Neutral network
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Genetic Correlations Greatly Increase Mutational Robustness and Can Both Reduce and Enhance Evolvability Open
Mutational neighbourhoods in genotype-phenotype (GP) maps are widely believed to be more likely to share characteristics than expected from random chance. Such genetic correlations should strongly influence evolutionary dynamics. We explor…
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Fault protection method of single-phase break for distribution network considering the influence of neutral grounding modes Open
With the rapid development of modern distribution network and the access of distributed generation, the network structure is becoming increasingly complex. Frequent single-phase break faults have seriously affected equipment and personal s…
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Deterministic learning enhanced neutral network control of unmanned helicopter Open
In this article, a neural network–based tracking controller is developed for an unmanned helicopter system with guaranteed global stability in the presence of uncertain system dynamics. Due to the coupling and modeling uncertainties of the…
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Beyond the Hypercube: Evolutionary Accessibility of Fitness Landscapes with Realistic Mutational Networks Open
Evolutionary pathways describe trajectories of biological evolution in the space of different variants of organisms (genotypes). The probability of existence and the number of evolutionary pathways that lead from a given genotype to a bett…
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Spatial and temporal model for WQI prediction based on back-propagation neural network, application on EL MERK region (Algerian southeast) Open
For the aims of evaluate the groundwater suitability for human consumption, and modelling the water quality index, temporally and spatially, using Artificial Neural Network. 37 samples were harvested from eight different wells in the regio…
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Evolvability and robustness: A paradox restored Open
Evolvability and robustness are crucial for the origin and maintenance of complex organisms, but may not be simultaneously achievable as robust traits are also hard to change. Andreas Wagner has proposed a solution to this paradox by argui…
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Nonlinear Dynamics in Gene Regulation Promote Robustness and Evolvability of Gene Expression Levels Open
Cellular phenotypes underpinned by regulatory networks need to respond to evolutionary pressures to allow adaptation, but at the same time be robust to perturbations. This creates a conflict in which mutations affecting regulatory networks…
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Experimental exploration of a ribozyme neutral network using evolutionary algorithm and deep learning Open
A neutral network connects all genotypes with equivalent phenotypes in a fitness landscape and plays an important role in the mutational robustness and evolvability of biomolecules. In contrast to earlier theoretical works, evidence of lar…
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System drift and speciation Open
Even if a species’ phenotype does not change over evolutionary time, the underlying mechanism may change, as distinct molecular pathways can realize identical phenotypes. Here we use linear system theory to explore the consequences of this…
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Effect of Host Species on Topography of the Fitness Landscape for a Plant RNA Virus Open
Adaptive fitness landscapes are a fundamental concept in evolutionary biology that relate the genotypes of individuals to their fitness. In the end, the evolutionary fate of evolving populations depends on the topography of the landscape, …
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Adding levels of complexity enhances robustness and evolvability in a multilevel genotype–phenotype map Open
Robustness and evolvability are the main properties that account for the stability and accessibility of phenotypes. They have been studied in a number of computational genotype–phenotype maps. In this paper, we study a metabolic genotype–p…
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Populations of genetic circuits are unable to find the fittest solution in a multilevel genotype–phenotype map Open
The evolution of gene regulatory networks (GRNs) is of great relevance for both evolutionary and synthetic biology. Understanding the relationship between GRN structure and its function can allow us to understand the selective pressures th…
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An Intelligent Site Selection Model for Hydrogen Refueling Stations Based on Fuzzy Comprehensive Evaluation and Artificial Neural Network—A Case Study of Shanghai Open
With the gradual popularization of hydrogen fuel cell vehicles (HFCVs), the construction and planning of hydrogen refueling stations (HRSs) are increasingly important. Taking operational HRSs in China’s coastal and major cities as examples…
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Neutrality and epistasis in program space Open
Neutral networks in biology often contain diverse solutions with equal fitness, which can be useful when environments (requirements) change over time. In this paper, we present a method for studying neutral networks in software. In these n…
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Insertions and deletions in the RNA sequence–structure map Open
Genotype–phenotype maps link genetic changes to their fitness effect and are thus an essential component of evolutionary models. The map between RNA sequences and their secondary structures is a key example and has applications in function…
