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Volumn 229, Issue 19, 2010, Pages 7287-7308

The moving boundary node method: A level set-based, finite volume algorithm with applications to cell motility

Author keywords

Cell motility; Diffusion; Finite volume; Level set; Moving boundaries; Numeric method

Indexed keywords

BIOCHEMISTRY; BOUNDARY ELEMENT METHOD; CELL SIGNALING; CYTOLOGY; INTERPOLATION; NUMERICAL METHODS; SAILING VESSELS;

EID: 77955267573     PISSN: 00219991     EISSN: 10902716     Source Type: Journal    
DOI: 10.1016/j.jcp.2010.06.014     Document Type: Article
Times cited : (47)

References (60)
  • 2
    • 0002631224 scopus 로고    scopus 로고
    • A simple level set method for solving Stefan problems
    • Chen S., Merriman B., Osher S., Smereka P. A simple level set method for solving Stefan problems. J. Comput. Phys. 1997, 135:8-29.
    • (1997) J. Comput. Phys. , vol.135 , pp. 8-29
    • Chen, S.1    Merriman, B.2    Osher, S.3    Smereka, P.4
  • 3
    • 0000655661 scopus 로고
    • Crystal growth and dendritic solidification
    • Sethian J.A., Strain J.D. Crystal growth and dendritic solidification. J. Comput. Phys. 1992, 98:231-253.
    • (1992) J. Comput. Phys. , vol.98 , pp. 231-253
    • Sethian, J.A.1    Strain, J.D.2
  • 4
    • 10244220985 scopus 로고    scopus 로고
    • A fourth order accurate discretization for the Laplace and heat equations on arbitrary domains, with applications to the Stefan problem
    • Gibou F., Fedkiw R. A fourth order accurate discretization for the Laplace and heat equations on arbitrary domains, with applications to the Stefan problem. J. Comput. Phys. 2005, 202:577-601.
    • (2005) J. Comput. Phys. , vol.202 , pp. 577-601
    • Gibou, F.1    Fedkiw, R.2
  • 5
    • 4243457001 scopus 로고    scopus 로고
    • Quantitative phase-field modeling of dendritic growth in two and three dimensions
    • Karma A., Rappel W.-J. Quantitative phase-field modeling of dendritic growth in two and three dimensions. Phys. Rev. E 1997, 57:4323-4349.
    • (1997) Phys. Rev. E , vol.57 , pp. 4323-4349
    • Karma, A.1    Rappel, W.-J.2
  • 6
    • 0030045346 scopus 로고    scopus 로고
    • Cell migration: a physically integrated molecular process
    • Lauffenburger D.A., Horwitz A.F. Cell migration: a physically integrated molecular process. Cell 1996, 84:359-369.
    • (1996) Cell , vol.84 , pp. 359-369
    • Lauffenburger, D.A.1    Horwitz, A.F.2
  • 7
    • 0030049170 scopus 로고    scopus 로고
    • Actin-based cell motility and cell locomotion
    • Mitchison T.J., Cramer L.P. Actin-based cell motility and cell locomotion. Cell 1996, 84:371-379.
    • (1996) Cell , vol.84 , pp. 371-379
    • Mitchison, T.J.1    Cramer, L.P.2
  • 8
    • 0035854732 scopus 로고    scopus 로고
    • Nck and phosphatidylinositol 4,5-biphosphate synergistically activate actin polymerization through the N-WASP-Arp2/3 pathway
    • Rohatgi R., Nollau P., Ho H.-Y.H., Kirschner M.W., Mayer B.J. Nck and phosphatidylinositol 4,5-biphosphate synergistically activate actin polymerization through the N-WASP-Arp2/3 pathway. J. Biol. Chem. 2001, 276:26448-26452.
    • (2001) J. Biol. Chem. , vol.276 , pp. 26448-26452
    • Rohatgi, R.1    Nollau, P.2    Ho, H.-Y.H.3    Kirschner, M.W.4    Mayer, B.J.5
  • 9
    • 0038313144 scopus 로고    scopus 로고
    • ATP hydrolysis on actin-related protein 2/3 complex causes debranching of dendritic actin arrays
    • Le Clainche C., Pantaloni D., Carlier M.-F. ATP hydrolysis on actin-related protein 2/3 complex causes debranching of dendritic actin arrays. Proc. Nat. Acad. Sci. USA 2003, 100:6337-6342.
