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Genetic Regulatory Networks (GRNs) plays a vital role in the understanding of complex biological processes. Modeling GRNs is significantly important in order to reveal fundamental cellular processes, examine gene functions and understanding…

Computational Engineering, Finance, and Science · Computer Science 2012-05-10 Khalid Raza , Rafat Parveen

Regulatory interactions between genes show a large amount of cross-species variability, even when the underlying functions are conserved: There are many ways to achieve the same function. Here we investigate the ability of regulatory…

Molecular Networks · Quantitative Biology 2015-05-13 Franck Stauffer , Johannes Berg

Here we propose an evolutionary algorithm that self modifies its operators at the same time that candidate solutions are evolved. This tackles convergence and lack of diversity issues, leading to better solutions. Operators are represented…

Neural and Evolutionary Computing · Computer Science 2017-12-19 Andres Felipe Cruz Salinas , Jonatan Gomez Perdomo

Genetic Programming (GP) is an evolutionary algorithm commonly used for machine learning tasks. In this paper we present a method that allows GP to transform the representation of a large-scale machine learning dataset into a more compact…

Neural and Evolutionary Computing · Computer Science 2018-02-21 Lino Rodriguez-Coayahuitl , Alicia Morales-Reyes , Hugo Jair Escalante

A new model for evolving Evolutionary Algorithms is proposed in this paper. The model is based on the Linear Genetic Programming (LGP) technique. Every LGP chromosome encodes an EA which is used for solving a particular problem. Several…

Neural and Evolutionary Computing · Computer Science 2021-09-28 Mihai Oltean

Genetic programming (GP) is an evolutionary computation technique to solve problems in an automated, domain-independent way. Rather than identifying the optimum of a function as in more traditional evolutionary optimization, the aim of GP…

Neural and Evolutionary Computing · Computer Science 2019-05-15 Andrei Lissovoi , Pietro S. Oliveto

The concept of extended cloud requires efficient network infrastructure to support ecosystems reaching form the edge to the cloud(s). Standard approaches to network load balancing deliver static solutions that are insufficient for the…

Networking and Internet Architecture · Computer Science 2023-07-20 Marek Bolanowski , Alicja Gerka , Andrzej Paszkiewicz , Maria Ganzha , Marcin Paprzycki

The evolutionary origins of structural features in reconstructed gene-regulatory networks (GRNs) remain poorly understood, especially given the random aspects of gene expression. Here, we extend a classical model of GRN evolution to allow a…

Populations and Evolution · Quantitative Biology 2026-04-30 Leonardo Ivan Estrella Dzib , James Holehouse

Existing genetic programming (GP) methods are typically designed based on a certain representation, such as tree-based or linear representations. These representations show various pros and cons in different domains. However, due to the…

Neural and Evolutionary Computing · Computer Science 2025-05-30 Zhixing Huang , Yi Mei , Fangfang Zhang , Mengjie Zhang , Wolfgang Banzhaf

In this paper, we consider the problem of optimal exogenous control of gene regulatory networks. Our approach consists in adapting an established reinforcement learning algorithm called the fitted Q iteration. This algorithm infers the…

Systems and Control · Computer Science 2015-02-26 Aivar Sootla , Natalja Strelkowa , Damien Ernst , Mauricio Barahona , Guy-Bart Stan

We study a genetic regulatory network model developed to demonstrate that genetic robustness can evolve through stabilizing selection for optimal phenotypes. We report preliminary results on whether such selection could result in a…

Molecular Networks · Quantitative Biology 2010-12-07 Volkan Sevim , Per Arne Rikvold

The significant role of epigenetic mechanisms within natural systems has become increasingly clear. This paper uses a recently presented abstract, tunable Boolean genetic regulatory network model to explore aspects of epigenetics. It is…

Neural and Evolutionary Computing · Computer Science 2013-06-21 Larry Bull

We consider evolution of a large population, where fitness of each organism is defined by many phenotypical traits. These traits result from expression of many genes. We propose a new model of gene regulation, where gene expression is…

Populations and Evolution · Quantitative Biology 2016-09-29 John Reinitz , Sergey Vakulenko , Dmitri Grigoriev , Andreas Weber

Genetic regulatory networks enable cells to respond to the changes in internal and external conditions by dynamically coordinating their gene expression profiles. Our ability to make quantitative measurements in these biochemical circuits…

Biological Physics · Physics 2015-03-17 Aleksandra M Walczak , Gašper Tkačik

This paper presents a reinforced genetic approach to a defined d-resource system optimization problem. The classical evolution schema was ineffective due to a very strict feasibility function in the studied problem. Hence, the presented…

Neural and Evolutionary Computing · Computer Science 2025-11-07 Leszek Sliwko

The behaviour of gene regulatory networks (GRNs) is typically analysed using simulation-based statistical testing-like methods. In this paper, we demonstrate that we can replace this approach by a formal verification-like method that gives…

Computational Engineering, Finance, and Science · Computer Science 2015-01-19 Mirco Giacobbe , Calin C. Guet , Ashutosh Gupta , Thomas A. Henzinger , Tiago Paixao , Tatjana Petrov

There is a growing body of work considering the use of representations based upon genetic regulatory networks. This paper uses a recently presented abstract, tunable Boolean regulatory network model to explore aspects of mobile DNA, such as…

Emerging Technologies · Computer Science 2013-03-29 Larry Bull

In this paper we present a novel tool to evaluate problem solving systems. Instead of using a system to solve a problem, we suggest using the problem to evaluate the system. By finding a numerical representation of a problem's complexity,…

Neural and Evolutionary Computing · Computer Science 2007-05-23 Goren Gordon , Uri Einziger-Lowicz

In Evolutionary Game Theory (EGT), a population reaches a Nash equilibrium when none of the agents can improve its objective by solely changing its strategy on its own. Roughly speaking, this equilibrium is a protection against betrayal.…

Computer Science and Game Theory · Computer Science 2025-04-24 Alejandro Luque-Cerpa , Miguel A. Gutiérrez-Naranjo

Neural networks and evolutionary computation have a rich intertwined history. They most commonly appear together when an evolutionary algorithm optimises the parameters and topology of a neural network for reinforcement learning problems,…

Neural and Evolutionary Computing · Computer Science 2016-04-15 Alexander W. Churchill , Siddharth Sigtia , Chrisantha Fernando
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