Papers
This page tracks 218 peer-reviewed publications that use IBAMR.
See also the IBAMR Google Scholar page.
IBAMR Google Scholar page2026
[1]
Xin Z, Sun M, Ren Y. Hydrodynamics of the self propulsion of a three-dimensional bioinspired travelling wave plate in ground effect. Acta Mech Sin. 2026;42(6):324958. doi:10.1007/s10409-025-24958-x.
[2]
Wei C, Liu H, Li S. A multiphase IFED method for fluid-structure interactions. J Comput Phys. 2026;552:114699. doi:10.1016/j.jcp.2026.114699.
[3]
Gong M, Dally B. Energy conversion evaluation of a cylinder-plate-cylinder harvester coupling wake-interference and induced vibrations: Effects of spacing and damping ratio. Energy. 2026:141216. doi:10.1016/j.energy.2026.141216.
[4]
Chao L-M, Gao Y, Ma G, Ma X, Baoyin H, Wang X. Drag-thrust transition of a burst-and-coast flapping foil. Theor Appl Mech Lett. 2026:100681. doi:10.1016/j.taml.2026.100681.
[5]
Kshetri KG, Bhalla APS, Nama N. Simulating acoustically-actuated flows in complex microchannels using the volume penalization technique. J Comput Phys. 2026;550:114635. doi:10.1016/j.jcp.2025.114635.
[6]
Sun L, Su W, Hu Q, Zhang T, Zeng Y, Jiang C, Li S, Shi X, Zhang D. Hydrodynamic analysis of a dual-mode bioinspired underwater robot featuring high-speed and high-manoeuvrability propulsion. Ocean Eng. 2026;350:124198. doi:10.1016/j.oceaneng.2026.124198.
[7]
Jin B, Wang J, Deng J. Wake deflection and propulsive performance of intermittently flapping foil. Phys Rev Fluids. 2026;11(3):034701. doi:10.1103/wdb2-8fz1.
[8]
Liu Y, Li F, Gao T, Qian S, Zheng X, Yu Y. Yaw control strategies through flow structuring in carangid C-type maneuvers. Biomimetics. 2026;11(2):156. doi:10.3390/biomimetics11020156.
[9]
Darveniza T, Wong R, Zhu SI, Pujic Z, Sun B, Levendosky M, Agarwal R, McCullough MH, Goodhill GJ. Larval zebrafish minimize energy consumption during hunting via adaptive movement selection. Proc Natl Acad Sci U S A. 2026;123(7):e2513853123. doi:10.1073/pnas.2513853123.
[10]
Xin Z, Huang Z, Zhang R. Hydrodynamics of a self-propelled undulating foil near the free surface. Ocean Eng. 2026;346:123995. doi:10.1016/j.oceaneng.2025.123995.
[11]
Gruninger C, Griffith BE. Composite B-spline regularized delta functions for the immersed boundary method: Divergence-free interpolation and gradient-preserving force spreading. J Comput Phys. 2026;546:114472. doi:10.1016/j.jcp.2025.114472.
[12]
Sun Q, Kolahdouz EM, Griffith BE. Improving the robustness of the immersed interface method through regularized velocity reconstruction. J Comput Phys. 2026;546:114497. doi:10.1016/j.jcp.2025.114497.
[13]
Lantz J, Collins JD, Leng S, McCollough CH, Persson A, Ebbers T. A numerical framework for preprocedural prosthetic valve positioning and hemodynamic evaluation. Biomech Model Mechanobiol. 2026;25(1):3. doi:10.1007/s10237-025-02025-7.
[14]
Liu Z, Wang C, Ren Z, Wang C, Wang W, Ko J, Song S, Hong C, Chen X, Wang H, Hu W, Sitti M. 3D-printed low-voltage-driven ciliary hydrogel microactuators. Nature. 2026;649(8098):885–893. doi:10.1038/s41586-025-09944-6.
[15]
Hang H, Jiao Y, Merel J, Kanso E. Flow currents support simple and versatile trail-tracking strategies. Phys Rev Res. 2026;8(1):013019. doi:10.1103/qj9q-p7rg.
[16]
Wang C, Zhu Y, Wu J. Stable schooling formations emerge from attractive/repulsive interactions between two self-propelled undulatory foils with an initial staggered configuration. Phys Fluids. 2026;38(1):011903. doi:10.1063/5.0307786.
2025
[17]
Kaiser AD, Choi PS, Sharir A, Marsden AL, Ma MR. Simulation-guided design of leaflet height in bicuspidization of the aortic valve. JTCVS Open. 2025;28:434–443. doi:10.1016/j.xjon.2025.09.038.
[18]
Nagda BM, Barrett A, Griffith BE, Fogelson AL, Du J. Adaptive mesh refinement for two-phase viscoelastic fluid mixture models. Comput Fluids. 2025;301:106772. doi:10.1016/j.compfluid.2025.106772.
[20]
Gong M, Dally B. Dynamic response of a cylinder-plate-cylinder system coupling wake-induced and interference effects. Phys Fluids. 2025;37(10):103602. doi:10.1063/5.0289251.
[21]
Afridi RH, Afridi WH, Hamza M, Wu M, Chao L-M, Zhai Y, Li L, Xie G. Beyond propulsion: Muscle proprioception enables hydrodynamic sensing in fish body. Proc Biol Sci. 2025;292(2057):20250474. doi:10.1098/rspb.2025.0474.
[22]
Facci M, Kolahdouz EM, Griffith BE. An immersed interface method for incompressible flows and geometries with sharp features. J Comput Phys. 2025;537:114119. doi:10.1016/j.jcp.2025.114119.
[23]
Kaiser AD, Wang J, Brown AL, Zhu E, Hsiai T, Marsden AL. A fluid-structure interaction model of the zebrafish aortic valve. J Biomech. 2025;190:112794. doi:10.1016/j.jbiomech.2025.112794.
[24]
Santiago M, Hoover A, Miller LA. Emergent kinematics and flow structure of tension driven pulsing xeniid corals. Bull Math Biol. 2025;87(9):133. doi:10.1007/s11538-025-01493-3.
[25]
Shu P, Li D, Lv R, Li Y, Zhao S, Xiang J. Modulatory role of coronary flow in aortic valve hemodynamics: A fluid–structure interaction study. Phys Fluids. 2025;37(9):091917. doi:10.1063/5.0291241.
[26]
Chen Y, Yang Y. Deep reinforcement learning for tracking a moving target in jellyfish-like swimming. J Fluid Mech. 2025;1017:A18. doi:10.1017/jfm.2025.10470.
[27]
Kshetri KG, Bhalla APS, Nama N. Consistent continuum equations and numerical benchmarks for a perturbation-based, variable-coefficient acoustofluidic solver. Phys Rev Fluids. 2025;10(7):074901. doi:10.1103/6xk4-2qxv.
[28]
Harrison A, Strychalski W, Hamlet C, Miller L. Fluid dynamics of multiple fast-firing extrusomes. Bull Math Biol. 2025;87(7):100. doi:10.1007/s11538-025-01474-6.
[29]
Gao H, Guan D, Villard P-F. Assessing left ventricular pump function using an immersed boundary method combined with finite elements. Int J Fluid Eng. 2025;2(2):024302. doi:10.1063/5.0249784.
[30]
Jin B, Wang J, Deng J. Schooling and trajectory deflection of two side-by-side burst-and-coast swimmers at intermediate Reynolds number. Phys Fluids. 2025;37(6):061902. doi:10.1063/5.0274190.
[31]
Powar O, Arun PAH, Kumar AM, Kanchan M, Karthik BM, Mangalore P, Santhya M. Recent developments in the immersed boundary method for complex fluid–structure interactions: A review. Fluids. 2025;10(5):134. doi:10.3390/fluids10050134.
[32]
Zhai Y, Zheng X, Chao L-M, Li S, Xiong M, Jia Y, Li L, Xie G. An interpretable approach to estimate the self-motion in fish-like robots using mode decomposition analysis. Nat Commun. 2025;16(1):3887. doi:10.1038/s41467-025-58880-6.
[33]
Jiao Y, Hang H, Merel J, Kanso E. Sensing flow gradients is necessary for learning autonomous underwater navigation. Nat Commun. 2025;16(1):3044. doi:10.1038/s41467-025-58125-6.