    • (2003) Proc. Nat. Acad. Sci. USA , vol.100 , pp. 6337-6342
    • Le Clainche, C.1    Pantaloni, D.2    Carlier, M.-F.3
  • 10
    • 0037339268 scopus 로고    scopus 로고
    • Force generation by actin polymerization II: the elastic ratchet and tethered filaments
    • Mogilner A., Oster G. Force generation by actin polymerization II: the elastic ratchet and tethered filaments. Biophys. J. 2003, 84:1591-1605.
    • (2003) Biophys. J. , vol.84 , pp. 1591-1605
    • Mogilner, A.1    Oster, G.2
  • 12
    • 33847354235 scopus 로고    scopus 로고
    • Regulation of protrusion, adhesion dynamics, and polarity by myosins IIA and IIB in migrating cells
    • Vicente-Manzanares M., Zareno J., Whitmore L., Choi C.K., Horwitz A.F. Regulation of protrusion, adhesion dynamics, and polarity by myosins IIA and IIB in migrating cells. J. Cell Biol. 2007, 176:573-580.
    • (2007) J. Cell Biol. , vol.176 , pp. 573-580
    • Vicente-Manzanares, M.1    Zareno, J.2    Whitmore, L.3    Choi, C.K.4    Horwitz, A.F.5
  • 13
    • 0015932793 scopus 로고
    • Muscular contraction and cell motility
    • Huxley H.E. Muscular contraction and cell motility. Nature 1973, 243:445-449.
    • (1973) Nature , vol.243 , pp. 445-449
    • Huxley, H.E.1
  • 14
    • 0345306742 scopus 로고    scopus 로고
    • Retraction in amoeboid cell motility powered by cytoskeletal dynamics
    • Miao L., Vanderlinde O., Stewert M., Roberts T.M. Retraction in amoeboid cell motility powered by cytoskeletal dynamics. Science 2003, 302:1405-1407.
    • (2003) Science , vol.302 , pp. 1405-1407
    • Miao, L.1    Vanderlinde, O.2    Stewert, M.3    Roberts, T.M.4
  • 15
    • 43849109486 scopus 로고    scopus 로고
    • Depolymerization-driven flow in nematode spermatozoa relates crawling speed to size and shape
    • Zajac M., Dacanay B., Mohler W.A., Wolgemuth C.W. Depolymerization-driven flow in nematode spermatozoa relates crawling speed to size and shape. Biophys. J. 2008, 94:3810-3823.
    • (2008) Biophys. J. , vol.94 , pp. 3810-3823
    • Zajac, M.1    Dacanay, B.2    Mohler, W.A.3    Wolgemuth, C.W.4
  • 16
    • 0036708436 scopus 로고    scopus 로고
    • Regulation of actin dynamics in rapidly moving cells: a quantitative analysis
    • Mogilner A., Edelstein-Keshet L. Regulation of actin dynamics in rapidly moving cells: a quantitative analysis. Biophys. J. 2002, 83:1237-1258.
    • (2002) Biophys. J. , vol.83 , pp. 1237-1258
    • Mogilner, A.1    Edelstein-Keshet, L.2
  • 17
    • 33846781374 scopus 로고    scopus 로고
    • Phosphoinositides and Rho proteins spatially regulate actin polymerization to initiate and maintain directed movement in a one-dimensional model of a motile cell
    • Dawes A.T., Edelstein-Keshet L. Phosphoinositides and Rho proteins spatially regulate actin polymerization to initiate and maintain directed movement in a one-dimensional model of a motile cell. Biophys. J. 2007, 92:744-768.
    • (2007) Biophys. J. , vol.92 , pp. 744-768
    • Dawes, A.T.1    Edelstein-Keshet, L.2
  • 18
    • 0038681878 scopus 로고    scopus 로고
    • Motion of an adhesive gel in a swelling gradient: a mechanism for cell locomotion
    • Joanny J.-F., Julicher F., Prost J. Motion of an adhesive gel in a swelling gradient: a mechanism for cell locomotion. Phys. Rev. Lett. 2003, 90:168102.
    • (2003) Phys. Rev. Lett. , vol.90 , pp. 168102
    • Joanny, J.-F.1    Julicher, F.2    Prost, J.3
  • 19
    • 85190074202 scopus 로고    scopus 로고
    • Simulation Methods for Spatiotemporal Models of Biochemical Signaling Networks, Ph.D. Thesis, University of North Carolina, Chapel Hill
    • W. Strychalski, Simulation Methods for Spatiotemporal Models of Biochemical Signaling Networks, Ph.D. Thesis, University of North Carolina, Chapel Hill, 2009.
