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Biological cells are often found to sense their chemical environment near the single-molecule detection limit. Surprisingly, this precision is higher than simple estimates of the fundamental physical limit, hinting towards active sensing…
Neural Cellular Automata (NCAs) are a model of morphogenesis, capable of growing two-dimensional artificial organisms from a single seed cell. In this paper, we show that NCAs can be trained to respond to signals. Two types of signal are…
We study the case where phase modulation of the harmonic signal is used to obtain the error signal for the frequency stabilization to a reference atomic transition. High-frequency modulation, or analog of the Pound-Drever-Hall regime, is…
Neural oscillations are electrical activities of the brain measurable at different frequencies. This paper studies the interaction between the fast and slow processes in the brain. We recorded signals intracranially from the simple Wistar…
The auditory system displays remarkable sensitivity and frequency discrimination, attributes shown to rely on an amplification process that involves a mechanical as well as a biochemical response. Models that display proximity to an…
We consider the behavior of a modulated wave solution to an $\mathbb{S}^1$-equivariant autonomous system of differential equations under an external forcing of modulated wave type. The modulation frequency of the forcing is assumed to be…
Acoustic modulation of quantum dots allows one to control the scattering of photons. Here we theoretically characterize the degree of this acoustic control in the frequency domain. We formulate the theory of low-intensity resonance…
The evolution of symbolic communication is a longstanding open research question in biology. While some theories suggest that it originated from sub-symbolic communication (i.e., iconic or indexical), little experimental evidence exists on…
Predicting transcriptional responses to novel drugs provides a unique opportunity to accelerate biomedical research and advance drug discovery efforts. However, the inherent complexity and high dimensionality of cellular responses, combined…
The physical limit with which a cell senses external ligand concentration corresponds to the perfect absorber, where all ligand particles are absorbed and overcounting of same ligand particles does not occur. Here we analyze how the lateral…
Neural encoding of objects and cognitive states remains an elusive yet crucial aspect of brain function. While traditional feed-forward machine learning neural networks have enormous potential to encode information, modern architectures…
In a diffusion-based molecular communication network, transmitters and receivers communicate by using signalling molecules (or ligands) in a fluid medium. This paper assumes that the transmitter uses different chemical reactions to generate…
The activity of neurons within brain circuits has been ubiquitously reported to be correlated. The impact of these correlations on brain function has been extensively investigated. Correlations can in principle increase or decrease the…
Encoding and decoding models are widely used in systems, cognitive, and computational neuroscience to make sense of brain-activity data. However, the interpretation of their results requires care. Decoding models can help reveal whether…
Processing sequential inputs is a fundamental brain function, underlying tasks such as sensory perception, language, and motor control. A challenge in sequence processing is to represent not only the order of events, but also their precise…
Intrinsic noise, the stochastic cell-to-cell fluctuations in mRNAs and proteins, has been observed and proved to play important roles in cellular systems. Due to the recent development in single-cell-level measurement technology, the…
In this paper, we apply dimensional analysis to study a diffusive molecular communication system that uses diffusing enzymes in the propagation environment to mitigate intersymbol interference. The enzymes bind to information molecules and…
Modulation of probe signal in pump-probe measurements of coherent phonons in dielectrics, with and without spectral resolution, are investigated theoretically taking diamond as an example. Analytical investigation as well as…
Intracellular biochemical networks fluctuate dynamically due to various internal and external sources of fluctuation. Dissecting the fluctuation into biologically relevant components is important for understanding how a cell controls and…
We show how one may analytically compute the stationary density of the distribution of molecular constituents in populations of cells in the presence of noise arising from either bursting transcription or translation, or noise in…