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The Role Of Criticality Of Gene Regulatory Networks On Emergent Properties Of Biological Systems, Hyobin Kim
The Role Of Criticality Of Gene Regulatory Networks On Emergent Properties Of Biological Systems, Hyobin Kim
Graduate Dissertations and Theses
The relationship between criticality of gene regulatory networks (GRNs) and dynamics of GRNs at a single cell level has been vigorously studied. However, the relationship between the criticality of GRNs and properties of multicellular organisms at a higher level has not been fully explored. Here we aim at revealing potential roles of the criticality of GRNs at a multicellular and hierarchical level, using a random Boolean network as a GRN. We perform three studies. Firstly, we propose a GRN-based morphogenetic model, and delve into the role of the criticality of GRNs in morphogenesis at a multicellular level. Secondly, we include …
Robustness Of Complex Networks To Global Perturbations, Samuel Heiserman
Robustness Of Complex Networks To Global Perturbations, Samuel Heiserman
Graduate Dissertations and Theses
This thesis studies the robustness of complex dynamical networks with non-trivial topologies against global perturbations, following Robert May’s seminal work on network stability, in order to find critical stability thresholds of global perturbations and to determine if their impact varies across different network topologies. Numerical analysis is used as the primary research method. Dynamical networks are randomly generated in the form of a coefficient matrix of stable linear differential equations. The networks are then inflicted with global perturbation (i.e., addition of another random matrix with varying magnitudes) and their stabilities are tested for each perturbation magnitude, to determine at what …
Modeling Collective Dynamics Of Social Systems: Incorporating Various Social Mechanisms Into Agent-Based Models, Dene L. Farrell
Modeling Collective Dynamics Of Social Systems: Incorporating Various Social Mechanisms Into Agent-Based Models, Dene L. Farrell
Graduate Dissertations and Theses
I present three original papers demonstrating complex behavior arising from collective dynamics in agent-based models (ABM) focusing on evolutionary and cognitive mechanisms. The first report demonstrates the coupled emergence of cooperation and selfish punishment behavior in groups of individuals playing an iterated public goods game. The second report demonstrates the effects of mental modeling within groups of decision makers. The third report demonstrates a synthesis of evolutionary and cognitive mechanisms.
Genetic Stigmergy: Framework And Applications, Joshua A. Brandoff
Genetic Stigmergy: Framework And Applications, Joshua A. Brandoff
Graduate Dissertations and Theses
Stigmergy has long been studied and recognized as an effective system for self-organization among social insects. Through the use of chemical agents known as pheromones, insect colonies are capable of complex collective behavior often beyond the scope of an individual agent. In an effort to develop human-made systems with the same robustness, scientists have created artificial analogues of pheromone-based stigmergy, but these systems often suffer from scalability and complexity issues due to the problems associated with mimicking the physics of pheromone diffusion. In this thesis, an alternative stigmergic framework called 'Genetic Stigmergy' is introduced. Using this framework, agents can indirectly …