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Inferring human neutral genetic variation from craniodental phenotypes Open
There is a growing consensus that global patterns of modern human cranial and dental variation are shaped largely by neutral evolutionary processes, suggesting that craniodental features can be used as reliable proxies for inferring popula…
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Interpreting generative adversarial networks to infer natural selection from genetic data Open
Understanding natural selection and other forms of non-neutrality is a major focus for the use of machine learning in population genetics. Existing methods rely on computationally intensive simulated training data. Unlike efficient neutral…
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Recombination and mutational robustness in neutral fitness landscapes Open
Mutational robustness quantifies the effect of random mutations on fitness. When mutational robustness is high, most mutations do not change fitness or have only a minor effect on it. From the point of view of fitness landscapes, robust ge…
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Evolution enhances mutational robustness and suppresses the emergence of a new phenotype: A new computational approach for studying evolution Open
The aim of this paper is two-fold. First, we propose a new computational method to investigate the particularities of evolution. Second, we apply this method to a model of gene regulatory networks (GRNs) and explore the evolution of mutati…
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Using small samples to estimate neutral component size and robustness in the genotype–phenotype map of RNA secondary structure Open
In genotype–phenotype (GP) maps, the genotypes that map to the same phenotype are usually not randomly distributed across the space of genotypes, but instead are predominantly connected through one-point mutations, forming network componen…
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Strong neutral sweeps occurring during a population contraction Open
A strong reduction in diversity around a specific locus is often interpreted as a recent rapid fixation of a positively selected allele, a phenomenon called a selective sweep. Rapid fixation of neutral variants can however lead to a simila…
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Further stability analysis of neutral-type Cohen-Grossberg neural networks with multiple delays Open
The key contribution of this paper is to study the stability analysis of neutral-type Cohen-Grossberg neural networks possessing multiple time delays in the states of the neurons and multiple neutral delays in time derivative of states of …
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Evolvability and complexity properties of the digital circuit genotype-phenotype map Open
Recent research on genotype-phenotype (G-P) maps in natural evolution has contributed significantly to our understanding of neutrality, redundancy, robustness, and evolvability. Here we investigate the properties of the digital logic gate …
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A New Method to Monitor the Primary Neutral Integrity in Multi-Grounded Neutral Systems Open
In the three-phase four-wire system, there are usually multiple grounding points in the primary neutral line due to safety and economic considerations. The rising “neutral to earth voltage (NEV)” caused by a broken primary neutral can thre…
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A new approach to fault-line selection of small current neutral grounding system Open
In this paper, a new approach combining BP neural network with fuzzy Petri net (FPN) is developed to deal with the issue of fault-line selection of the small current neutral grounding system. First, the preliminaries of the FPN are briefly…
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Fast free-energy-based neutral set size estimates for the RNA genotype–phenotype map Open
The genotype–phenotype (GP) map of RNA secondary structure links each RNA sequence to its corresponding secondary structure. Previous research has shown that the large-scale structural properties of GP maps, such as the size of neutral set…
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The non-deterministic genotype–phenotype map of RNA secondary structure Open
Selection and variation are both key aspects in the evolutionary process. Previous research on the mapping between molecular sequence (genotype) and molecular fold (phenotype) has shown the presence of several structural properties in diff…
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Neutral components show a hierarchical community structure in the genotype–phenotype map of RNA secondary structure Open
Genotype–phenotype (GP) maps describe the relationship between biological sequences and structural or functional outcomes. They can be represented as networks in which genotypes are the nodes, and one-point mutations between them are the e…
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The structure of genotype-phenotype maps makes fitness landscapes navigable Open
Fitness landscapes are often described in terms of ‘peaks’ and ‘valleys’, implying an intuitive low-dimensional landscape of the kind encountered in everyday experience. The space of genotypes, however, is extremely high-dimensional, which…
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Neuroevolution in Deep Learning: The Role of Neutrality Open
A variety of methods have been applied to the architectural configuration and learning or training of artificial deep neural networks (DNN). These methods play a crucial role in the success or failure of the DNN for most problems and appli…