Related papers: Assembly of Model Postsynaptic Densities Involves …
We analyze the combined effect of the long range Coulomb (LRC) interaction and of surface energy on first order density-driven phase transitions in the presence of a compensating rigid background. We study mixed states formed by regions of…
Analysing biological spiking neural network models with synaptic plasticity has proven to be challenging both theoretically and numerically. In a network with N all-to-all connected neurons, the number of synaptic connections is on the…
How and where proteins interface with one another can ultimately impact the proteins' functions along with a range of other biological processes. As such, precise computational methods for protein interface prediction (PIP) come highly…
The pair interaction between two stiff parallel linear DNA molecules depends not only on the distance between their axes but on their azimuthal orientation. The positional and orientational order in columnar B-DNA assemblies in solution is…
In this review paper, the theory of synaptic transmission (ST) was developed and discussed. We used the hypothesis of isomorphism between: (a) the cooperative behavior of mediators --- acetylcholine molecules (ACh) and cholinoreceptors in a…
Despite more than 100 years of study, it is unclear if the movement of proteins inside the cell is best described as a mosh pit or an exquisitely choreographed dance. Recent studies suggest the latter. Local interactions induce molecular…
Using a dual-mode STM-AFM microscope operating below 50mK we measured the Local Density of States (LDoS) along small normal wires connected at both ends to superconductors with different phases. We observe that a uniform minigap can develop…
Associative polymers (APs) with reversible, specific interactions between ``sticker'' sites exhibit a phase behavior that depends on a delicate balance between distinct contributions controlling the binding. For highly-bonded systems, it is…
Spike-Timing-Dependent Plasticity (STDP) provides a biologically grounded learning rule for spiking neural networks (SNNs), but its reliance on precise spike timing and pairwise updates limits fast learning of weights. We introduce a…
The formation and regulation of macromolecular complexes provides the backbone of most cellular processes, including gene regulation and signal transduction. The inherent complexity of assembling macromolecular structures makes current…
The formation of biomolecular condensates inside cells often involve intrinsically disordered proteins (IDPs), and several of these IDPs are also capable of forming droplet-like dense assemblies on their own, through liquid-liquid phase…
The synaptic connectivity of cortical networks features an overrepresentation of certain wiring motifs compared to simple random-network models. This structure is shaped, in part, by synaptic plasticity that promotes or suppresses…
In this work we determine a process-level Large Deviation Principle (LDP) for a model of interacting neurons indexed by a lattice $\mathbb{Z}^d$. The neurons are subject to noise, which is modelled as a correlated martingale. The…
Motility-induced phase separation (MIPS) is a paradigmatic non-equilibrium transition in active matter, determined by the P\'eclet number and packing fraction. We investigate the single-phase and phase-separated regimes of MIPS using a…
We investigated the phase separation of dioleoylphosphatidylserine (DOPS) and dipalmitoylphosphatidylcholine (DPPC) in giant unilamellar vesicles in hypotonic solution using fluorescence and confocal laser scanning microscopy. Although…
Identifying and removing microplastics (MPs) from the environment is a global challenge. This study explores how the colloidal fraction of common MPs behave at aqueous interfaces of liquid crystal (LC) films. We observed polyethylene (PE)…
We study the formation of protein-protein encounter complexes with a Langevin equation approach that considers direct, steric and thermal forces. As three model systems with distinctly different properties we consider the pairs…
The availability of large-scale neuronal population datasets necessitates new methods to model population dynamics and extract interpretable, scientifically translatable insights. Existing deep learning methods often overlook the biological…
Phase separation in biomolecular mixtures can result from multiple physical interactions, which may act either complementarily or antagonistically. In the case of protein-nucleic acid mixtures, charge plays a key role but can have…
Liquid-liquid phase separation (LLPS) is currently of great interest in cell biology. LLPS is an example of what is called an emergent phenomenon -- an idea that comes from condensed-matter physics. Emergent phenomena have the…