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Biological phenomena differ significantly from physical phenomena. At the heart of this distinction is the fact that biological entities have computational abilities and thus they are inherently difficult to predict. This is the reason why…

Molecular Networks · Quantitative Biology 2009-09-29 Pau Fernandez , Ricard V. Sole

We propose a method to procedurally generate a familiar yet complex human artifact: the city. We are not trying to reproduce existing cities, but to generate artificial cities that are convincing and plausible by capturing developmental…

Graphics · Computer Science 2025-07-28 Thomas Lechner , Ben Watson , Uri Wilensky , Martin Felsen

Based on the oligomer-world hypothesis we propose an abstract model where the molecular recognition among oligomers is described in the shape space. The origin of life in the oligomer world is regarded as the establishment of a metabolic…

Subcellular Processes · Quantitative Biology 2012-09-21 Tomoaki Nishio , Osamu Narikiyo

With unprecedented advances in genetic engineering we are starting to see progressively more original examples of synthetic life. As such organisms become more common it is desirable to be able to distinguish between natural and artificial…

Other Computer Science · Computer Science 2016-11-28 Roman V. Yampolskiy

Many models for the origin of life have focused on understanding how evolution can drive the refinement of a preexisting enzyme, such as the evolution of efficient replicase activity. Here we present a model for what was, arguably, an even…

Biomolecules · Quantitative Biology 2012-12-20 Sara Imari Walker , Martha A. Grover , Nicholas V. Hud

The origins of life stands among the great open scientific questions of our time. While a number of proposals exist for possible starting points in the pathway from non-living to living matter, these have so far not achieved states of…

Populations and Evolution · Quantitative Biology 2017-05-24 Sara I. Walker

Attractor dynamics are a hallmark of many complex systems, including the brain. Understanding how such self-organizing dynamics emerge from first principles is crucial for advancing our understanding of neuronal computations and the design…

Neurons and Cognition · Quantitative Biology 2026-05-22 Tamas Spisak , Karl Friston

Recently it has been demonstrated that causal entropic forces can lead to the emergence of complex phenomena associated with human cognitive niche such as tool use and social cooperation. Here I show that even more fundamental traits…

Information Theory · Computer Science 2016-04-20 Fouad Khan

Prevailing accounts in both multi-agent AI and the social sciences explain social structure through top-down abstractions-such as institutions, norms, or trust-yet lack simulateable models of how such structures emerge from individual…

Computers and Society · Computer Science 2025-08-07 Egil Diau

Programming is a craft which often demands that learners engage in a significantly high level of individual practice and experimentation in order to acquire basic competencies. However, practice behaviours can be undermined during the early…

Computers and Society · Computer Science 2013-11-05 Michael James Scott , Gheorghita Ghinea

The minimal requirements for life are autopoiesis and cognition. We propose autopoietic models with cognition and perform three classes of evolutionary simulation. In our models the plasticity of the metabolic cycle and the regulation…

Cell Behavior · Quantitative Biology 2015-12-29 Hirotaka Matsufuji , Osamu Narikiyo

Biological and social systems are structured at multiple scales, and the incentives of individuals who interact in a group may diverge from the collective incentive of the group as a whole. Mechanisms to resolve this tension are responsible…

Populations and Evolution · Quantitative Biology 2023-05-31 Daniel B. Cooney , Simon A. Levin , Yoichiro Mori , Joshua B. Plotkin

Emergence is a pregnant property in various fields. It is the fact for a phenomenon to appear surprisingly and to be such that it seems at first sight that it is not possible to predict its apparition. That is the reason why it has often…

Computational Complexity · Computer Science 2023-08-23 Hervé Zwirn

Artificial Life provides the opportunity to study the emergence and evolution of simple ecosystems in real time. We give an overview of the advantages and limitations of such an approach, as well as its relation to individual-based modeling…

Biological Physics · Physics 2007-05-23 C. Adami

Simulations of the coevolution of many interacting species are performed using the Webworld model. The model has a realistic set of predator-prey equations that describe the population dynamics of the species for any structure of the food…

Adaptation and Self-Organizing Systems · Physics 2007-05-23 Christopher Quince , Paul G. Higgs , Alan J. McKane

Life is commonly described as a self-organized, far-from-equilibrium process that maintains internal order by consuming free energy and exporting entropy. This thermodynamic view underlies diverse theoretical frameworks -- from autopoiesis…

Biological Physics · Physics 2025-12-23 Didier Sornette , Virgile Troude

A biological circuit is a neural or biochemical cascade, taking inputs and producing outputs. How have biological circuits learned to solve environmental challenges over the history of life? The answer certainly follows Dobzhansky's famous…

Populations and Evolution · Quantitative Biology 2025-10-30 Steven A. Frank

Abiotic emergence of ordered information stored in the form of RNA is an important unresolved problem concerning the origin of life. A polymer longer than 40--100 nucleotides is necessary to expect a self-replicating activity, but the…

Populations and Evolution · Quantitative Biology 2020-02-04 Tomonori Totani

The possibility that evolutionary forces -- together with a few fundamental factors such as thermodynamic constraints, specific computational features enabling information processing, and ecological processes -- might constrain the logic of…

Biological Physics · Physics 2025-12-30 Manlio De Domenico

At the intersection of what I call uncomputable art and computational epistemology, a form of experimental philosophy, we find an exciting and promising area of science related to causation with an alternative, possibly best possible,…

Other Computer Science · Computer Science 2021-09-20 Hector Zenil