[34]
Wang B, Feng LY, Xu L, Gao H, Luo XY, Qi N. Three-dimensional fluid–structure interaction modelling of the venous valve using immersed boundary/finite element method. Comput Biol Med. 2025;185:109450. doi:10.1016/j.compbiomed.2024.109450.
[35]
Santiago M, Miller LA. Interplay of elasticity and flow velocity on gorgonian feeding and implications for bioinspired design. Ann N Y Acad Sci. 2025;1543(1):166–179. doi:10.1111/nyas.15250.
[36]
Donaldson SF, Gao H, Hill NA, Luo XY. A new active strain model for modelling left ventricular contraction. In: Chabiniok R, Zou Q, Hussain T, Nguyen HH, Zaha VG, Gusseva M, eds. Functional imaging and modeling of the heart. Cham; Springer; 2025. p. 319–330. doi:10.1007/978-3-031-94559-5_29.
[37]
Li L, Gruninger C, Lee JH, Griffith BE. Local divergence-free immersed finite element-difference method using composite B-splines. Adv Comput Sci Eng. 2025;4:16–56. doi:10.3934/acse.2025011.
[38]
Liu J, Wang S, Li Y, Xi Z, Jin H, Xu P. Bionic seal whisker triboelectric sensor for underwater multiobject wake perception. IEEE Trans Instrum Meas. 2025;74:1–10. doi:10.1109/TIM.2025.3580836.
2024
[39]
Heydari S, Hang H, Kanso E. Mapping spatial patterns to energetic benefits in groups of flow-coupled swimmers. eLife. 2024;13:RP96129. doi:10.7554/eLife.96129.
[40]
Li F, Liu Y, Yu Y. Synergistic mechanisms of dorsal and anal fins in the C-turn maneuvers of zebrafish. Phys Fluids. 2024;36(12):121916. doi:10.1063/5.0247670.
[41]
Shu P, Li D, Zhao S, Lv R. Effects of body posture on aortic valve hemodynamics and biomechanics using the fluid-structure interaction method. J Biomech. 2024;177:112388. doi:10.1016/j.jbiomech.2024.112388.
[42]
Chao L-M, Couzin ID, Li L. On turning maneuverability in self-propelled burst-and-coast swimming. Phys Fluids. 2024;36(11):111918. doi:10.1063/5.0237171.
[43]
Barrett A, Fogelson AL, Forest MG, Gruninger C, Lim S, Griffith BE. Flagellum pumping efficiency in shear-thinning viscoelastic fluids. J Fluid Mech. 2024;999:A2. doi:10.1017/jfm.2024.666.
[44]
Davey M, Puelz C, Rossi S, Smith MA, Wells DR, Sturgeon G, Segars WP, Vavalle JP, Peskin CS, Griffith BE. Simulating cardiac fluid dynamics in the human heart. PNAS Nexus. 2024;3(10):pgae392. doi:10.1093/pnasnexus/pgae392.
[45]
Liu Y, Gao M, Yu Y. Kinematics and hydrodynamic performance of zebrafish C-type maneuvers: A comparison of two- and three-dimensional simulations. AIP Adv. 2024;14(10):105111. doi:10.1063/5.0229588.
[46]
Kaiser AD, Haidar MA, Choi PS, Sharir A, Marsden AL, Ma MR. Simulation-based design of bicuspidization of the aortic valve. J Thorac Cardiovasc Surg. 2024;168(3):923–932.e4. doi:10.1016/j.jtcvs.2023.12.027.
[47]
Heath Richardson S, Mackenzie J, Thekkethil N, Feng L, Lee J, Berry C, Hill NA, Luo XY, Gao H. Cardiac perfusion coupled with a structured coronary network tree. Comput Methods Appl Mech Eng. 2024;428:117083. doi:10.1016/j.cma.2024.117083.
[48]
Wei C, Li S, Hu Q. Hydrodynamic performance analysis of formations of dual three-dimensional undulating fins. Ocean Eng. 2024;305:117939. doi:10.1016/j.oceaneng.2024.117939.
[49]
Li S, Liu S, Zhao D, Dong L, Jiao H. Drag reduction characteristics of the placoid scale array skin supported by micro Stewart mechanism based on penalty immersed boundary method. Appl Ocean Res. 2024;149:104049. doi:10.1016/j.apor.2024.104049.
[50]
He Y, Battista NA, Waldrop LD. Mixed uncertainty analysis on pumping by peristaltic hearts using Dempster-Shafer theory. J Math Biol. 2024;89(1):13. doi:10.1007/s00285-024-02116-6.
[51]
Gruninger C, Barrett A, Fang F, Forest MG, Griffith BE. Benchmarking the immersed boundary method for viscoelastic flows. J Comput Phys. 2024;506:112888. doi:10.1016/j.jcp.2024.112888.
[52]
Chao L-M, Li L. Hydrodynamic interactions in schooling fish: Prioritizing real fish kinematics over travelling-wavy undulation. In: 2024 IEEE international conference on robotics and automation (ICRA). 2024. p. 16895–16900. doi:10.1109/ICRA57147.2024.10611390.
[53]
Chao L-M, Jia L, Li L. Tailbeat perturbations improve swimming efficiency in self-propelled flapping foils. J Fluid Mech. 2024;984:A46. doi:10.1017/jfm.2024.262.
[54]
Yang D, Wu J, Khedkar K, Chao L-M, Bhalla APS. Hydrodynamics and scaling laws for intermittent S-start swimming. J Fluid Mech. 2024;984:A2. doi:10.1017/jfm.2024.103.
[55]
Sharma G, Ray B. Resolved simulation of monodisperse/polydisperse sedimentation: Influence of a single particle motion on cluster sedimentation. Adv Powder Technol. 2024;35(3):104369. doi:10.1016/j.apt.2024.104369.
[56]
Feng L, Gao H, Luo XY. Whole-heart modelling with valves in a fluid–structure interaction framework. Comput Methods Appl Mech Eng. 2024;420:116724. doi:10.1016/j.cma.2023.116724.
[57]
Sharma G, Ray B. Numerical simulation of square shaped particle sedimentation. Particuology. 2024;84:107–116. doi:10.1016/j.partic.2023.02.016.
[58]
Cai L, Zhong Q, Xu J, Huang Y, Gao H. A lumped parameter model for evaluating coronary artery blood supply capacity. Math Biosci Eng. 2024;21(4):5838–5862. doi:10.3934/mbe.2024258.
2023
[59]
Thirumalaisamy R, Bhalla APS. A low Mach enthalpy method to model non-isothermal gas–liquid–solid flows with melting and solidification. Int J Multiph Flow. 2023;169:104605. doi:10.1016/j.ijmultiphaseflow.2023.104605.
[60]
Kim KH, Bhalla APS, Griffith BE. An immersed peridynamics model of fluid-structure interaction accounting for material damage and failure. J Comput Phys. 2023;493:112466. doi:10.1016/j.jcp.2023.112466.
[61]
Thirumalaisamy R, Khedkar K, Ghysels P, Bhalla APS. An effective preconditioning strategy for volume penalized incompressible/low Mach multiphase flow solvers. J Comput Phys. 2023;490:112325. doi:10.1016/j.jcp.2023.112325.
[62]
Kaiser AD, Schiavone NK, Elkins CJ, McElhinney DB, Eaton JK, Marsden AL. Comparison of immersed boundary simulations of heart valve hemodynamics against in vitro 4D flow MRI data. Ann Biomed Eng. 2023;51(10):2267–2288. doi:10.1007/s10439-023-03266-2.
[63]
Claus L, Ghysels P, Liu Y, Nhan TA, Thirumalaisamy R, Bhalla APS, Li S. Sparse approximate multifrontal factorization with composite compression methods. ACM Trans Math Softw. 2023;49(3):1–28. doi:10.1145/3611662.
[64]
Kolahdouz EM, Wells DR, Rossi S, Aycock KI, Craven BA, Griffith BE. A sharp interface lagrangian-eulerian method for flexible-body fluid-structure interaction. J Comput Phys. 2023;488:112174. doi:10.1016/j.jcp.2023.112174.
[65]
Wei C, Hu Q, Li S, Zhang T, Shi X. Hydrodynamic performance analysis of undulating fin propulsion. Phys Fluids. 2023;35(9):091906. doi:10.1063/5.0170156.
