Related papers: The infochemical core
Biological organisms adapt to changes by processing informations from different sources, most notably from their ancestors and from their environment. We review an approach to quantify these informations by analyzing mathematical models of…
Escherichia coli has long been used as a model organism due to the extensive experimental characterization of its pathways and molecular components. Take chemotaxis as an example, which allows bacteria to sense and swim in response to…
It has been argued that semantic categories across languages reflect pressure for efficient communication. Recently, this idea has been cast in terms of a general information-theoretic principle of efficiency, the Information Bottleneck…
Cells can be considered as systems that utilize changes in thermodynamic entropy as information. Therefore, they serve as useful models for investigating the relationships between entropy production and information transmission, i.e.,…
Methods and insights from statistical physics are finding an increasing variety of applications where one seeks to understand the emergent properties of a complex interacting system. One such area concerns the dynamics of language at a…
Motivation: In the last few years a growing interest in biology has been shifting towards the problem of optimal information extraction from the huge amount of data generated via large scale and high-throughput techniques. One of the most…
The complexity of a system description is a function of the entropy of its symbolic description. Prior to computing the entropy of the system description, an observation scale has to be assumed. In natural language texts, typical scales are…
Information theory has explained the organization of many biological phenomena, from the physiology of sensory receptive fields to the variability of certain DNA sequence ensembles. Some scholars have proposed that information should…
Changes in a cell's external or internal conditions are usually reflected in the concentrations of the relevant transcription factors. These proteins in turn modulate the expression levels of the genes under their control and sometimes need…
We explore the critical behaviors in the dynamics of information transfer of a biologically-inspired system by an individual-based model. "Quorum response", a type of social interaction which has been recognized taxonomically in animal…
Extracting higher-order structures from multivariate data has become an area of intensive study in complex systems science, as these multipartite interactions can reveal insights into fundamental features of complex systems like emergent…
Many of today's most pressing issues require a more robust understanding of how information spreads in populations. Current models of information spread can be thought of as falling into one of two varieties: epidemiologically-inspired…
Despite their ability to understand chemical knowledge, large language models (LLMs) remain limited in their capacity to propose novel molecules with desired functions (e.g., drug-like properties). In addition, the molecules that LLMs…
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…
Proverbs are an essential component of language and culture, and though much attention has been paid to their history and currency, there has been comparatively little quantitative work on changes in the frequency with which they are used…
Feedback is ubiquitous in both biological and engineered control systems. In biology, in addition to typical feedback between plant and controller, we observe feedback pathways within control systems, which we call internal feedback…
In the 21st century, many of the crucial scientific and technical issues facing humanity can be understood as problems associated with understanding, modelling, and ultimately controlling complex systems: systems comprised of a large number…
Zipf's law establishes a scaling behavior for word-frequencies in large text corpora. The appearance of Zipfian properties in human language has been previously explained as an optimization problem for the interests of speakers and hearers.…
Molecular recognition, which is essential in processing information in biological systems, takes place in a crowded noisy biochemical environment and requires the recognition of a specific target within a background of various similar…
Unlike the traditional model of information pull, matchmaking is base on a cooperative partnership between information providers and consumers, assisted by an intelligent facilitator (the matchmaker). Refer to some experiments, the…