Related papers: Optimal temporal patterns for dynamical cellular s…
In this paper, we present a cyclically time-expanded network model for simultaneous optimization of traffic assignment and traffic signal parameters, in particular offsets, split times, and phase orders. Since travel times are of great…
The essential features of far-field low-energy defibrillation are elucidated using a simple cellular automaton model of excitable media. The model's topological character allows for direct correspondence with both realistic models and…
Many engineering, social, and biological complex systems consist of dynamical elements connected via a large-scale network. Monitoring the network's dynamics is essential for a variety of maintenance and scientific purposes. Whilst we…
Eukaryotic transcription generally occurs in bursts of activity lasting minutes to hours; however, state-of-the-art measurements have revealed that many of the molecular processes that underlie bursting, such as transcription factor binding…
A central goal of thermodynamics is to identify optimal processes during which the least amount of energy is dissipated into the environment. Generally, even for simple systems, such as the parametric harmonic oscillator, optimal control…
Response time-delay is an ubiquitous phenomenon in biological systems. Here we use a simple stochastic population model with time-delayed switching-rate conversion to quantitatively study the biological influence of the response time-delay…
Interactions between neighboring cells are essential for generating or refining patterns in a number of biological systems. We propose a discrete filtering approach to predict how networks of cells modulate spatially varying input signals…
Macroscopic oscillations in the brain are involved in various cognitive and physiological processes, yet their precise function is not not completely understood. Communication Through Coherence (CTC) theory proposes that these rhythmic…
We consider the on-time transmissions of a sequence of packets over a fading channel.Different from traditional in-time communications, we investigate how many packets can be received $\delta$-on-time, meaning that the packet is received…
Translation of proteins is a fundamental part of gene expression that is mediated by ribosomes. As ribosomes significantly contribute to both cellular mass and energy consumption, achieving efficient management of the ribosome population is…
Efficient navigation in swarms often relies on the emergence of decentralized approaches that minimize traversal time or energy. Stigmergy, where agents modify a shared environment that then modifies their behavior, is a classic mechanism…
One of the primary computational requirements of a cellular system is the ability to transfer information between spatially separated components. To accomplish this, biology uses diverse physical channels including production or release of…
Units of complex systems -- such as neurons in the brain or individuals in societies -- must communicate efficiently to function properly: e.g., allowing electrochemical signals to travel quickly among functionally connected neuronal areas…
Spatial self-organization emerges in distributed systems exhibiting local interactions when nonlinearities and the appropriate propagation of signals are at work. These kinds of phenomena can be modeled with different frameworks, typically…
In three spatial dimensions, communication channels are free to pass over or under each other so as to cross without intersecting; in two dimensions, assuming channels of strictly positive thickness, this is not the case. It is natural,…
Signaling pathways serve to communicate information about extracellular conditions into the cell, to both the nucleus and cytoplasmic processes to control cell responses. Genetic mutations in signaling network components are frequently…
Many patterning events in multi-cellular organisms rely on cell-to-cell contact signaling, such as the Notch pathway in metazoans. A particularly interesting phenomenon in this form of communication is lateral inhibition where a cell that…
Exchange of molecules allows cells to exchange information. How robust is the information to changes in cell parameters? We use a mapping between the stochastic dynamics of two cells sharing a stimulatory molecule, and parameters akin to an…
The proper functioning of multicellular organisms requires the robust establishment of precise proportions between distinct cell-types. This developmental differentiation process typically involves intracellular regulatory and stochastic…
Wireless systems that carry delay-sensitive information (such as speech and/or video signals) typically transmit with fixed data rates, but may occasionally suffer from transmission outages caused by the random nature of the fading…