[66]
Lin Z, Liang D, Bhalla APS, Al-Shabab AAS, Skote M, Zheng W, Zhang Y. How wavelength affects hydrodynamic performance of two accelerating mirror-symmetric undulating hydrofoils. Phys Fluids. 2023;35(8):081901. doi:10.1063/5.0155661.
[67]
Chao L-M, Bhalla APS, Li L. Vortex interactions of two burst-and-coast swimmers in a side-by-side arrangement. Theor Comput Fluid Dyn. 2023;37(4):505–517. doi:10.1007/s00162-023-00664-z.
[68]
Wang W, Song S, Hu W. Concurrent actuation and sensing in fluid by cilia-like transducers. Adv Intell Syst. 2023;5(8):2300046. doi:10.1002/aisy.202300046.
[69]
Barrett A, Brown JA, Smith MA, Woodward A, Vavalle JP, Kheradvar A, Griffith BE, Fogelson AL. A model of fluid-structure and biochemical interactions for applications to subclinical leaflet thrombosis. Int J Numer Methods Biomed Eng. 2023;39(5):e3700. doi:10.1002/cnm.3700.
[70]
Cai L, Zhao T, Wang Y, Luo XY, Gao H. Fluid–structure interaction simulation of pathological mitral valve dynamics in a coupled mitral valve-left ventricle model. Intell Med. 2023;3(2):104–114. doi:10.1016/j.imed.2022.06.005.
[71]
Perl I, Maya R, Sabag O, Beatus T. Lateral instability in fruit flies is determined by wing-wing interaction and wing elevation kinematics. Phys Fluids. 2023;35(4):041904. doi:10.1063/5.0138255.
[72]
Wells DR, Vadala-Roth B, Lee JH, Griffith BE. A nodal immersed finite element-finite difference method. J Comput Phys. 2023;477:111890. doi:10.1016/j.jcp.2022.111890.
[73]
Hamlet C, Fauci L, Morgan JR, Tytell ED. Proprioceptive feedback amplification restores effective locomotion in a neuromechanical model of lampreys with spinal injuries. Proc Natl Acad Sci U S A. 2023;120(11):e2213302120. doi:10.1073/pnas.2213302120.
[74]
Lin Z, Bhalla APS, Griffith BE, Sheng Z, Li H, Liang D, Zhang Y. How swimming style and schooling affect the hydrodynamics of two accelerating wavy hydrofoils. Ocean Eng. 2023;268:113314. doi:10.1016/j.oceaneng.2022.113314.
[75]
Wei C, Hu Q, Li S, Shi X. Hydrodynamic interactions and wake dynamics of fish schooling in rectangle and diamond formations. Ocean Eng. 2023;267:113258. doi:10.1016/j.oceaneng.2022.113258.
[76]
Brown JA, Lee JH, Smith MA, Wells DR, Barrett A, Puelz C, Vavalle JP, Griffith BE. Patient-specific immersed finite element-difference model of transcatheter aortic valve replacement. Ann Biomed Eng. 2023;51(1):103–116. doi:10.1007/s10439-022-03047-3.
[77]
Lior D, Puelz C, Edwards C, Molossi S, Griffith BE, Birla RK, Rusin CG. Semi-automated construction of patient-specific aortic valves from computed tomography images. Ann Biomed Eng. 2023;51(1):189–199. doi:10.1007/s10439-022-03075-z.
2022
[78]
Khedkar K, Bhalla APS. A model predictive control (MPC)-integrated multiphase immersed boundary (IB) framework for simulating wave energy converters (WECs). Ocean Eng. 2022;260:111908. doi:10.1016/j.oceaneng.2022.111908.
[79]
Kaiser AD, Shad R, Schiavone N, Hiesinger W, Marsden AL. Controlled comparison of simulated hemodynamics across tricuspid and bicuspid aortic valves. Ann Biomed Eng. 2022;50(9):1053–1072. doi:10.1007/s10439-022-02983-4.
[80]
Yang D, Wu J. Hydrodynamic interaction of two self-propelled fish swimming in a tandem arrangement. Fluids. 2022;7(6):208. doi:10.3390/fluids7060208.
[81]
Lee JH, Griffith BE. On the Lagrangian-Eulerian coupling in the immersed finite element/difference method. J Comput Phys. 2022;457:111042. doi:10.1016/j.jcp.2022.111042.
[82]
Battista N, Gaddam MG, Hamlet CL, Hoover AP, Miller LA, Santhanakrishnan A. The presence of a substrate strengthens the jet generated by upside-down jellyfish. Front Mar Sci. 2022;9:847061. doi:10.3389/fmars.2022.847061.
[83]
Halder S, Acharya S, Kou W, Campagna RAJ, Triggs JR, Carlson DA, Aziz Aadam A, Hungness ES, Kahrilas PJ, Pandolfino JE, Patankar NA. Myotomy technique and esophageal contractility impact blown-out myotomy formation in achalasia: An in silico investigation. Am J Physiol Gastrointest Liver Physiol. 2022;322(5):G500–G512. doi:10.1152/ajpgi.00281.2021.
[84]
van Veen WG, van Leeuwen JL, van Oudheusden BW, Muijres FT. The unsteady aerodynamics of insect wings with rotational stroke accelerations, a systematic numerical study. J Fluid Mech. 2022;936:A3. doi:10.1017/jfm.2022.31.
[85]
Acharya S, Halder S, Kou W, Kahrilas PJ, Pandolfino JE, Patankar NA. A fully resolved multiphysics model of gastric peristalsis and bolus emptying in the upper gastrointestinal tract. Comput Biol Med. 2022;143:104948. doi:10.1016/j.compbiomed.2021.104948.
[86]
Olejnik DA, Muijres FT, Karásek M, Honfi Camilo L, De Wagter C, de Croon GCHE. Flying into the wind: Insects and bio-inspired micro-air-vehicles with a wing-stroke dihedral steer passively into wind-gusts. Front Robot AI. 2022;9:820363. doi:10.3389/frobt.2022.820363.
[87]
Barrett A, Fogelson AL, Griffith BE. A hybrid semi-Lagrangian cut cell method for advection-diffusion problems with Robin boundary conditions in moving domains. J Comput Phys. 2022;449:110805. doi:10.1016/j.jcp.2021.110805.
[88]
Thirumalaisamy R, Patankar NA, Bhalla APS. Handling Neumann and Robin boundary conditions in a fictitious domain volume penalization framework. J Comput Phys. 2022;448:110726. doi:10.1016/j.jcp.2021.110726.
[89]
Sharma G, Nangia N, Bhalla APS, Ray B. A coupled distributed Lagrange multiplier (DLM) and discrete element method (DEM) approach to simulate particulate flow with collisions. Powder Technol. 2022;398:117091. doi:10.1016/j.powtec.2021.117091.
[90]
Cai L, Hao Y, Ma P, Zhu G, Luo XY, Gao H. Fluid-structure interaction simulation of calcified aortic valve stenosis. Math Biosci Eng. 2022;19(12):13172–13192. doi:10.3934/mbe.2022616.
2021
[91]
Kaiser AD, Shad R, Hiesinger W, Marsden AL. A design-based model of the aortic valve for fluid-structure interaction. Biomech Model Mechanobiol. 2021;20(6):2413–2435. doi:10.1007/s10237-021-01516-7.
[92]
Shen X, Yao X, Marcos, Fu HC. Can the mechanoreceptional setae of a feeding-current feeding copepod detect hydrodynamic disturbance induced by entrained free-floating prey? Limnol Oceanogr. 2021;66(12):4096–4111. doi:10.1002/lno.11945.
[93]
Hoover AP. Emergent metachronal waves using tension-driven, fluid–structure interaction models of Tomopterid parapodia. Integr Comp Biol. 2021;61(5):1594–1607. doi:10.1093/icb/icab088.
[94]
Kolahdouz EM, Bhalla APS, Scotten LN, Craven BA, Griffith BE. A sharp interface Lagrangian-Eulerian method for rigid-body fluid-structure interaction. J Comput Phys. 2021;443:110442. doi:10.1016/j.jcp.2021.110442.
[95]
Bale R, Bhalla APS, Griffith BE, Tsubokura M. A one-sided direct forcing immersed boundary method using moving least squares. J Comput Phys. 2021;440:110359. doi:10.1016/j.jcp.2021.110359.
