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Artificial Life

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https://read.qxmd.com/read/30681915/artificial-gene-regulatory-networks-a-review
#1
Sylvain Cussat-Blanc, Kyle Harrington, Wolfgang Banzhaf
In nature, gene regulatory networks are a key mediator between the information stored in the DNA of living organisms (their genotype) and the structural and behavioral expression this finds in their bodies, surviving in the world (their phenotype). They integrate environmental signals, steer development, buffer stochasticity, and allow evolution to proceed. In engineering, modeling and implementations of artificial gene regulatory networks have been an expanding field of research and development over the past few decades...
January 25, 2019: Artificial Life
https://read.qxmd.com/read/30681914/examining-community-stability-in-the-face-of-mass-extinction-in-communities-of-digital-organisms
#2
Tian-Tong Luo, Lise Heier, Zaki Ahmad Khan, Faraz Hasan, Trond Reitan, Abdool S Yasseen, Zi-Xuan Xie, Jian-Long Zhu, Gabriel Yedid
Digital evolution is a computer-based instantiation of Darwinian evolution in which short self-replicating computer programs compete, mutate, and evolve. It is an excellent platform for addressing topics in long-term evolution and paleobiology, such as mass extinction and recovery, with experimental evolutionary approaches. We evolved model communities with ecological interdependence among community members, which were subjected to two principal types of mass extinction: a pulse extinction that killed randomly, and a selective press extinction involving an alteration of the abiotic environment to which the communities had to adapt...
January 25, 2019: Artificial Life
https://read.qxmd.com/read/30681913/moderate-environmental-variation-across-generations-promotes-the-evolution-of-robust-solutions
#3
Nicola Milano, Jônata Tyska Carvalho, Stefano Nolfi
Previous evolutionary studies demonstrated how robust solutions can be obtained by evaluating agents multiple times in variable environmental conditions. Here we demonstrate how agents evolved in environments that vary across generations outperform agents evolved in environments that remain fixed. Moreover, we demonstrate that best performance is obtained when the environment varies at a moderate rate across generations, that is, when the environment does not vary every generation but every N generations. The advantage of exposing evolving agents to environments that vary across generations at a moderate rate is due, at least in part, to the fact that this condition maximizes the retention of changes that alter the behavior of the agents, which in turn facilitates the discovery of better solutions...
January 25, 2019: Artificial Life
https://read.qxmd.com/read/30681912/spatial-structure-can-decrease-symbiotic-cooperation
#4
Anya E Vostinar, Charles Ofria
Mutualisms occur when at least two species provide a net fitness benefit to each other. These types of interactions are ubiquitous in nature, with more being discovered regularly. Mutualisms are vital to humankind: Pollinators and soil microbes are critical in agriculture, bacterial microbiomes regulate our health, and domesticated animals provide us with food and companionship. Many hypotheses exist on how mutualisms evolve; however, they are difficult to evaluate without bias, due to the fragile and idiosyncratic systems most often investigated...
January 25, 2019: Artificial Life
https://read.qxmd.com/read/30485145/measuring-fitness-effects-of-agent-environment-interactions
#5
Simon McGregor, Pedro A M Mediano
One important sense of the term "adaptation" is the process by which an agent changes appropriately in response to new information provided by environmental stimuli. We propose a novel quantitative measure of this phenomenon, which extends a little-known definition of adaptation as "increased robustness to repeated perturbation" proposed by Klyubin (2002). Our proposed definition essentially corresponds to the average value (relative to some fitness function) of state changes that are caused by the environment (in some statistical ensemble of environments)...
2018: Artificial Life
https://read.qxmd.com/read/30485144/adaptation-is-not-just-improvement-over-time
#6
Simon McGregor, Pedro A M Mediano
The idea that an agent's actions can impact its actual long-term survival is a very appealing one, underlying influential treatments such as Di Paolo's (2005). However, this presents a tension with understanding the agent and environment as possessing specific objective physical microstates. More specifically, we show that such an approach leads to undesirable outcomes, for example, all organisms being maladaptive on average. We suggest that this problematic intuition of improvement over time may stem from Bayesian inference...
