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Diffusion through thin membranes: Modeling across scales

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Diffusion through thin membranes : Modeling across scales. / Aho, Vesa; Mattila, Keijo; Kühn, Thomas; Kekäläinen, Pekka; Pulkkinen, Otto; Minussi, Roberta Brondani; Vihinen-Ranta, Maija; Timonen, Jussi.

In: Physical Review E, Vol. 93, No. 4, 043309, 12.04.2016.

Research output: Contribution to journalArticleScientificpeer-review

Harvard

Aho, V, Mattila, K, Kühn, T, Kekäläinen, P, Pulkkinen, O, Minussi, RB, Vihinen-Ranta, M & Timonen, J 2016, 'Diffusion through thin membranes: Modeling across scales', Physical Review E, vol. 93, no. 4, 043309. https://doi.org/10.1103/PhysRevE.93.043309

APA

Aho, V., Mattila, K., Kühn, T., Kekäläinen, P., Pulkkinen, O., Minussi, R. B., ... Timonen, J. (2016). Diffusion through thin membranes: Modeling across scales. Physical Review E, 93(4), [043309]. https://doi.org/10.1103/PhysRevE.93.043309

Vancouver

Aho V, Mattila K, Kühn T, Kekäläinen P, Pulkkinen O, Minussi RB et al. Diffusion through thin membranes: Modeling across scales. Physical Review E. 2016 Apr 12;93(4). 043309. https://doi.org/10.1103/PhysRevE.93.043309

Author

Aho, Vesa ; Mattila, Keijo ; Kühn, Thomas ; Kekäläinen, Pekka ; Pulkkinen, Otto ; Minussi, Roberta Brondani ; Vihinen-Ranta, Maija ; Timonen, Jussi. / Diffusion through thin membranes : Modeling across scales. In: Physical Review E. 2016 ; Vol. 93, No. 4.

Bibtex - Download

@article{90cab76194114f05a92a5dfbeb01f411,
title = "Diffusion through thin membranes: Modeling across scales",
abstract = "From macroscopic to microscopic scales it is demonstrated that diffusion through membranes can be modeled using specific boundary conditions across them. The membranes are here considered thin in comparison to the overall size of the system. In a macroscopic scale the membrane is introduced as a transmission boundary condition, which enables an effective modeling of systems that involve multiple scales. In a mesoscopic scale, a numerical lattice-Boltzmann scheme with a partial-bounceback condition at the membrane is proposed and analyzed. It is shown that this mesoscopic approach provides a consistent approximation of the transmission boundary condition. Furthermore, analysis of the mesoscopic scheme gives rise to an expression for the permeability of a thin membrane as a function of a mesoscopic transmission parameter. In a microscopic model, the mean waiting time for a passage of a particle through the membrane is in accordance with this permeability. Numerical results computed with the mesoscopic scheme are then compared successfully with analytical solutions derived in a macroscopic scale, and the membrane model introduced here is used to simulate diffusive transport between the cell nucleus and cytoplasm through the nuclear envelope in a realistic cell model based on fluorescence microscopy data. By comparing the simulated fluorophore transport to the experimental one, we determine the permeability of the nuclear envelope of HeLa cells to enhanced yellow fluorescent protein.",
author = "Vesa Aho and Keijo Mattila and Thomas K{\"u}hn and Pekka Kek{\"a}l{\"a}inen and Otto Pulkkinen and Minussi, {Roberta Brondani} and Maija Vihinen-Ranta and Jussi Timonen",
note = "INT=fys,{"}Mattila, Keijo{"}",
year = "2016",
month = "4",
day = "12",
doi = "10.1103/PhysRevE.93.043309",
language = "English",
volume = "93",
journal = "Physical Review E",
issn = "1539-3755",
publisher = "American Physical Society",
number = "4",

}

RIS (suitable for import to EndNote) - Download

TY - JOUR

T1 - Diffusion through thin membranes

T2 - Modeling across scales

AU - Aho, Vesa

AU - Mattila, Keijo

AU - Kühn, Thomas

AU - Kekäläinen, Pekka

AU - Pulkkinen, Otto

AU - Minussi, Roberta Brondani

AU - Vihinen-Ranta, Maija

AU - Timonen, Jussi

N1 - INT=fys,"Mattila, Keijo"

PY - 2016/4/12

Y1 - 2016/4/12

N2 - From macroscopic to microscopic scales it is demonstrated that diffusion through membranes can be modeled using specific boundary conditions across them. The membranes are here considered thin in comparison to the overall size of the system. In a macroscopic scale the membrane is introduced as a transmission boundary condition, which enables an effective modeling of systems that involve multiple scales. In a mesoscopic scale, a numerical lattice-Boltzmann scheme with a partial-bounceback condition at the membrane is proposed and analyzed. It is shown that this mesoscopic approach provides a consistent approximation of the transmission boundary condition. Furthermore, analysis of the mesoscopic scheme gives rise to an expression for the permeability of a thin membrane as a function of a mesoscopic transmission parameter. In a microscopic model, the mean waiting time for a passage of a particle through the membrane is in accordance with this permeability. Numerical results computed with the mesoscopic scheme are then compared successfully with analytical solutions derived in a macroscopic scale, and the membrane model introduced here is used to simulate diffusive transport between the cell nucleus and cytoplasm through the nuclear envelope in a realistic cell model based on fluorescence microscopy data. By comparing the simulated fluorophore transport to the experimental one, we determine the permeability of the nuclear envelope of HeLa cells to enhanced yellow fluorescent protein.

AB - From macroscopic to microscopic scales it is demonstrated that diffusion through membranes can be modeled using specific boundary conditions across them. The membranes are here considered thin in comparison to the overall size of the system. In a macroscopic scale the membrane is introduced as a transmission boundary condition, which enables an effective modeling of systems that involve multiple scales. In a mesoscopic scale, a numerical lattice-Boltzmann scheme with a partial-bounceback condition at the membrane is proposed and analyzed. It is shown that this mesoscopic approach provides a consistent approximation of the transmission boundary condition. Furthermore, analysis of the mesoscopic scheme gives rise to an expression for the permeability of a thin membrane as a function of a mesoscopic transmission parameter. In a microscopic model, the mean waiting time for a passage of a particle through the membrane is in accordance with this permeability. Numerical results computed with the mesoscopic scheme are then compared successfully with analytical solutions derived in a macroscopic scale, and the membrane model introduced here is used to simulate diffusive transport between the cell nucleus and cytoplasm through the nuclear envelope in a realistic cell model based on fluorescence microscopy data. By comparing the simulated fluorophore transport to the experimental one, we determine the permeability of the nuclear envelope of HeLa cells to enhanced yellow fluorescent protein.

U2 - 10.1103/PhysRevE.93.043309

DO - 10.1103/PhysRevE.93.043309

M3 - Article

VL - 93

JO - Physical Review E

JF - Physical Review E

SN - 1539-3755

IS - 4

M1 - 043309

ER -