[96]
Feng L, Gao H, Qi N, Danton M, Hill NA, Luo XY. Fluid-structure interaction in a fully coupled three-dimensional mitral–atrium–pulmonary model. Biomech Model Mechanobiol. 2021;20(4):1267–1295. doi:10.1007/s10237-021-01444-6.
[97]
Acharya S, Kou W, Halder S, Carlson DA, Kahrilas PJ, Pandolfino JE, Patankar NA. Pumping patterns and work done during peristalsis in finite-length elastic tubes. J Biomech Eng. 2021;143(7):071001. doi:10.1115/1.4050284.
[98]
Cai L, Zhang R, Li Y, Zhu G, Ma X, Wang Y, Luo X, Gao H. The comparison of different constitutive laws and fiber architectures for the aortic valve on fluid–structure interaction simulation. Front Physiol. 2021;12:682893. doi:10.3389/fphys.2021.682893.
[99]
Khedkar K, Nangia N, Thirumalaisamy R, Bhalla APS. The inertial sea wave energy converter (ISWEC) technology: Device-physics, multiphase modeling and simulations. Ocean Eng. 2021;229:108879. doi:10.1016/j.oceaneng.2021.108879.
[100]
Lee JH, Scotten L, Hunt R, Caranasos TG, Vavalle JP, Griffith BE. Bioprosthetic aortic valve diameter and thickness are directly related to leaflet fluttering: Results from a combined experimental and computational modeling study. JTCVS Open. 2021;6:60–81. doi:10.1016/j.xjon.2020.09.002.
[101]
Thirumalaisamy R, Nangia N, Bhalla APS. Critique on “Volume penalization for inhomogeneous Neumann boundary conditions modeling scalar flux in complicated geometry.” J Comput Phys. 2021;433:110163. doi:10.1016/j.jcp.2021.110163.
[102]
Heath Richardson SI, Gao H, Cox J, Janiczek R, Griffith BE, Berry C, Luo XY. A poroelastic immersed finite element framework for modeling cardiac perfusion and fluid-structure interaction. Int J Numer Methods Biomed Eng. 2021;37(5):e3446. doi:10.1002/cnm.3446.
[103]
Hoover AP, Xu NW, Gemmell BJ, Colin SP, Costello JH, Dabiri JO, Miller LA. Neuromechanical wave resonance in jellyfish swimming. Proc Natl Acad Sci U S A. 2021;118(11):e2020025118. doi:10.1073/pnas.2020025118.
[104]
Hoover AP, Daniels J, Nawroth J, Katija K. A computational model for tail undulation and fluid transport in the giant larvacean. Fluids. 2021;6(2):88. doi:10.3390/fluids6020088.
[105]
Senter DM, Douglas DR, Strickland WC, Thomas SG, Talkington AM, Miller L, Battista NA. A semi-automated finite difference mesh creation method for use with immersed boundary software IB2d and IBAMR. Bioinspir Biomim. 2021;16(1):016008. doi:10.1088/1748-3190/ababb0.
2020
[106]
Hoover AP, Tytell ED. Decoding the relationships between body shape, tail beat frequency, and stability for swimming fish. Fluids. 2020;5(4):215. doi:10.3390/fluids5040215.
[107]
Dafnakis P, Bhalla APS, Sirigu SA, Bonfanti M, Bracco G, Mattiazzo G. Comparison of wave–structure interaction dynamics of a submerged cylindrical point absorber with three degrees of freedom using potential flow and computational fluid dynamics models. Phys Fluids. 2020;32(9):093307. doi:10.1063/5.0022401.
[108]
Waldrop LD, He Y, Battista NA, Neary Peterman T, Miller LA. Uncertainty quantification reveals the physical constraints on pumping by peristaltic hearts. J R Soc Interface. 2020;17(170):20200232. doi:10.1098/rsif.2020.0232.
[109]
Voesenek CJ, Li G, Muijres FT, van Leeuwen JL. Experimental–numerical method for calculating bending moments in swimming fish shows that fish larvae control undulatory swimming with simple actuation. PLoS Biol. 2020;18(7):e3000462. doi:10.1371/journal.pbio.3000462.
[110]
Dombrowski T, Klotsa D. Kinematics of a simple reciprocal model swimmer at intermediate Reynolds numbers. Phys Rev Fluids. 2020;5(6):063103. doi:10.1103/PhysRevFluids.5.063103.
[111]
Vadala-Roth B, Acharya S, Patankar NA, Rossi S, Griffith BE. Stabilization approaches for the hyperelastic immersed boundary method for problems of large-deformation incompressible elasticity. Comput Methods Appl Mech Eng. 2020;365:112978. doi:10.1016/j.cma.2020.112978.
[112]
Samson JE, Miller LA. Collective pulsing in xeniid corals: Part II—using computational fluid dynamics to determine if there are benefits to coordinated pulsing. Bull Math Biol. 2020;82(6):67. doi:10.1007/s11538-020-00741-y.
[113]
Puelz C, Griffith BE. A sharp interface method for an immersed viscoelastic solid. J Comput Phys. 2020;409:109217. doi:10.1016/j.jcp.2019.109217.
[114]
Lee JH, Rygg AD, Kolahdouz EM, Rossi S, Retta SM, Duraiswamy N, Scotten LN, Craven BA, Griffith BE. Fluid–structure interaction models of bioprosthetic heart valve dynamics in an experimental pulse duplicator. Ann Biomed Eng. 2020;48(5):1475–1490. doi:10.1007/s10439-020-02466-4.
[115]
Hamlet C, Strychalski W, Miller L. Fluid dynamics of ballistic strategies in nematocyst firing. Fluids. 2020;5(1):20. doi:10.3390/fluids5010020.
[116]
Griffith BE, Patankar NA. Immersed methods for fluid-structure interaction. Annu Rev Fluid Mech. 2020;52(1):421–448. doi:10.1146/annurev-fluid-010719-060228.
[117]
Kolahdouz EM, Bhalla APS, Craven BA, Griffith BE. An immersed interface method for discrete surfaces. J Comput Phys. 2020;400:108854. doi:10.1016/j.jcp.2019.07.052.
[118]
Bhalla APS, Nangia N, Dafnakis P, Bracco G, Mattiazzo G. Simulating water-entry/exit problems using Eulerian–Lagrangian and fully-Eulerian fictitious domain methods within the open-source IBAMR library. Appl Ocean Res. 2020;94:101932. doi:10.1016/j.apor.2019.101932.
[119]
van Veen WG, van Leeuwen JL, Muijres FT. Malaria mosquitoes use leg push‐off forces to control body pitch during take‐off. J Exp Zool A Ecol Integr Physiol. 2020;333(1):38–49. doi:10.1002/jez.2308.
2019
[120]
Kaiser AD, McQueen DM, Peskin CS. Modeling the mitral valve. Int J Numer Methods Biomed Eng. 2019;35(11):e3240. doi:10.1002/cnm.3240.
[121]
Feng L, Gao H, Griffith BE, Niederer SA, Luo XY. Analysis of a coupled fluid-structure interaction model of the left atrium and mitral valve. Int J Numer Methods Biomed Eng. 2019;35(11):e3254. doi:10.1002/cnm.3254.
[122]
Davis AL, Hoover AP, Miller LA. Lift and drag acting on the shell of the American horseshoe crab (Limulus polyphemus). Bull Math Biol. 2019;81(10):3803–3822. doi:10.1007/s11538-019-00657-2.
[123]
Cai L, Wang Y, Gao H, Ma XS, Zhu GY, Zhang RH, Shen X, Luo XY. Some effects of different constitutive laws on FSI simulation for the mitral valve. Sci Rep. 2019;9(1):12753. doi:10.1038/s41598-019-49161-6.
[124]
Nangia N, Griffith BE, Patankar NA, Bhalla APS. A robust incompressible Navier-Stokes solver for high density ratio multiphase flows. J Comput Phys. 2019;390:548–594. doi:10.1016/j.jcp.2019.03.042.
[125]
van Veen WG, van Leeuwen JL, Muijres FT. A chordwise offset of the wing-pitch axis enhances rotational aerodynamic forces on insect wings: A numerical study. J R Soc Interface. 2019;16(155):20190118. doi:10.1098/rsif.2019.0118.
[126]
Hoover AP, Porras AJ, Miller LA. Pump or coast: The role of resonance and passive energy recapture in medusan swimming performance. J Fluid Mech. 2019;863:1031–1061. doi:10.1017/jfm.2018.1007.
