Related papers: Spiky oscillations in NF-kB signalling
In biochemical signaling, information is often encoded in oscillatory signals. However, the advantages of such a coding strategy over an amplitude encoding scheme of constant signals remain unclear. Here we study the dynamics of a simple…
Genetic oscillators are present in the cells of many organisms and control several biological processes. The common feature of such oscillators is the presence of a protein which represses the transcription of its own gene. Recently, it has…
We study the noise characteristics of stochastic oscillations in protein number dynamics of simple genetic oscillatory systems. Using the three-component negative feedback transcription regulatory system called the repressilator as a…
We study the oscillatory behaviour of a gene regulatory network with interlinked positive and negative feedback loop. Frequency and amplitude are two important properties of oscillation. Studied network produces two different modes of…
Understanding cognitive processes in the brain demands sophisticated models capable of replicating neural dynamics at large scales. We present a physiologically inspired speech recognition architecture, compatible and scalable with deep…
Neuromorphic processors that implement Spiking Neural Networks (SNNs) using mixed-signal analog/digital circuits represent a promising technology for closed-loop real-time processing of biosignals. As in biology, to minimize power…
The sequence-dependent structural variability and conformational dynamics of DNA play pivotal roles in many biological milieus, such as in the site-specific binding of transcription factors to target regulatory elements. To better…
A recurring motif in gene regulatory networks is transcription factors (TFs) that regulate each other, and then bind to overlapping sites on DNA, where they interact and synergistically control transcription of a target gene. Here, we…
Stochastic oscillations in individual cells are usually characterized by a non-monotonic power spectrum with an oscillatory autocorrelation function. Here we develop an analytical approach of stochastic oscillations in a minimal hybrid…
The presence of noise in non linear dynamical systems can play a constructive role, increasing the degree of order and coherence or evoking improvements in the performance of the system. An example of this positive influence in a biological…
Spiking neural networks (SNNs) can be used for implementing cost-efficient artificial intelligence computing or mechanistic modelling of experimentally observed neural data. In the latter, fitting neural data with recurrent SNNs (RSNNs)…
Deciphering how genes interpret information from the concentration of transcription factors (TFs) within the cell nucleus remains a fundamental question in gene regulation. Recent advancements have unveiled the heterogeneous distribution of…
Oscillations in the local field potential (LFP) of the brain are key signatures of neural information processing. Perturbing these oscillations at specific phases in order to alter neural information processing is an area of active…
We revisit the dynamics of a gene repressed by its own protein in the case where the transcription rate does not adapt instantaneously to protein concentration but is a dynamical variable. We derive analytical criteria for the appearance of…
Neural processing systems typically represent data using leaky integrate and fire (LIF) neuron models that generate spikes or pulse trains at a rate proportional to their input amplitudes. This mechanism requires high firing rates when…
Oscillatory chemical reactions often serve as a timing clock of cellular processes in living cells. The temporal dynamics of protein concentration levels is thus of great interest in biology. Here we propose a theoretical framework to…
Spikes are the currency in central nervous systems for information transmission and processing. They are also believed to play an essential role in low-power consumption of the biological systems, whose efficiency attracts increasing…
The theta rhythm is important for many cognitive functions including spatial processing, memory encoding, and memory recall. The information processing underlying these functions is thought to rely on consistent, phase-specific spiking…
Noise plays a crucial role in the regulation of cellular and organismal function and behavior. Exploring noise's impact is key to understanding fundamental biological processes, such as gene expression, signal transduction, and the…
Cell signaling, gene expression, and metabolism are affected by cell-cell heterogeneity and random changes in the environment. The effects of such fluctuations on cell signaling and gene expression have recently been studied intensively…