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Do Motifs Reflect Evolved Function? – No Convergent Evolution of Genetic Regulatory Network Subgraph Topologies
(2008-10)
Methods that analyse the topological structure of networks have recently become quite popular. Whether motifs (subgraph patterns that occur more often than in randomized networks) have specific functions as elementary ...
Evolution and morphogenesis of differentiated multicellular organisms: autonomously generated diffusion gradients for positional information
(MIT Press, 2008)
Development is the powerful process involving a genome in the transformation from one egg cell to a multicellular organism with many cell types. The dividing cells manage to organize and assign themselves special, ...
Regulation of gene regulation - smooth binding with dynamic affinity affects evolvability
(Institute of Electrical and Electronics Engineers (IEEE), 2008)
Bio-logic: gene expression and the laws of combinatorial logic
(2008)
At the heart of the development of fertilized eggs into fully formed organisms and the adaptation of cells to changed conditions are genetic regulatory networks (GRNs). In higher multi-cellular organisms, signal selection ...
Automatic Analysis of Computation in BioChemical Reactions
(2008)
We propose a modeling and analysis method for biochemical reactions based on finite state automata. This is a completely different approach compared to traditional modeling of reactions by differential equations. Our method ...
Genetic regulatory network models of biological clocks : evolutionary history matters
(2008)
We study the evolvability and dynamics of artificial genetic regulatory networks (GRNs), as active control systems, realizing simple models of biological clocks that have evolved to respond to periodic environmental stimuli ...
The Essential Motif that wasn't there: Topological and Lesioning Analysis of Evolved Genetic Regulatory Networks
(Institute of Electrical and Electronics Engineers (IEEE), 2007)
Evolving biological clocks using genetic regulatory networks
(MIT Press, 2006)
Evolutionary robustness of differentiation in genetic regulatory networks
(IOS Press, 2006)
We investigate the ability of artificial Genetic Regulatory Networks (GRNs) to evolve differentiation. The proposed GRN model supports non-linear interaction between regulating factors, thereby facilitating the realization ...