[127]
Dombrowski T, Jones SK, Bhalla APS, Katsikis G, Griffith BE, Klotsa D. Transition in swimming direction in a model self-propelled inertial swimmer. Phys Rev Fluids. 2019;4(2):021101(R). doi:10.1103/PhysRevFluids.4.021101.
[128]
Battista NA, Douglas DR, Lane AN, Samsa LA, Liu J, Miller LA. Vortex dynamics in trabeculated embryonic ventricles. J Cardiovasc Dev Dis. 2019;6(1):6. doi:10.3390/jcdd6010006.
[129]
Samson JE, Miller LA, Roy D, Holzman R, Shavit U, Khatri S. A novel mechanism of mixing by pulsing corals. J Exp Biol. 2019;222:jeb.192518. doi:10.1242/jeb.192518.
[130]
Sun W, Mao W, Griffith BE. Computer modeling and simulation of heart valve function and intervention. In: Kheradvar A, ed. Principles of heart valve engineering. Cambridge, MA, USA; Academic Press; 2019. p. 177–211. doi:10.1016/B978-0-12-814661-3.00007-1.
2018
[131]
Patel NK, Bhalla APS, Patankar NA. A new constraint-based formulation for hydrodynamically resolved computational neuromechanics of swimming animals. J Comput Phys. 2018;375:684–716. doi:10.1016/j.jcp.2018.08.035.
[132]
Battista NA, Lane AN, Liu J, Miller LA. Fluid dynamics in heart development: Effects of hematocrit and trabeculation. Math Med Biol. 2018;35(4):493–516. doi:10.1093/imammb/dqx018.
[133]
Waldrop LD, He Y, Khatri S. What can computational modeling tell us about the diversity of odor-capture structures in the pancrustacea? J Chem Ecol. 2018;44(12):1084–1100. doi:10.1007/s10886-018-1017-2.
[134]
Zhang D, Pan G, Chao L, Yan G. Mechanisms influencing the efficiency of aquatic locomotion. Mod Phys Lett B. 2018;32(25):1850299. doi:10.1142/S0217984918502998.
[135]
Feng LY, Qi N, Gao H, Sun W, Vazquez M, Griffith BE, Luo XY. On the chordae structure and dynamic behaviour of the mitral valve. IMA J Appl Math. 2018;83(6):1066–1091. doi:10.1093/imamat/hxy035.
[136]
Hamlet CL, Hoffman KA, Tytell ED, Fauci LJ. The role of curvature feedback in the energetics and dynamics of lamprey swimming: A closed-loop model. PLoS Comput Biol. 2018;14(8):e1006324. doi:10.1371/journal.pcbi.1006324.
[137]
Kou W, Pandolfino JE, Kahrilas PJ, Patankar NA. Studies of abnormalities of the lower esophageal sphincter during esophageal emptying based on a fully-coupled bolus-esophageal-gastric model. Biomech Model Mechanobiol. 2018;17(4):1069–1082. doi:10.1007/s10237-018-1014-y.
[138]
Hoover AP, Tytell ED, Cortez R, Fauci LJ. Swimming performance, resonance, and shape evolution in heaving flexible panels. J Fluid Mech. 2018;847:386–416. doi:10.1017/jfm.2018.305.
[139]
Zhang D, Pan G, Chao L, Zhang Y. Effects of Reynolds number and thickness on an undulatory self-propelled foil. Phys Fluids. 2018;30(7):071902. doi:10.1063/1.5034439.
[140]
Santhanakrishnan A, Jones SK, Dickson WB, Peek M, Kasoju VT, Dickinson MH, Miller LA. Flow structure and force generation on flapping wings at low Reynolds numbers relevant to the flight of tiny insects. Fluids. 2018;3(3):45. doi:10.3390/fluids3030045.
[141]
Zhang D, Chao L, Pan G. Ground effect on a self-propelled undulatory foil. Mod Phys Lett B. 2018;32(11):1850135. doi:10.1142/S021798491850135X.
[142]
Battista NA, Samson JE, Khatri S, Miller LA. Under the sea: Pulsing corals in ambient flow. In: Anguelov R, Lachowicz M, eds. Mathematical Methods and Models in Biosciences. 2018. p. 22–34. doi:10.11145/texts.2017.11.197.
[143]
Strychalski W, Bryant S, Jadamba B, Kilkian E, Lai X, Shahriyari L, Segal R, Wei N, Miller LA. Fluid dynamics of nematocyst prey capture. In: Radunskaya A, Segal R, Shtylla B, eds. Understanding Complex Biological Systems with Mathematics. Cham; Springer; 2018. doi:10.1007/978-3-319-98083-6_6.
2017
[144]
Sprinkle B, Balboa Usabiaga F, Patankar NA, Donev A. Large scale Brownian dynamics of confined suspensions of rigid particles. J Chem Phys. 2017;147(24):244103. doi:10.1063/1.5003833.
[145]
Samson JE, Battista NA, Khatri S, Miller LA. Pulsing corals: A story of scale and mixing. Biomath. 2017;6(2):1712169. doi:10.11145/j.biomath.2017.12.169.
[146]
Griffith BE, Luo XY. Hybrid finite difference/finite element immersed boundary method. Int J Numer Methods Biomed Eng. 2017;33(12):e2888. doi:10.1002/cnm.2888.
[147]
Strickland C, Miller LA, Santhanakrishnan A, Hamlet C, Battista NA, Pasour V. Three-dimensional low reynolds number flows near biological filtering and protective layers. Fluids. 2017;2(4):62. doi:10.3390/fluids2040062.
[148]
Kou W, Griffith BE, Pandolfino JE, Kahrilas PJ, Patankar NA. A continuum mechanics-based musculo-mechanical model for esophageal transport. J Comput Phys. 2017;348:433–459. doi:10.1016/j.jcp.2017.07.025.
[149]
Gao H, Mangion K, Carrick D, Husmeier D, Luo XY, Berry C. Estimating prognosis in patients with acute myocardial infarction using personalized computational heart models. Sci Rep. 2017;7(1):13527. doi:10.1038/s41598-017-13635-2.
[150]
Nangia N, Johansen H, Patankar NA, Bhalla APS. A moving control volume approach to computing hydrodynamic forces and torques on immersed bodies. J Comput Phys. 2017;347:437–462. doi:10.1016/j.jcp.2017.06.047.
[151]
Gao H, Qi N, Feng LY, Ma SH, Danton M, Berry C, Luo XY. Modelling mitral valvular dynamics: Current trend and future directions. Int J Numer Methods Biomed Eng. 2017;33(10):e2858. doi:10.1002/cnm.2858.
[152]
Gao H, Feng L, Qi N, Berry C, Griffith BE, Luo XY. A coupled mitral valve-left ventricle model with fluid-structure interaction. Med Eng Phys. 2017;47(1):128–136. doi:10.1016/j.medengphy.2017.06.042.
[153]
Hasan A, Kolahdouz EM, Enquobahrie A, Caranasos TG, Vavalle JP, Griffith BE. Image-based immersed boundary model of the aortic root. Med Eng Phys. 2017;47(1):72–84. doi:10.1016/j.medengphy.2017.05.007.
[154]
Gao H, Aderhold A, Mangion K, Luo X, Husmeier D, Berry C. Changes and classification in myocardial contractile function in the left ventricle following acute myocardial infarction. J R Soc Interface. 2017;14(132):20170203. doi:10.1098/rsif.2017.0203.
[155]
Nangia N, Bale R, Chen N, Hanna Y, Patankar NA. Optimal specific wavelength for maximum thrust production in undulatory propulsion. PLoS One. 2017;12(6):e0179727. doi:10.1371/journal.pone.0179727.
[156]
Kou W, Pandolfino JE, Kahrilas PJ, Patankar NA. Could the peristaltic transition zone be caused by non-uniform esophageal muscle fiber architecture? A simulation study. Neurogastroenterol Motil. 2017;29(6):e13022. doi:10.1111/nmo.13022.
[157]
Kou W, Pandolfino JE, Kahrilas PJ, Patankar NA. Simulation studies of the role of esophageal mucosa in bolus transport. Biomech Model Mechanobiol. 2017;16(3):1001–1009. doi:10.1007/s10237-016-0867-1.
[158]
Van Hirtum A, Wu B, Gao H, Luo XY. Constricted channel flow with different cross-section shapes. Eur J Mech B Fluids. 2017;63:1–8. doi:10.1016/j.euromechflu.2016.12.009.