    • (2009)
    • Strychalski, W.1
  • 21
    • 0038636530 scopus 로고    scopus 로고
    • The mechanics of neutrophils: synthetic modeling of three experiments
    • Herant M., Marganski W.A., Dembo M. The mechanics of neutrophils: synthetic modeling of three experiments. Biophys. J. 2003, 84:3389-3413.
    • (2003) Biophys. J. , vol.84 , pp. 3389-3413
    • Herant, M.1    Marganski, W.A.2    Dembo, M.3
  • 22
    • 21844458415 scopus 로고    scopus 로고
    • Multiscale two-dimensional modeling of a motile simple-shaped cell
    • Rubinstein B., Jacobson K., Mogilner A. Multiscale two-dimensional modeling of a motile simple-shaped cell. Multiscale Model. Simul. 2005, 3:413-439.
    • (2005) Multiscale Model. Simul. , vol.3 , pp. 413-439
    • Rubinstein, B.1    Jacobson, K.2    Mogilner, A.3
  • 24
    • 33751544551 scopus 로고    scopus 로고
    • The immersed boundary method
    • Peskin C.S. The immersed boundary method. Acta Numerica 2002, 11:479-517.
    • (2002) Acta Numerica , vol.11 , pp. 479-517
    • Peskin, C.S.1
  • 25
    • 44749084234 scopus 로고
    • Fronts propagating with curvature dependent speed: algorithms based on Hamilton-Jacobi formulations
    • Osher S., Sethian J. Fronts propagating with curvature dependent speed: algorithms based on Hamilton-Jacobi formulations. J. Comput. Phys. 1988, 79:12-49.
    • (1988) J. Comput. Phys. , vol.79 , pp. 12-49
    • Osher, S.1    Sethian, J.2
  • 26
    • 0030789778 scopus 로고    scopus 로고
    • Tracking interfaces with level sets
    • Sethian J.A. Tracking interfaces with level sets. Am. Sci. 1997, 85.
    • (1997) Am. Sci. , vol.85
    • Sethian, J.A.1
  • 29
    • 0002108952 scopus 로고    scopus 로고
    • The fast construction of extension velocities in level set methods
    • Adalsteinsson D., Sethian J.A. The fast construction of extension velocities in level set methods. J. Comput. Phys. 1999, 148:2-22.
    • (1999) J. Comput. Phys. , vol.148 , pp. 2-22
    • Adalsteinsson, D.1    Sethian, J.A.2
  • 30
    • 0346837922 scopus 로고    scopus 로고
    • A non-oscillatory Eulerian approach to interfaces in multimaterial flows (the ghost fluid method)
    • Fedkiw R.P., Aslam T., Merriman B., Osher S. A non-oscillatory Eulerian approach to interfaces in multimaterial flows (the ghost fluid method). J. Comput. Phys. 1999, 152:457-492.
    • (1999) J. Comput. Phys. , vol.152 , pp. 457-492
    • Fedkiw, R.P.1    Aslam, T.2    Merriman, B.3    Osher, S.4
  • 31
    • 10844239997 scopus 로고    scopus 로고
    • Evolving interfaces via gradients of geometry-dependent interior Poisson problems: application to tumor growth
    • Macklin P., Lowengrub J. Evolving interfaces via gradients of geometry-dependent interior Poisson problems: application to tumor growth. J. Comput. Phys. 2005, 203:191-220.
    • (2005) J. Comput. Phys. , vol.203 , pp. 191-220
    • Macklin, P.1    Lowengrub, J.2
  • 33
    • 0000942444 scopus 로고    scopus 로고
    • The integrated space-time finite volume method and its application to moving boundary problems
    • Zwart P.J., Raithby G.D., Raw ad M.J. The integrated space-time finite volume method and its application to moving boundary problems. J. Comput. Phys. 1999, 154:497-519.
    • (1999) J. Comput. Phys. , vol.154 , pp. 497-519
    • Zwart, P.J.1    Raithby, G.D.2    Raw, A.M.J.3
  • 36
    • 34548697081 scopus 로고    scopus 로고
    • Diffusion on a curved surface coupled to diffusion in the volume: application to cell biology
    • Novak I.L., Gao F., Choi Y., Resasco D., Schaff J.C., Slepchenko B.M. Diffusion on a curved surface coupled to diffusion in the volume: application to cell biology. J. Comput. Phys. 2007, 226:1271-1290.
