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» On Timed Models of Gene Networks
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TCS
2008
13 years 7 months ago
Temporal constraints in the logical analysis of regulatory networks
Starting from the logical description of gene regulatory networks developed by R. Thomas, we introduce an enhanced modelling approach based on timed automata. We obtain a refined ...
Heike Siebert, Alexander Bockmayr
BIOSYSTEMS
2007
115views more  BIOSYSTEMS 2007»
13 years 8 months ago
Evolving fuzzy rules to model gene expression
This paper develops an algorithm that extracts explanatory rules from microarray data, which we treat as time series, using genetic programming (GP) and fuzzy logic. Reverse polis...
Ricardo Linden, Amit Bhaya
BMCBI
2005
189views more  BMCBI 2005»
13 years 7 months ago
Quantitative inference of dynamic regulatory pathways via microarray data
Background: The cellular signaling pathway (network) is one of the main topics of organismic investigations. The intracellular interactions between genes in a signaling pathway ar...
Wen-Chieh Chang, Chang-Wei Li, Bor-Sen Chen
CSDA
2006
81views more  CSDA 2006»
13 years 7 months ago
Flexible temporal expression profile modelling using the Gaussian process
Time course gene expression experiments have proved valuable in a variety of biological studies [e.g., Chuang, Y., Chen, Y., Gadisetti, V., et al., 2002. Gene expression after tre...
Ming Yuan
GECCO
2005
Springer
180views Optimization» more  GECCO 2005»
14 years 1 months ago
Inference of gene regulatory networks using s-system and differential evolution
In this work we present an improved evolutionary method for inferring S-system model of genetic networks from the time series data of gene expression. We employed Differential Ev...
Nasimul Noman, Hitoshi Iba