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BMCBI
2010
172views more  BMCBI 2010»
14 years 13 days ago
Comparison of evolutionary algorithms in gene regulatory network model inference
Background: The evolution of high throughput technologies that measure gene expression levels has created a data base for inferring GRNs (a process also known as reverse engineeri...
Alina Sîrbu, Heather J. Ruskin, Martin Crane
GECCO
2008
Springer
179views Optimization» more  GECCO 2008»
14 years 1 months ago
Evolution of discrete gene regulatory models
Gene regulatory networks (GRNs) are complex control systems that govern the interaction of genes, which ultimately control cellular processes at the protein level. GRNs can be ted...
Afshin Esmaeili, Christian Jacob
CMSB
2006
Springer
14 years 4 months ago
Incorporating Time Delays into the Logical Analysis of Gene Regulatory Networks
Based on the logical description of gene regulatory networks developed by R. Thomas, we introduce an enhanced modelling approach that uses timed automata. It yields a refined quali...
Heike Siebert, Alexander Bockmayr
GECCO
2009
Springer
146views Optimization» more  GECCO 2009»
14 years 4 months ago
Evolving specific network statistical properties using a gene regulatory network model
Abstract. The generation of network topologies with specific, userspecified statistical properties is the aim of this paper. This is achieved through the use of an artifical Gene R...
Miguel Nicolau, Marc Schoenauer
CEC
2009
IEEE
14 years 4 months ago
A model for intrinsic artificial development featuring structural feedback and emergent growth
Abstract--A model for intrinsic artificial development is introduced in this paper. The proposed model features a novel mechanism where growth emerges, rather than being triggered ...
Martin Trefzer, Tüze Kuyucu, Julian Francis M...
GECCO
2004
Springer
164views Optimization» more  GECCO 2004»
14 years 5 months ago
Fuzzy Dominance Based Multi-objective GA-Simplex Hybrid Algorithms Applied to Gene Network Models
Hybrid algorithms that combine genetic algorithms with the Nelder-Mead simplex algorithm have been effective in solving certain optimization problems. In this article, we apply a s...
Praveen Koduru, Sanjoy Das, Stephen Welch, Judith ...
ECCB
2008
IEEE
14 years 6 months ago
SIRENE: supervised inference of regulatory networks
Living cells are the product of gene expression programs that involve the regulated transcription of thousands of genes. The elucidation of transcriptional regulatory networks in ...
Fantine Mordelet, Jean-Philippe Vert
RECOMB
2005
Springer
15 years 18 days ago
Comparative Systems Biology of the Sporulation Initiation Network in Prokaryotes
Many years of experimental and computational molecular biology of model organisms such as Escherichia coli and Saccharomyces cerevisiae has elucidated the gene regulatory network i...
Michiel J. L. de Hoon, Dennis Vitkup