    • (2007) J. Comput. Phys. , vol.226 , pp. 1271-1290
    • Novak, I.L.1    Gao, F.2    Choi, Y.3    Resasco, D.4    Schaff, J.C.5    Slepchenko, B.M.6
  • 37
    • 33645796494 scopus 로고    scopus 로고
    • Morphodynamic profiling of protrusion phenotypes
    • Machacek M., Danuser G. Morphodynamic profiling of protrusion phenotypes. Biophys. J. 2006, 90:1439-1452.
    • (2006) Biophys. J. , vol.90 , pp. 1439-1452
    • Machacek, M.1    Danuser, G.2
  • 40
    • 67349114307 scopus 로고    scopus 로고
    • Mathematical modeling of the Warburg effect in tumour cords
    • Astanin S., Preziosi L. Mathematical modeling of the Warburg effect in tumour cords. J. Theor. Biol. 2009, 258:578-590.
    • (2009) J. Theor. Biol. , vol.258 , pp. 578-590
    • Astanin, S.1    Preziosi, L.2
  • 42
    • 33750329359 scopus 로고    scopus 로고
    • An efficient second-order accurate cut-cell method for solving the variable coefficient Poisson equation with jump conditions on irregular domains
    • Ji H., Lien F.-S., Yee E. An efficient second-order accurate cut-cell method for solving the variable coefficient Poisson equation with jump conditions on irregular domains. Int. J. Numer. Meth. Fluids 2006, 52:723-748.
    • (2006) Int. J. Numer. Meth. Fluids , vol.52 , pp. 723-748
    • Ji, H.1    Lien, F.-S.2    Yee, E.3
  • 43
    • 0038704068 scopus 로고    scopus 로고
    • Adaptive mesh methods for one- and two-dimensional hyperbolic conservation laws
    • Tang H.Z., Tang T. Adaptive mesh methods for one- and two-dimensional hyperbolic conservation laws. SIAM J. Numer. Anal. 2003, 41:487-515.
    • (2003) SIAM J. Numer. Anal. , vol.41 , pp. 487-515
    • Tang, H.Z.1    Tang, T.2
  • 44
    • 0037429531 scopus 로고    scopus 로고
    • Transport and diffusion of material quantities on propagating interfaces via level set methods
    • Adalsteinsson D., Sethian J.A. Transport and diffusion of material quantities on propagating interfaces via level set methods. J. Comput. Phys. 2003, 185:271-288.
    • (2003) J. Comput. Phys. , vol.185 , pp. 271-288
    • Adalsteinsson, D.1    Sethian, J.A.2
  • 45
    • 0001827481 scopus 로고    scopus 로고
    • A cartesian grid embedded boundary method for Poisson's equation on irregular domains
    • Johansen H., Colella P. A cartesian grid embedded boundary method for Poisson's equation on irregular domains. J. Comput. Phys. 1998, 147:60-85.
    • (1998) J. Comput. Phys. , vol.147 , pp. 60-85
    • Johansen, H.1    Colella, P.2
  • 46
    • 0030882387 scopus 로고    scopus 로고
    • Nematode sperm amoeboid movement without actin
    • Roberts T.M., Stewert M. Nematode sperm amoeboid movement without actin. Trends Cell Biol. 1997, 7:368-373.
    • (1997) Trends Cell Biol. , vol.7 , pp. 368-373
    • Roberts, T.M.1    Stewert, M.2
  • 48
    • 85190078842 scopus 로고    scopus 로고
    • The origin and spatial distribution of forces in motile cells, PLoS Biology, submitted for publication
    • M. Goegler, J.A. Käs, A. Ehrlicher, D. Kock, C.W. Wolgemuth, C. Brunner, The origin and spatial distribution of forces in motile cells, PLoS Biology, submitted for publication.
    • Goegler, M.1    Käs, J.A.2    Ehrlicher, A.3    Kock, D.4    Wolgemuth, C.W.5    Brunner, C.6
  • 49
    • 0242390532 scopus 로고    scopus 로고
    • Analysis of actin dynamics at the leading edge of crawling cells: implications for the shape of keratocyte lamellipodia
    • Grimm H.P., Verkhovsky A., Mogilner A., Meister J.-J. Analysis of actin dynamics at the leading edge of crawling cells: implications for the shape of keratocyte lamellipodia. Eur. Biophys. J. 2003, 32:563-577.