2018: Artificial Life
https://read.qxmd.com/read/30485143/bringing-alife-and-complex-systems-science-to-population-health-research
#7
Eric Silverman
Despite tremendous advancements in population health in recent history, human society currently faces significant challenges from wicked health problems. These are problems where the causal mechanisms at play are obscured and difficult to address, and consequently they have defied efforts to develop effective interventions and policy solutions using traditional population health methods. Systems-based perspectives are vital to the development of effective policy solutions to seemingly intractable health problems like obesity and population aging...
2018: Artificial Life
https://read.qxmd.com/read/30485142/erratum
#8
(no author information available yet)
No abstract text is available yet for this article.
2018: Artificial Life
https://read.qxmd.com/read/30485141/moving-from-overwhelming-to-actionable-complexity-in-population-health-policy-can-alife-help
#9
Alexandra Penn
No abstract text is available yet for this article.
2018: Artificial Life
https://read.qxmd.com/read/30485140/the-emergence-of-canalization-and-evolvability-in-an-open-ended-interactive-evolutionary-system
#10
Joost Huizinga, Kenneth O Stanley, Jeff Clune
Many believe that an essential component for the discovery of the tremendous diversity in natural organisms was the evolution of evolvability, whereby evolution speeds up its ability to innovate by generating a more adaptive pool of offspring. One hypothesized mechanism for evolvability is developmental canalization, wherein certain dimensions of variation become more likely to be traversed and others are prevented from being explored (e.g., offspring tend to have similar-size legs, and mutations affect the length of both legs, not each leg individually)...
2018: Artificial Life
https://read.qxmd.com/read/29664349/signaling-games-and-the-evolution-of-structure-in-language-and-music-a-reply-to-ravignani-and-verhoef-2018-%C3%A2
#11
Massimo Lumaca, Giosuè Baggio
In their commentary on our work, Ravignani and Verhoef (2018) raise concerns about two methodological aspects of our experimental paradigm (the signaling game): (1) the use of melodic signals of fixed length and duration, and (2) the fact that signals are endowed with meaning. They argue that music is hardly a semantic system and that our methodological choices may limit the capacity of our paradigm to shed light on the emergence and evolution of a number of putative musical universals. We reply that musical systems are semantic systems and that the aim of our research is not to study musical universals as such, but to compare more closely the kinds of principles that organize meaning and structure in linguistic and musical systems...
2018: Artificial Life
https://read.qxmd.com/read/29664348/methods-for-measuring-viability-and-evaluating-viability-indicators
#12
Matthew D Egbert, Juan Pérez-Mercader
Life and other dissipative structures involve nonlinear dynamics that are not amenable to conventional analysis. Advances are being made in theory, modeling, and simulation techniques, but we do not have general principles for designing, controlling, stabilizing, or eliminating these systems. There is thus a need for tools that can transform high-level descriptions of these systems into useful guidance for their modification and design. In this article we introduce new methods for quantifying the viability of dissipative structures...
2018: Artificial Life
https://read.qxmd.com/read/29664347/which-melodic-universals-emerge-from-repeated-signaling-games-a-note-on-lumaca-and-baggio-2017-%C3%A2
#13
Andrea Ravignani, Tessa Verhoef
Music is a peculiar human behavior, yet we still know little as to why and how music emerged. For centuries, the study of music has been the sole prerogative of the humanities. Lately, however, music is being increasingly investigated by psychologists, neuroscientists, biologists, and computer scientists. One approach to studying the origins of music is to empirically test hypotheses about the mechanisms behind this structured behavior. Recent lab experiments show how musical rhythm and melody can emerge via the process of cultural transmission...
