Subcellular Processes
Actin networks in certain single-celled organisms exhibit a complex pattern-forming dynamics that starts with the appearance of static spots of actin on the cell cortex. Spots soon become mobile, executing persistent random walks, and…
Budding from the plasma membrane of the host cell is an indispensable step in the life cycle of the Human Immunodeficiency Virus (HIV), which belongs to a large family of enveloped RNA viruses, retroviruses. Unlike regular enveloped…
In the recent paper (2011) Faas and co-workers claimed that calmodulin could directly detect Ca2+ signals by acting as extremely fast calcium buffer. However the results and their interpretation raise serious doubts about this conclusion.
Calcium is an ubiquitous second messenger that triggers a plethora of key physiological responses. The events are initiated in micro- or nano-sized compartments and determined by the complex interactions with calcium-binding proteins and…
In this paper, three multiscale methods for coupling of mesoscopic (compartment-based) and microscopic (molecular-based) stochastic reaction-diffusion simulations are investigated. Two of the three methods that will be discussed in detail…
Stimulation of LDH initial reaction rates by timed pre-irradiation of crystalline sodium pyruvate and lithium lactate is reported for enzymes isolated from rabbit muscle, pig heart, human erythrocytes and chicken heart. The phenomenon…
The directed polymerization of actin networks is an essential element of many biological processes, including cell migration. Different theoretical models considering the interplay between the underlying processes of polymerization, capping…
The comment is intended to answer the criticism presented on `Steady-state fluctuations of a genetic feedback loop: an exact solution' [J. Chem. Phys. {\bf 137}, 035104 (2012).] and provides the missing component for the complete analytic…
Extremely low frequency electromagnetic fields aren't considered as a real carcinogenic agent despite the fact that some studies have showed impairment of the DNA integrity in different cells lines. The aim of this study was evaluation of…
We investigate the cooperative dynamics of an ensemble of N microtubules growing against an elastic barrier. Microtubules undergo so-called catastrophes, which are abrupt stochastic transitions from a growing to a shrinking state, and…
Length-regulation of microtubules (MTs) is essential for many cellular processes. Molecular motors like kinesin 8, which move along MTs and also act as depolymerases, are known as key players in MT dynamics. However, the regulatory…
All cells must keep time to consistently perform vital biological functions. To that end, the coupling and interrelatedness of diverse subsecond events in the complex cellular environment, such as protein folding or translation rates,…
Based on the oligomer-world hypothesis we propose an abstract model where the molecular recognition among oligomers is described in the shape space. The origin of life in the oligomer world is regarded as the establishment of a metabolic…
Ion channels are specific proteins present in the membranes of living cells. They control the flow of specific ions through a cell, initiated by an ion channel's electrochemical gradient. In doing so, they control important physiological…
Signal transduction, the information processing mechanism in biological cells, is carried out by a network of biochemical reactions. The dynamics of driven biochemical reactions can be studied in terms of nonequilibrium statistical physics.…
We study the steady state of an assembly of microtubules in a confined volume, analogous to the situation inside a cell where the cell boundary forms a natural barrier to growth. We show that the dynamical equations for growing and…
A theoretical model of stabilization of a microtubule assembly due to microtubule-associated-proteins(MAP) is presented. MAPs are assumed to bind to the microtubule filaments, thus preventing their disintegration following hydrolysis and…
Systems biology approaches combining theoretical modeling with experiments have been singularly successful in uncovering novel features of cellular phenomena. One such feature is that of binary gene expression in which the expression level…
Recent findings raise the possibility of PARP inhibitor therapy in colorectal cancers(CRCs). However, the extent of PARP-1 protein expression in clinical specimens of CRC is not known. Using immunohistochemistry we assessed PARP-1 protein…
Large scale motion of cytoplasm called cytoplasmic streaming occurs in some large eukaryotic cells to stir the cell's constituents. In Drosophila oocytes, microtubules have been observed to undergo undulating motion, curving to form…