The unfolded protein response: detecting and responding to fluctuations in the protein-folding capacity of the endoplasmic reticulum

GE Karagöz, D Acosta-Alvear… - Cold Spring Harbor …, 2019 - cshperspectives.cshlp.org
Most of the secreted and plasma membrane proteins are synthesized on membrane-bound
ribosomes on the endoplasmic reticulum (ER). They require engagement of ER-resident …

Getting around the cell: physical transport in the intracellular world

SS Mogre, AI Brown, EF Koslover - Physical Biology, 2020 - iopscience.iop.org
Eukaryotic cells face the challenging task of transporting a variety of particles through the
complex intracellular milieu in order to deliver, distribute, and mix the many components that …

Fast Monte Carlo simulation methods for biological reaction-diffusion systems in solution and on surfaces

RA Kerr, TM Bartol, B Kaminsky, M Dittrich… - SIAM journal on scientific …, 2008 - SIAM
Many important physiological processes operate at time and space scales far beyond those
accessible to atom-realistic simulations, and yet discrete stochastic rather than continuum …

Finite element analysis for a coupled bulk–surface partial differential equation

CM Elliott, T Ranner - IMA Journal of Numerical Analysis, 2013 - ieeexplore.ieee.org
In this paper, we define a new finite element method for numerically approximating the
solution of a partial differential equation in a bulk region coupled with a surface partial …

Computational modelling of cell spreading and tissue regeneration in porous scaffolds

BG Sengers, M Taylor, CP Please, ROC Oreffo - Biomaterials, 2007 - Elsevier
Improved biological and mechanical functionality of musculoskeletal tissue-engineered
constructs is required for clinical application, which can only be achieved by comprehensive …

A high-order kernel method for diffusion and reaction-diffusion equations on surfaces

EJ Fuselier, GB Wright - Journal of Scientific Computing, 2013 - Springer
In this paper we present a high-order kernel method for numerically solving diffusion and
reaction-diffusion partial differential equations (PDEs) on smooth, closed surfaces …

Coupling image restoration and segmentation: A generalized linear model/Bregman perspective

G Paul, J Cardinale, IF Sbalzarini - International journal of computer vision, 2013 - Springer
We introduce a new class of data-fitting energies that couple image segmentation with
image restoration. These functionals model the image intensity using the statistical …

System analysis shows distinct mechanisms and common principles of nuclear envelope protein dynamics

N Zuleger, DA Kelly, AC Richardson, ARW Kerr… - Journal of Cell …, 2011 - rupress.org
The nuclear envelope contains> 100 transmembrane proteins that continuously exchange
with the endoplasmic reticulum and move within the nuclear membranes. To better …

Modulation of lateral diffusion in the plasma membrane by protein density

M Frick, K Schmidt, BJ Nichols - Current biology, 2007 - cell.com
The rate of lateral diffusion of proteins over micron-scale distances in the plasma membrane
(PM) of mammalian cells is much slower than in artificial membranes [1, 2]. Different models …

An objective tensor to predict anisotropic fiber orientation in concentrated suspensions

HC Tseng, RY Chang, CH Hsu - Journal of Rheology, 2016 - pubs.aip.org
The improved anisotropic rotary diffusion (iARD) model was previously regarded as a
suitable description of anisotropic orientation states for long fibers in concentrated …