相关论文: Lattice ultrasensitivity amplifies signals in E. c…

A stochastic version of the Barkai-Leibler model of chemotaxis receptors in {\it E. coli} is studied here to elucidate the effects of intrinsic network noise in their conformational dynamics. It was originally proposed to explain the robust…

Eukaryotic cells generally sense chemical gradients using the binding of chemical ligands to membrane receptors. In order to perform chemotaxis effectively in different environments, cells need to adapt to different concentrations. We…

The Escherichia coli chemotaxis signaling pathway has served as a model system for studying the adaptive sensing of environmental signals by large protein complexes. The chemoreceptors control the kinase activity of CheA in response to the…

Specific interactions between receptors and their target ligands in the presence of non-target ligands are crucial for biological processes such as T cell ligand discrimination. To discriminate between the target and non-target ligands,…

Organisms use specialized sensors to measure their environments, but the fundamental principles that determine their accuracy remain largely unknown. In Escherichia coli chemotaxis, we previously found that gradient-climbing speed is…

Two distinct mechanisms for filtering noise in an input signal are identified in a class of adaptive sensory networks. We find that the high frequency noise is filtered by the output degradation process through time-averaging; while the low…

The chemotaxis sensory system allows bacteria such as Escherichia coli to swim towards nutrients and away from repellents. The underlying pathway is remarkably sensitive in detecting chemical gradients over a wide range of ambient…

Lattice gauge theories are a fascinating and rich class of theories relating to the most fundamental models of particle physics, and as experimental control on the quantum level increases there is a growing interest in non-equilibrium…

Experiments show that the movement of eukaryotic cells is regulated by a process of phase separation of two competing enzymes on the cell membrane, that effectively amplifies shallow external gradients of chemical attractant. Notably, the…

The Escherichia coli chemoreceptors form an extensive array that achieves cooperative and adaptive sensing of extracellular signals. The receptors control the activity of histidine kinase CheA, which drives a nonequilibrium…

Lattices are an efficient and effective method to encode ambiguity of upstream systems in natural language processing tasks, for example to compactly capture multiple speech recognition hypotheses, or to represent multiple linguistic…

Acoustic model adaptation to unseen test recordings aims to reduce the mismatch between training and testing conditions. Most adaptation schemes for neural network models require the use of an initial one-best transcription for the test…

Adaptation of the chemotaxis sensory pathway of the bacterium Escherichia coli is integral for detecting chemicals over a wide range of background concentrations, ultimately allowing cells to swim towards sources of attractant and away from…

We present a simple model which allows to investigate equilibrium aspects of molecular recognition between rigid biomolecules on a generic level. Using a two-stage approach, which consists of a design and a testing step, the role of…

We address a problem of the upper critical field in a lattice described by a two-dimensional tight-binding model with the on-site pairing. We develop a finite-system-approach which enables investigation of magnetic and superconducting…

We construct a three-dimensional lattice model for biological gels in which straight lines of bonds correspond to filamentous semi-flexible polymers and lattice sites, which are exactly four-fold coordinated, to crosslinks. With only…

This work investigates linear precoding over non-singular linear channels with additive white Gaussian noise, with lattice-type inputs. The aim is to maximize the minimum distance of the received lattice points, where the precoder is…

In the standard approach to lattice proteins the models based on nearest neighbor interaction are used. In this kind of models it is difficult to explain the existence of secondary structures --- special preferred conformations of protein…

Robustness and sensitivity of responses generated by cell signaling networks has been associated with survival and evolvability of organisms. However, existing methods analyzing robustness and sensitivity of signaling networks ignore the…

Reconstruction-based approaches to anomaly detection tend to fall short when applied to complex datasets with target classes that possess high inter-class variance. Similar to the idea of self-taught learning used in transfer learning, many…