2018: Artificial Life
https://read.qxmd.com/read/29664346/an-agent-based-model-for-the-role-of-short-term-memory-enhancement-in-the-emergence-of-grammatical-agreement
#14
Javier Vera
What is the influence of short-term memory enhancement on the emergence of grammatical agreement systems in multi-agent language games? Agreement systems suppose that at least two words share some features with each other, such as gender, number, or case. Previous work, within the multi-agent language-game framework, has recently proposed models stressing the hypothesis that the emergence of a grammatical agreement system arises from the minimization of semantic ambiguity. On the other hand, neurobiological evidence argues for the hypothesis that language evolution has mainly related to an increasing of short-term memory capacity, which has allowed the online manipulation of words and meanings participating particularly in grammatical agreement systems...
2018: Artificial Life
https://read.qxmd.com/read/29664345/a-micro-level-data-calibrated-agent-based-model-the-synergy-between-microsimulation-and-agent-based-modeling
#15
Karandeep Singh, Chang-Won Ahn, Euihyun Paik, Jang Won Bae, Chun-Hee Lee
Artificial life (ALife) examines systems related to natural life, its processes, and its evolution, using simulations with computer models, robotics, and biochemistry. In this article, we focus on the computer modeling, or "soft," aspects of ALife and prepare a framework for scientists and modelers to be able to support such experiments. The framework is designed and built to be a parallel as well as distributed agent-based modeling environment, and does not require end users to have expertise in parallel or distributed computing...
2018: Artificial Life
https://read.qxmd.com/read/29664344/how-criticality-of-gene-regulatory-networks-affects-the-resulting-morphogenesis-under-genetic-perturbations
#16
Hyobin Kim, Hiroki Sayama
Whereas the relationship between criticality of gene regulatory networks (GRNs) and dynamics of GRNs at a single-cell level has been vigorously studied, the relationship between the criticality of GRNs and system properties at a higher level has not been fully explored. Here we aim at revealing a potential role of criticality of GRNs in morphogenesis, which is hard to uncover through the single-cell-level studies, especially from an evolutionary viewpoint. Our model simulated the growth of a cell population from a single seed cell...
2018: Artificial Life
https://read.qxmd.com/read/29369716/social-learning-and-cultural-evolution-in-artificial-life
#17
Chris Marriott, James M Borg, Peter Andras, Paul E Smaldino
We describe the questions and discussions raised at the First Workshop on Social Learning and Cultural Evolution held at theArtificial Life Conference 2016 in Cancún, Mexico in July 2016. The purpose of the workshop was to assemble artificial life researchers interested in social learning and cultural evolution into one group so that we could focus on recent work and interesting open questions. Our discussion related to both the mechanisms of social learning and cultural evolution and the consequences and influence of social learning and cultural evolution on living systems...
2018: Artificial Life
https://read.qxmd.com/read/29369715/the-institutional-approach-for-modeling-the-evolution-of-human-societies
#18
Simon T Powers
Artificial life is concerned with understanding the dynamics of human societies. A defining feature of any society is its institutions. However, defining exactly what an institution is has proven difficult, with authors often talking past each other. This article presents a dynamic model of institutions, which views them as political game forms that generate the rules of a group's economic interactions. Unlike most prior work, the framework presented here allows for the construction of explicit models of the evolution of institutional rules...
2018: Artificial Life
https://read.qxmd.com/read/29369714/robustness-and-contingent-history-from-prisoner-s-dilemma-to-gaia-theory
#19
Inman Harvey
In both social systems and ecosystems there is a need to resolve potential conflicts between the interests of individuals and the collective interest of the community. The collective interests need to survive the turbulent dynamics of social and ecological interactions. To see how different systems with different sets of interactions have different degrees of robustness, we need to look at their different contingent histories. We analyze abstract artificial life models of such systems, and note that some prominent examples rely on explicitly ahistorical frameworks; we point out where analyses that ignore a contingent historical context can be fatally flawed...
2018: Artificial Life
https://read.qxmd.com/read/29369713/alife-and-society-editorial-introduction-to-the-artificial-life-conference-2016-special-issue
#20
Jesús M Siqueiros-García, Tom Froese, Carlos Gershenson, Wendy Aguilar, Hiroki Sayama, Eduardo Izquierdo
No abstract text is available yet for this article.
2018: Artificial Life
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