Turbulence Research, Annual Research Brief, 3-19, 2017 [PDF].

3. M. Esmaily and A.Mani, Analytical prediction of the segregation of the inertial particles in turbulent flows, Center for Turbulence Research, Annual Research Brief, 137-148, 2016 [PDF].

4. T. Flint, A. Thambooz, N. Velasquezz, J. V. Nayakz, M. Selliery, M. Esmaily, P. Moin, A case study of empty nose syndrome by nasal airflow simulation, Center for Turbulence Research, Annual Research Brief, 329-339, 2016 [PDF].

5. L. Villafane, M. Esmaily, A. Banko, and J. Eaton, A robust method for quantification of preferential concentration from finite number of particles, Center for Turbulence Research, Annual Research Brief, 123-135, 2016 [PDF]. 

6. B. Kadoch, M. Bassenne, M. Esmaily, K. Schneider, M. Farge, W. Bos, Multiscale geometrical Lagrangian statistics: Extensions and applications to particle-laden turbulent flows, Center for Turbulence Research, Proceedings of the Summer Program, 53-62, 2016 [PDF]. 

7. A. Patel, R. Pecnik, J.W.R. Peeters, B.J. Boersma, S. Hickel, M. Esmaily, Turbulence modulation by variable density and viscosity, Center for Turbulence Research, Proceedings of the Summer Program, 213-222, 2016 [PDF]. 

8. M. Esmaily, L. Jofre, G. Iaccarino, A. Mani, A scalable geometric multigrid method for nonsymmetric linear systems arising from the elliptic equations, Center for Turbulence Research, Annual Research Brief, 211-223, 2015 [PDF]. 

9. T. Flint, M. Esmaily, A. Thamboo, N. Velasquez, P. Moin, Computational investigation of empty nose syndrome, Center for Turbulence Research, Annual Research Brief, 251-260, 2015 [PDF].

DISSERTATIONS

1. Development of multiscale modeling methods for clinical decision making in single ventricle heart patients, University of California, San Diego, 2014 [PDF].

2. Fabrication and experimental investigation of a rotary MHD micropump, Sharif University of Technology, 2009 (In Persian) [PDF].

3. A novel hydro-magnetic micropump and flow controller, Sharif University of Technology, 2007 (In Persian) [PDF].