    • (2003) Eur. Biophys. J. , vol.32 , pp. 563-577
    • Grimm, H.P.1    Verkhovsky, A.2    Mogilner, A.3    Meister, J.-J.4
  • 51
    • 24144473871 scopus 로고    scopus 로고
    • Lamellipodial contractions during crawling and spreading
    • Wolgemuth C.W. Lamellipodial contractions during crawling and spreading. Biophys. J. 2005, 89:1643-1649.
    • (2005) Biophys. J. , vol.89 , pp. 1643-1649
    • Wolgemuth, C.W.1
  • 52
    • 0030777766 scopus 로고    scopus 로고
    • Analysis of actin-myosin II system in fish epidermal keratocytes: mechanism of cell body translocation
    • Svitkina T.M., Verkhovsky A.B., McQuade K.M., Borisy G.G. Analysis of actin-myosin II system in fish epidermal keratocytes: mechanism of cell body translocation. J. Cell Biol. 1997, 139:397-415.
    • (1997) J. Cell Biol. , vol.139 , pp. 397-415
    • Svitkina, T.M.1    Verkhovsky, A.B.2    McQuade, K.M.3    Borisy, G.G.4
  • 53
    • 0017660115 scopus 로고
    • Ability of polymorphonuclear leukocytes to orient in gradients of chemotactic factors
    • Zigmond S.H. Ability of polymorphonuclear leukocytes to orient in gradients of chemotactic factors. J. Cell Biol. 1977, 75:606-616.
    • (1977) J. Cell Biol. , vol.75 , pp. 606-616
    • Zigmond, S.H.1
  • 55
    • 33745594814 scopus 로고    scopus 로고
    • Directional sensing in eukaryotic chemotaxis: a balanced inactivation model
    • Levine H., Kessler D.A., Rappel W.-J. Directional sensing in eukaryotic chemotaxis: a balanced inactivation model. Proc. Nat. Acad. Sci. USA 2006, 103:9761-9766.
    • (2006) Proc. Nat. Acad. Sci. USA , vol.103 , pp. 9761-9766
    • Levine, H.1    Kessler, D.A.2    Rappel, W.-J.3
  • 57
    • 65749110884 scopus 로고    scopus 로고
    • Embedded boundary grid generation using the divergence theorem, implicit functions, and constructive solid geometry
    • Ligocki T.J., Schwartz P.O., Percelay J., Colella P. Embedded boundary grid generation using the divergence theorem, implicit functions, and constructive solid geometry. J. Phys. Conf. Ser. 2008, 125:012080.
    • (2008) J. Phys. Conf. Ser. , vol.125 , pp. 012080
    • Ligocki, T.J.1    Schwartz, P.O.2    Percelay, J.3    Colella, P.4
  • 58
    • 49749145984 scopus 로고    scopus 로고
    • A new ghost cell level set method for moving boundary problems: application to tumor growth
    • Macklin P., Lowengrub J. A new ghost cell level set method for moving boundary problems: application to tumor growth. J. Sci. Comput. 2008, 35:266-299.
    • (2008) J. Sci. Comput. , vol.35 , pp. 266-299
    • Macklin, P.1    Lowengrub, J.2
  • 59
    • 0035505590 scopus 로고    scopus 로고
    • A Cartesian grid embedded boundary method for the heat equation on irregular domains
    • McCorquodale P., Colella P., Johansen H. A Cartesian grid embedded boundary method for the heat equation on irregular domains. J. Comput. Phys. 2001, 173:620-635.
    • (2001) J. Comput. Phys. , vol.173 , pp. 620-635
    • McCorquodale, P.1    Colella, P.2    Johansen, H.3
  • 60
    • 84979999914 scopus 로고    scopus 로고
    • A cut cell method for simulating spatial models of biochemical reaction networks in arbitrary geometries
    • Strychalski W., Adalsteinsson D., Elston T.C. A cut cell method for simulating spatial models of biochemical reaction networks in arbitrary geometries. Commun. Appl. Math. Comput. Sci. 2010, 5:31-53.
    • (2010) Commun. Appl. Math. Comput. Sci. , vol.5 , pp. 31-53
    • Strychalski, W.1    Adalsteinsson, D.2    Elston, T.C.3


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