Related papers: Cell development obeys maximum Fisher information
To explain the differentiation of stem cells in terms of dynamical systems theory, models of interacting cells with intracellular protein expression dynamics are analyzed and simulated. Simulations were carried out for all possible protein…
The interaction between nano- or micro-sized particles and cell membranes is of crucial importance in many biological and biomedical applications such as drug and gene delivery to cells and tissues. During their cellular uptake, the…
In this paper we present a mathematical study of particle diffusion inside and outside a spherical biological cell that has been exposed on one side to a propagating planar diffusive front. The media inside and outside the spherical cell…
By considering the energy cost of messages carried by proteins as proportional to their information content we found experimental proof that proteins from all living organisms tend to have their estimated semantic content of information per…
We report on a novel model linking deep convolutional neural networks (CNN) to biological vision and fundamental particle physics. Information propagation in a CNN is modeled via an analogy to an optical system, where information is…
A solid-state nanopore can electrophoretically capture a DNA molecule and pull it through in a folded configuration. The resulting ionic current signal indicates where along its length the DNA was captured. A statistical study using an 8 nm…
In precision aquaculture, the primary goal is to maximize biomass production while minimizing production costs. This objective can be achieved by optimizing factors that have a strong influence on fish growth, such as the feeding rate,…
Recent Brain-Machine Interfaces have shifted towards miniature devices that are constructed from nanoscale components. While these devices can be implanted into the brain, their functionalities can be limited, and will require communication…
Consider a finite-sized, multidimensional system in parameter state a. The system is either at statistical equilibrium or general non-equilibrium, and may obey either classical or quantum physics. L. Hardy's mathematical axioms provide a…
Quantum Fisher information is the principal tool used to give the ultimate precision bound on the estimation of parameters for quantum channels. In this work, we present analytical expressions for the quantum Fisher information with three…
This paper studies achievable rates of nanopore-based DNA storage when nanopore signals are decoded using a tractable channel model that does not rely on a basecalling algorithm. Specifically, the noisy nanopore channel (NNC) with the…
Experiments measuring DNA extension in nanochannels are at odds with even the most basic predictions of current scaling arguments for the conformations of confined semiflexible polymers such as DNA. We show that a theory based on a weakly…
Eukaryotic adaptation pathways operate within wide-ranging environmental conditions without stimulus saturation. Despite numerous differences in the adaptation mechanisms employed by bacteria and eukaryotes, all require energy consumption.…
Eukaryotic cells can polarize and migrate in response to electric fields via "galvanotaxis," which aids wound healing. Experimental evidence suggests cells sense electric fields via molecules on the cell's surface redistributing via…
The study of the interactions of living adherent cells with mechanically stable (visco)elastic materials enables understanding and exploiting physiological phenomena mediated by cell-extracellular communication. However, insight on the…
Phagocytosis is the fundamental cellular process by which eukaryotic cells bind and engulf particles by their cell membrane. Particle engulfment involves particle recognition by cell-surface receptors, signaling and remodeling of the actin…
Bacterial chemotactic sensing converts noisy chemical signals into running and tumbling. We analyze the static sensing limits of mixed Tar/Tsr chemoreceptor clusters in individual Escherichia coli cells using a heterogeneous…
The generation of action potential brings into play specific mechanosensory stimuli manifest in the variation of membrane capacitance, resulting from the selective membrane permeability to ions exchanges and testifying to the central role…
We model the evolution of eukaryotic protein-protein interaction (PPI) networks. In our model, PPI networks evolve by two known biological mechanisms: (1) Gene duplication, which is followed by rapid diversification of duplicate…
Translocation properties of ionic channels are investigated, on the basis of classical electrostatics, with an emphasis on asymptotic formulas for the potential and field associated with a point charge in the channel. Due to image charges…