[159]
Cai L, Wang Y, Gao H, Li Y, Luo X. A mathematical model for active contraction in healthy and failing myocytes and left ventricles. PLoS One. 2017;12(4):e0174834. doi:10.1371/journal.pone.0174834.
[160]
Sprinkle B, Bale R, Bhalla APS, MacIver MA, Patankar NA. Hydrodynamic optimality of balistiform and gymnotiform locomotion. Eur J Comput Mech. 2017;26(1–2):31–43. doi:10.1080/17797179.2017.1305160.
[161]
Hoover AP, Griffith BE, Miller LA. Quantifying performance in the medusan mechanospace with an actively swimming three-dimensional jellyfish model. J Fluid Mech. 2017;813:1112–1155. doi:10.1017/jfm.2017.3.
[162]
Battista NA, Lane AN, Miller LA. On the dynamic suction pumping of blood cells in tubular hearts. In: Layton A, Miller L, eds. Women in Mathematical Biology. Cham; Springer; 2017. p. 211–231. doi:10.1007/978-3-319-60304-9_11.
[163]
Sheldon KS, Zhao L, Chuang A, Panayotova IN, Miller LA, Bourouiba L. Revisiting the physics of spider ballooning. In: Layton A, Miller L, eds. Women in Mathematical Biology. Cham; Springer; 2017. p. 163–178. doi:10.1007/978-3-319-60304-9_9.
[164]
Zhao L, Panayotova IN, Chuang A, Sheldon KS, Bourouiba L, Miller LA. Flying spiders: Simulating and modeling the dynamics of ballooning. In: Layton A, Miller L, eds. Women in Mathematical Biology. Cham; Springer; 2017. p. 179–201. doi:10.1007/978-3-319-60304-9_10.
2016
[165]
Jones SK, Yun YJ, Hedrick TL, Griffith BE, Miller LA. Bristles reduce the force required to “fling” wings apart in the smallest insects. J Exp Biol. 2016;219(23):3759–3772. doi:10.1242/jeb.143362.
[166]
Giraudet C, Bataller H, Sun Y, Donev A, de Zárate JMO, Croccolo F. Confinement effect on the dynamics of non-equilibrium concentration fluctuations far from the onset of convection. Eur Phys J E. 2016;39(12):120. doi:10.1140/epje/i2016-16120-8.
[167]
Tytell ED, Leftwich MC, Hsu C-Y, Griffith BE, Cohen AH, Smits AJ, Hamlet C, Fauci LJ. The role of body stiffness in undulatory swimming: Insights from robotic and computational models. Phys Rev Fluids. 2016;1(7):073202. doi:10.1103/PhysRevFluids.1.073202.
[168]
Chen WW, Gao H, Luo XY, Hill NA. Study of cardiovascular function using a coupled left ventricle and systemic circulation model. J Biomech. 2016;49(12):2445–2454. doi:10.1016/j.jbiomech.2016.03.009.
[169]
Waldrop L, Miller L. Large-amplitude, short-wave peristalsis and its implications for transport. Biomech Model Mechanobiol. 2016;15(3):629–642. doi:10.1007/s10237-015-0713-x.
[170]
Flamini V, DeAnda A, Griffith BE. Immersed boundary-finite element model of fluid-structure interaction in the aortic root. Theor Comput Fluid Dyn. 2016;30(1-2):139–164. doi:10.1007/s00162-015-0374-5.
[171]
Kallemov B, Bhalla APS, Griffith BE, Donev A. An immersed boundary method for rigid bodies. Commun Appl Math Comput Sci. 2016;11(1):79–141. doi:10.2140/camcos.2016.11.79.
[172]
Balboa Usabiaga F, Kallemov B, Delmotte B, Bhalla APS, Griffith BE, Donev A. Hydrodynamics of suspensions of passive and active rigid particles: A rigid multiblob approach. Commun Appl Math Comput Sci. 2016;11(2):217–296. doi:10.2140/camcos.2016.11.217.
2015
[173]
Land S, Gurev V, Arens S, Augustin CM, Baron L, Blake R, Bradley C, Castro S, Crozier A, Favino M, Fastl TE, Fritz T, Gao H, Gizzi A, Griffith BE, Hurtado DE, Krause R, Luo XY, Nash MP, Pezzuto S, Plank G, Rossi S, Ruprecht D, Seemann G, Smith NP, Sundnes J, Rice JJ, Trayanova N, Wang D, Wang ZJ, Niederer SA. Verification of cardiac mechanics software: Benchmark problems and solutions for testing active and passive material behaviour. Proc R Soc A. 2015;471(2184):20150641. doi:10.1098/rspa.2015.0641.
[174]
Hamlet C, Fauci LJ, Tytell ED. The effect of intrinsic muscular nonlinearities on the energetics of locomotion in a computational model of an anguilliform swimmer. J Theor Biol. 2015;385:119–129. doi:10.1016/j.jtbi.2015.08.023.
[175]
Jones SK, Laurenza R, Hedrick TL, Griffith BE, Miller LA. Lift vs. Drag based mechanisms for vertical force production in the smallest flying insects. J Theor Biol. 2015;384:105–120. doi:10.1016/j.jtbi.2015.07.035.
[176]
Kou W, Bhalla APS, Griffith BE, Pandolfino JE, Kahrilas PJ, Patankar NA. A fully resolved active musculo-mechanical model for esophageal transport. J Comput Phys. 2015;298:446–465. doi:10.1016/j.jcp.2015.05.049.
[177]
Kheradvar A, Groves EM, Falahatpisheh A, Mofrad MRK, Alavi SH, Tranquillo R, Dasi LP, Simmons CA, Grande-Allen KJ, Goergen CJ, Baaijens F, Little SH, Canic S, Griffith B. Emerging trends in heart valve engineering: Part IV. Computational modeling and experimental studies. Ann Biomed Eng. 2015;43(10):2314–2333. doi:10.1007/s10439-015-1394-4.
[178]
Cerbino R, Sun Y, Donev A, Vailati A. Dynamic scaling for the growth of non-equilibrium fluctuations during thermophoretic diffusion in microgravity. Sci Rep. 2015;5(1):14486. doi:10.1038/srep14486.
[179]
Giraudet C, Bataller H, Sun Y, Donev A, de Zárate JMO, Croccolo F. Slowing-down of non-equilibrium concentration fluctuations in confinement. Europhys Lett. 2015;111(6):60013. doi:10.1209/0295-5075/111/60013.
[180]
Kou W, Pandolfino JE, Kahrilas PJ, Patankar NA. Simulation studies of circular muscle contraction, longitudinal muscle shortening, and their coordination in esophageal transport. Am J Physiol Gastrointest Liver Physiol. 2015;309(4):G238–G247. doi:10.1152/ajpgi.00058.2015.
[181]
Hoover A, Miller L. A numerical study of the benefits of driving jellyfish bells at their natural frequency. J Theor Biol. 2015;374:13–25. doi:10.1016/j.jtbi.2015.03.016.
[182]
Bale R, Neveln ID, Bhalla APS, MacIver MA, Patankar NA. Convergent evolution of mechanically optimal locomotion in aquatic invertebrates and vertebrates. PLoS Biol. 2015;13(4):e1002123. doi:10.1371/journal.pbio.1002123.
[183]
Gao H, Qi N, Ma XS, Griffith BE, Berry C, Luo XY. Fluid-structure interaction model of human mitral valve within left ventricle. In: van Assen H, Bovendeerd P, Delhaas T, eds. Functional Imaging and Modeling of the Heart. Cham; Springer; 2015. p. 330–337. doi:10.1007/978-3-319-20309-6_38.
[184]
Gao H, Berry C, Luo X. Image-derived human left ventricular modelling with fluid-structure interaction. In: van Assen H, Bovendeerd P, Delhaas T, eds. Functional Imaging and Modeling of the Heart. Cham; Springer; 2015. p. 321–329. doi:10.1007/978-3-319-20309-6_37.
2014
[185]
Delong S, Sun Y, Griffith BE, Vanden-Eijnden E, Donev A. Multiscale temporal integrators for fluctuating hydrodynamics. Phys Rev E. 2014;90(6):063312. doi:10.1103/PhysRevE.90.063312.
