Publications

2021
    • G. Kelly and T.G. Fai, Multiscale model of clogging in microfluidic devices with grid-like geometries. Submitted (arxiv). 
    • Y. Park, P. Singh, and T.G. Fai, Coarse-grained stochastic model of myosin-driven vesicles into dendritic spines. Submitted (arxiv). 
    • T. G. Fai and Y. Park, Global asymptotic stability of an active disassembly model of flagellar length control. Submitted (arxiv)
    • J.M. Taylor, T.G. Fai, E.G. Virga, X. Zheng, and P. Palffy-Muhoray, Cavity volume and free energy in many-body systems, J Nonlinear Sci, 31, 87, 2021 (linkarxiv).
    • S.J. Del Signore, C.F. Kelley, E.M. Messelaar, T. Lemos, M.F. Marchan, B. Ermanoska, M. Mund, T.G. Fai, M. Kaksonen, A.A. Rodal, An autoinhibitory clamp of actin assembly constrains and directs synaptic endocytosis, eLife, 10, e69597 (linkbioRxiv).
    • T. G. Fai, J. M. Taylor, E. G. Virga, X. Zheng, and P. Palffy-Muhoray, Leaky cell model of hard spheres. J. Chem. Phys., 154, 104505, 2021 (linkarxiv).
    2020
    • Y. Park and T.G. Fai, Dynamics of vesicles driven into closed constrictions by molecular motors. Bull. Math. Biol., 82, 141, 2020 (linkarxiv).
    2019
    • T.G. Fai, L. Mohapatra, P. Kar, J. Kondev, and A. Amir, Length regulation of multiple flagella that self-assemble from a shared pool of components. eLife, 8, e42599, 2019 (link). 
    • T. Ruiz-Herrero, T.G. Fai, and L. Mahadevan, Dynamics of growth and form in prebiotic vesicles. Phys. Rev. Lett., 123, 038102, 2019 (link, arxiv). 
    Featured in Nature Reviews Physics. (link, highlight

    2018
          • T.G. Fai and C. Rycroft, Lubricated Immersed Boundary Method in Two Dimensions, J. Comput. Phys., 356, 319-339, 2018 (link, arxiv). 
          Movies comparing the standard and lubricated immersed boundary methods: 

          Channel flow, standard IB method (colors represent pressure) 

          Channel flow, lubricated IB method

          Wall-induced migration, standard IB method (dotted line is 2 gridpoints from wall) 

          Wall-induced migration, lubricated IB method
          • S. Cannon, T.G. Fai, J. Iwerks, U. Leopold and C. Schmidt, Edge and point 2-transmitter art gallery problems, Comput. Geom., 68, 89-100, 2018 (link, arxiv). 
          2017
            • T.G. Fai, R. Kusters, J. Harting, C. Rycroft, and L. Mahadevan, Active elastohydrodynamics of vesicles in narrow, blind constrictions, Phys. Rev. Fluids, 2, 113601, 2017 (link, arxiv
            • T.G. Fai, A. Leo-Macias, D.L. Stokes and C.S. Peskin, An image-based model of the spectrin cytoskeleton for red blood cell simulation, PLOS Comput. Biol., 11(6), e1005790, 2017 (link). 
            Movie of cytoskeleton dynamics

            Image processing of tomogram

            Simulated extension by optical tweezers

            2015
                • C.-H. Wu, T.G. Fai, P.J. Atzberger, and C.S. Peskin, Simulation of osmotic swelling by the stochastic immersed boundary method, SIAM J. Sci. Comput., 37(4), B660-B688, 2015 (link, preprint). 
                2014
                      • S. Shekhar, L. Zhu, L. Mazutis, A.E. Sgro, T.G. Fai, M. Podolski, Quantitative biology: where modern biology meets physical sciences, Mol. Biol. Cell, 25(22), 3482-3485, 2014 (link). 
                      • A. Donev, A.J. Nonaka, Y. Sun, T.G. Fai, A.L. Garcia, and J.B. Bell, Low Mach number fluctuating hydrodynamics of diffusively mixing fluids. Comm. App. Math. and Comp. Sci., 9(1), 47-105, 2014 (link, arxiv). 
                      • T.G. Fai, B.E. Griffith, Y. Mori, and C.S. Peskin, Immersed Boundary Method for Variable Viscosity and Variable Density Problems using Fast Constant-Coefficient Linear Solvers II: Theory, SIAM J. Sci. Comput., 36:3, B589-B621, 2014 (link, preprint). 
                      Movies from internal gravity waves in a stratified fluid: 

                      Traveling wave packet, mass density perturbation (left) and energy density (right)

                      Cross-shaped density (left) and energy (right) resulting from localized disturbance at origin with a fixed frequency 

                      Traveling wave packet in the nonlinear regime with variable viscosity 
                      • A. Donev, T.G. Fai, E. Vanden-Eijnden, A reversible mesoscopic model of diffusion in liquids: From giant fluctuations to Fick’s law, J. Stat. Mech., P04004, 2014 (link, arxiv). 
                      2013
                            • T.G. Fai, B.E. Griffith, Y. Mori, and C.S. Peskin. Immersed Boundary Method for Variable Viscosity and Variable Density Problems using Fast Constant-Coefficient Linear Solvers I: Numerical Method and Results, SIAM J. Sci. Comput., 35:5, B1132-B1161, 2013 (link, preprint). 
                            Movies from red blood cell simulations: 

                            Flow through capillary, center of mass frame with fluid tracers

                            Tank treading, side view

                            Tank treading, top view

                            Tumbling, side view

                            Tumbling, top view

                            2012
                                  • F. Balboa Usabiaga, J.B. Bell, R. Delgado-Buscalioni, A. Donev, T.G. Fai, B.E. Griffith, and C.S. Peskin, Staggered schemes for fluctuating hydrodynamics, Multiscale Model. Sim., 10(4), 1369-1408, 2012 (link, arxiv).