[186]
Bale R, Shirgaonkar AA, Neveln ID, Bhalla APS, MacIver MA, Patankar NA. Separability of drag and thrust in undulatory animals and machines. Sci Rep. 2014;4(1):7329. doi:10.1038/srep07329.
[187]
Gao H, Ma XS, Qi N, Berry C, Griffith BE, Luo XY. A finite strain nonlinear human mitral valve model with fluid-structure interaction. Int J Numer Methods Biomed Eng. 2014;30(12):1597–1613. doi:10.1002/cnm.2691.
[188]
Gao H, Wang HM, Berry C, Luo XY, Griffith BE. Quasi-static image-based immersed boundary-finite element model of left ventricle under diastolic loading. Int J Numer Methods Biomed Eng. 2014;30(11):1199–1222. doi:10.1002/cnm.2652.
[189]
Gao H, Carrick D, Berry C, Griffith BE, Luo XY. Dynamic finite-strain modelling of the human left ventricle in health and disease using an immersed boundary-finite element method. IMA J Appl Math. 2014;79(5):978–1010. doi:10.1093/imamat/hxu029.
[190]
Bale R, Hao M, Bhalla APS, Patel N, Patankar NA. Gray’s paradox: A fluid mechanical perspective. Sci Rep. 2014;4(1):5904. doi:10.1038/srep05904.
[191]
Nguyen H, Fauci L. Hydrodynamics of diatom chains and semiflexible fibres. J R Soc Interface. 2014;11(96):20140314. doi:10.1098/rsif.2014.0314.
[192]
Bale R, Hao M, Bhalla APS, Patankar NA. Energy efficiency and allometry of movement of swimming and flying animals. Proc Natl Acad Sci U S A. 2014;111(21):7517–7521. doi:10.1073/pnas.1310544111.
[193]
Delong S, Balboa Usabiaga F, Delgado-Buscalioni R, Griffith BE, Donev A. Brownian dynamics without Green’s functions. J Chem Phys. 2014;140(13):134110. doi:10.1063/1.4869866.
[194]
Tytell ED, Hsu C-Y, Fauci LJ. The role of mechanical resonance in the neural control of swimming in fishes. Zoology. 2014;117(1):48–56. doi:10.1016/j.zool.2013.10.011.
[195]
Bhalla APS, Bale R, Griffith BE, Patankar NA. Fully resolved immersed electrohydrodynamics for particle motion, electrolocation, and self-propulsion. J Comput Phys. 2014;256:88–108. doi:10.1016/j.jcp.2013.08.043.
[196]
Neveln ID, Bale R, Bhalla APS, Curet OM, Patankar NA, MacIver MA. Undulating fins produce off-axis thrust and flow structures. J Exp Biol. 2014;217(2):201–213. doi:10.1242/jeb.091520.
[197]
Skorczewski T, Griffith BE, Fogelson AL. Multi-bond models for platelet adhesion and cohesion. In: Olson SD, Layton AT, eds. Biological Fluid Dynamics: Modeling, Computation, and Applications. Providence, RI, USA; American Mathematical Society; 2014. p. 149–172. doi:10.1090/conm/628/12547.
2013
[198]
Bhalla APS, Griffith BE, Patankar NA, Donev A. A minimally-resolved immersed boundary model for reaction-diffusion problems. J Chem Phys. 2013;139(21):214112. doi:10.1063/1.4834638.
[199]
Griffith BE, Flamini V, DeAnda A, Scotten L. Simulating the dynamics of an aortic valve prosthesis in a pulse duplicator: Numerical methods and initial experience. J Med Devices. 2013;7(4):040912. doi:10.1115/1.4025768.
[200]
Alben S, Miller LA, Peng J. Efficient kinematics for jet-propelled swimming. J Fluid Mech. 2013;733:100–133. doi:10.1017/jfm.2013.434.
[201]
Bhalla APS, Bale R, Griffith BE, Patankar NA. A unified mathematical framework and an adaptive numerical method for fluid-structure interaction with rigid, deforming, and elastic bodies. J Comput Phys. 2013;250:446–476. doi:10.1016/j.jcp.2013.04.033.
[202]
Bhalla APS, Griffith BE, Patankar NA. A forced damped oscillation framework for undulatory swimming provides new insights into how propulsion arises in active and passive swimming. PLoS Comput Biol. 2013;9(6):e1003097. doi:10.1371/journal.pcbi.1003097.
[203]
Delong S, Griffith BE, Vanden-Eijnden E, Donev A. Temporal integrators for fluctuating hydrodynamics. Phys Rev E. 2013;87(3):033302. doi:10.1103/PhysRevE.87.033302.
[204]
Ma XS, Gao H, Griffith BE, Berry C, Luo XY. Image-based fluid-structure interaction model of the human mitral valve. Comput Fluids. 2013;71:417–425. doi:10.1016/j.compfluid.2012.10.025.
[205]
Gao H, Griffith BE, Carrick D, McComb C, Berry C, Luo X. Initial experience with a dynamic imaging-derived immersed boundary model of human left ventricle. In: Ourselin S, Rueckert D, Smith N, eds. Functional Imaging and Modeling of the Heart. Berlin, Heidelberg; Springer; 2013. p. 11–18. doi:10.1007/978-3-642-38899-6_2.
2012
[206]
Luo XY, Griffith BE, Ma XS, Yin M, Wang TJ, Liang CL, Watton PN, Bernacca GM. Effect of bending rigidity in a dynamic model of a polyurethane prosthetic mitral valve. Biomech Model Mechanobiol. 2012;11(6):815–827. doi:10.1007/s10237-011-0354-7.
[207]
Griffith BE. Immersed boundary model of aortic heart valve dynamics with physiological driving and loading conditions. Int J Numer Methods Biomed Eng. 2012;28(3):317–345. doi:10.1002/cnm.1445.
[208]
Balboa Usabiaga F, Bell JB, Delgado-Buscalioni R, Donev A, Fai T, Griffith BE, Peskin CS. Staggered schemes for fluctuating hydrodynamics. Multiscale Model Simul. 2012;10(4):1369–1408. doi:10.1137/120864520.
[209]
Griffith BE. On the volume conservation of the immersed boundary method. Commun Comput Phys. 2012;12(2):401–432. doi:10.4208/cicp.120111.300911s.
[210]
Griffith BE, Lim S. Simulating an elastic ring with bend and twist by an adaptive generalized immersed boundary method. Commun Comput Phys. 2012;12(2):433–461. doi:10.4208/cicp.190211.060811s.
2011
[211]
Vo GD, Heys J. Biofilm deformation in response to fluid flow in capillaries. Biotechnol Bioeng. 2011;108(8):1893–1899. doi:10.1002/bit.23139.
[212]
Nguyen H, Karp-Boss L, Jumars PA, Fauci L. Hydrodynamic effects of spines: A different spin. Limnol Oceanogr Fluid Environ. 2011;1(1):110–119. doi:10.1215/21573698-1303444.
2010
[213]
Tytell ED, Hsu C-Y, Williams TL, Cohen AH, Fauci LJ. Interactions between internal forces, body stiffness, and fluid environment in a neuromechanical model of lamprey swimming. Proc Natl Acad Sci U S A. 2010;107(46):19832–19837. doi:10.1073/pnas.1011564107.
2009
[214]
Griffith BE, Hornung RD, McQueen DM, Peskin CS. Parallel and adaptive simulation of cardiac fluid dynamics. In: Parashar M, Li X, eds. Advanced computational infrastructures for parallel and distributed adaptive applications. Hoboken, NJ, USA; John Wiley; Sons; 2009. p. 105–130. doi:10.1002/9780470558027.ch7.
[215]
Griffith BE. An accurate and efficient method for the incompressible Navier-Stokes equations using the projection method as a preconditioner. J Comput Phys. 2009;228(20):7565–7595. doi:10.1016/j.jcp.2009.07.001.
[216]
Griffith BE, Luo XY, McQueen DM, Peskin CS. Simulating the fluid dynamics of natural and prosthetic heart valves using the immersed boundary method. Int J Appl Mech. 2009;1(1):137–177. doi:10.1142/S1758825109000113.
2007
[217]
Griffith BE, Hornung RD, McQueen DM, Peskin CS. An adaptive, formally second order accurate version of the immersed boundary method. J Comput Phys. 2007;223(1):10–49. doi:10.1016/j.jcp.2006.08.019.
2005
[218]
Griffith BE, Peskin CS. On the order of accuracy of the immersed boundary method: Higher order convergence rates for sufficiently smooth problems. J Comput Phys. 2005;208(1):75–105. doi:10.1016/j.jcp.2005.02.011.
This page tracks 47 theses and dissertations that use IBAMR.
See also the IBAMR Google Scholar page.
Doctoral Dissertations
2026
[1]
Facci M. A robust immersed interface method for viscous incompressible fluids and discrete surfaces [PhD thesis]. University of North Carolina at Chapel Hill; 2026.
[2]
Fernandez DM. Fluid dynamics of valveless pumping in tubular hearts [PhD thesis]. University of Arizona; 2026.
2025
[3]
Abdala L. Electro-fluid-mechanical computational models of the human heart [PhD thesis]. University of North Carolina at Chapel Hill; 2025.
[4]
Hang H. Underwater navigation strategies and emergent collective behavior in bioinspired swimmers [PhD thesis]. University of Southern California; 2025.
2024
[5]
Davey M. Construction of a four-chambered, fluid-structure interaction model of the heart with validation studies of physiologic left heart performance [PhD thesis]. University of North Carolina at Chapel Hill; 2024.
[6]
Giesbrecht K. Elucidating mechanosensitive pathways in cardiogenesis through combined experimental and numerical approaches [PhD thesis]. University of North Carolina at Chapel Hill; 2024.
[7]
Khedkar KM. Advances in the level set method for multiphase fluid-structure interaction with ocean engineering applications [PhD thesis]. University of California San Diego; San Diego State University; 2024.
[8]
Thirumalaisamy R. Advances in volume penalization methods for simulating multiphase fluid-structure interaction and phase-change phenomena [PhD thesis]. University of California San Diego; San Diego State University; 2024.
2023
[9]
Brown JA. Modeling transcatheter aortic valve replacement in patient-specific anatomies: Fluid-structure interaction models using the immersed finite element-difference method [PhD thesis]. University of North Carolina at Chapel Hill; 2023.
[10]
Halder S. Mechanics-informed diagnosis and treatment planning: Application to esophageal disorders [PhD thesis]. Northwestern University; 2023.
[11]
Heydari S. Mechanical and flow interactions facilitate cooperative transport and collective locomotion in animal groups [PhD thesis]. University of Southern California; 2023.
[12]
Jiao Y. Evaluating sensing and control in underwater animal behaviors [PhD thesis]. University of Southern California; 2023.
[13]
Kim KH. Immersed peridynamics method [PhD thesis]. University of North Carolina at Chapel Hill; 2023.
[14]
Nagda BM. Modeling and simulation of ion-induced volume phase transitions in chemically-active polyelectrolyte gels [PhD thesis]. Florida Institute of Technology; 2023.
2022
[15]
Ruvalcaba CA. Numerical model of cilia-driven transport of inhaled particles in the periciliary layer of the human tracheobronchial tree [PhD thesis]. University of California, Davis; 2022.
2021
[16]
Acharya S. Investigating Gastroesophageal Motility: Mechanical Work Done During Esophageal Contractility and Fully Resolved Multiphysics Modeling of Gastric Peristalsis [PhD thesis]. Northwestern University; 2021.
[17]
Dombrowski TJ. From Single to Collective: Model Swimmers at Intermediate Reynolds Numbers [PhD thesis]. University of North Carolina at Chapel Hill; 2021.
[18]
Hunt R. Part I: Diffusion-induced flows and particulate aggregation. Part II: Experiments and modeling of replacement aortic valves. Part III: Enhanced diffusion in wall-driven shear flows [PhD thesis]. University of North Carolina at Chapel Hill; 2021.
[19]
Santiago M. Numerical methods for modeling the fluid flow of pulsing soft corals and the photosynthesis of their symbiotic algae [PhD thesis]. University of California, Merced; 2021.
2020
[20]
Fang F. Numerical advances for fluid-structure interactions in entangled polymer solutions with applications to active microbead rheology [PhD thesis]. University of North Carolina at Chapel Hill; 2020.
[21]
Feng L. Fluid-structure interaction models of mitral valve and left atrium [PhD thesis]. University of Glasgow; 2020.
[22]
Lee JH. Simulating in vitro models of cardiovascular fluid-structure interaction: Methods, models, and applications [PhD thesis]. University of North Carolina at Chapel Hill; 2020.
[23]
Vadala-Roth B. Stabilization of the hybrid immersed boundary method [PhD thesis]. University of North Carolina at Chapel Hill; 2020.
2019
[24]
Barrett A. An adaptive viscoelastic fluid solver: Formulation, verification, and applications to fluid-structure interaction [PhD thesis]. University of North Carolina at Chapel Hill; 2019.
[25]
Nangia N. An adaptive constraint-based immersed body method for multiphase fluid-structure interaction [PhD thesis]. Northwestern University; 2019.
2018
[26]
Samson JE. The fluid dynamics of collective pulsing behavior in xeniid corals [PhD thesis]. University of North Carolina at Chapel Hill; 2018.
[27]
Sprinkle BW. Development and use of high performance numerical methods to study fluid structure interaction phenomena at two different scales [PhD thesis]. Northwestern University; 2018.
2017
[28]
Battista NA. The fluid dynamics of heart development: The effect of morphology on flow at several stages [PhD thesis]. University of North Carolina at Chapel Hill; 2017.
[29]
Kaiser AD. Modeling the mitral valve [PhD thesis]. Courant Institute of Mathematical Sciences, New York University; 2017.
[30]
Patel N. Computational investigation of the neuromechanical problem for swimming [PhD thesis]. Northwestern University; 2017.
2016
[31]
Allan A. Examination of myocardial electrophysiology using novel panoramic optical mapping techniques [PhD thesis]. University of Glasgow; 2016.
[32]
Jones SK. A computational fluid dynamics study of the smallest flying insects [PhD thesis]. University of North Carolina at Chapel Hill; 2016.
[33]
Kou W. Studies of esophageal transport and emptying based on fully-resolved computational models [PhD thesis]. Northwestern University; 2016.
[34]
Qi N. Modelling of soft tissue and fluid structure interaction with physiological applications [PhD thesis]. University of Glasgow; 2016.
2015
[35]
Chen WW. A coupled left ventricle and systemic arteries model [PhD thesis]. University of Glasgow; 2015.
[36]
Delong S. Temporal integrators for Langevin equations with applications to fluctuating hydrodynamics and brownian dynamics [PhD thesis]. Courant Institute of Mathematical Sciences, New York University; 2015.
[37]
Hoover A. From pacemaker to vortex ring: Modeling jellyfish propulsion and turning [PhD thesis]. University of North Carolina at Chapel Hill; 2015.
2014
[38]
Ma XS. Dynamic simulation of the mitral valve [PhD thesis]. University of Glasgow; 2014.
2013
[39]
Bale R. Hydrodynamics and energetics of undulatory propulsion [PhD thesis]. Northwestern University; 2013.
[40]
Bhalla APS. Constraint-based adaptive immersed body technique for multiphysics problems [PhD thesis]. Northwestern University; 2013.
2005
[41]
Griffith BE. Simulating the blood-muscle-valve mechanics of the heart by an adaptive and parallel version of the immersed boundary method [PhD thesis]. Courant Institute of Mathematical Sciences, New York University; 2005.
Master's Theses
2024
[42]
Chen S. Learning PDE solution operators via diffeomorphic mappings: Applications in fluid dynamics [Master’s thesis]. Johns Hopkins University; 2024.
Undergraduate Theses
2020
[43]
Jonathan W. Implementing the immersed boundary method to solve for fluid-structure interaction [Undergraduate thesis]. Nanyang Technological University; 2020.
2019
[44]
Braye M. Numerical and physical modeling of fluid flow through rigid structures [Undergraduate thesis]. University of North Carolina at Chapel Hill; 2019.
2018
[45]
DeLee E. Assessing the scalability of parallel programs: Case studies from IBAMR [Undergraduate thesis]. University of North Carolina at Chapel Hill; 2018.
2017
[46]
Hasan A. Patient specific hemodynamic modeling of the aortic root [Undergraduate thesis]. University of North Carolina at Chapel Hill; 2017.
2015
[47]
Lee J. A computational two-dimensional study of benthic suction feeding [Undergraduate thesis]. Cornell College; 2015.