Relevant bibliographies by topics / Genetic regulatory networks / Dissertations / Theses
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Dissertations / Theses on the topic 'Genetic regulatory networks'

Author: Grafiati
Published: 4 June 2021
Last updated: 28 January 2023

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1

Bokes, Pavol. "Genetic regulatory networks." Thesis, University of Nottingham, 2010. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.523016.

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2

Abul, Osman. "Controlling Discrete Genetic Regulatory Networks." Phd thesis, METU, 2005. http://etd.lib.metu.edu.tr/upload/12605739/index.pdf.

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Genetic regulatory networks can model dynamics of cells. They also allow for studying the effect of internal or external interventions. Selectively applying interventions towards a certain objective is known as controlling network dynamics. In this thesis work, the issue of how the external interventions af fect the network is studied. The effects are determined using differential gene expression analysis. The differential gene expression problem is further studied to improve the power of the given method. Control problem for dynamic discrete regulatory networks is formulated. This also addres
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3

Xiao, Yufei. "Boolean models for genetic regulatory networks." [College Station, Tex. : Texas A&M University, 2007. http://hdl.handle.net/1969.1/ETD-TAMU-1498.

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4

Pal, Ranadip. "Discovering relationships in genetic regulatory networks." Thesis, Texas A&M University, 2004. http://hdl.handle.net/1969.1/1230.

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The development of cDNA microarray technology has made it possible to simultaneously monitor the expression status of thousands of genes. A natural use for this vast amount of information would be to try and figure out inter-gene relationships by studying the gene expression patterns across different experimental conditions and to build Gene Regulatory Networks from these data. In this thesis, we study some of the issues involved in Genetic Regulatory Networks. One of them is to discover and elucidate multivariate logical predictive relations among gene expressions and to demonstrate how these
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5

Pal, Ranadip. "Modeling and control of genetic regulatory networks." Thesis, [College Station, Tex. : Texas A&M University, 2007. http://hdl.handle.net/1969.1/ETD-TAMU-1494.

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6

Parmar, Kiresh. "Time-delayed models of genetic regulatory networks." Thesis, University of Sussex, 2017. http://sro.sussex.ac.uk/id/eprint/70716/.

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In this thesis I have analysed several mathematical models, which represent the dynamics of genetic regulatory networks. Methods of bifurcation analysis and direct numerical simulations were employed to study the biological phenomena that can occur due to the presence of time delays, such as stable periodic oscillations induced by Hopf bifurcations. To highlight the biological implications of time-delayed systems, different models of genetic regulatory networks as relevant to the onset and development of cancer were studied in detail, as well as genetic regulatory networks which describe the e
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7

Zhao, Dacheng. "Representation and visualization of genetic regulatory networks." Thesis, Massachusetts Institute of Technology, 2004. http://hdl.handle.net/1721.1/42131.

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Thesis (M. Eng.)--Massachusetts Institute of Technology, Dept. of Electrical Engineering and Computer Science, 2004.<br>Includes bibliographical references (leaves 61-65).<br>We present a new framework, Sonnet, for the interactive visualization of large, complex biological models that are represented as graphs. Sonnet provides a flexible representation framework and graphical user interface for filtering and layout, allowing users to rapidly visualize different aspects of a data set. Many previous approaches have required users to write customized software in order to achieve the same function
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8

Zhang, Shuqin. "Mathematical models and algorithms for genetic regulatory networks." Click to view the E-thesis via HKUTO, 2007. http://sunzi.lib.hku.hk/hkuto/record/B38842828.

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9

Zhang, Shuqin, and 張淑芹. "Mathematical models and algorithms for genetic regulatory networks." Thesis, The University of Hong Kong (Pokfulam, Hong Kong), 2007. http://hub.hku.hk/bib/B38842828.

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10

Santos, Bruno Acácio de Castro Moreira dos. "Small RNAs in gene regulatory networks." Thesis, University of Cambridge, 2015. https://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.708543.

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11

Li, Jiewei, and 李劼伟. "Stability analysis of uncertain genetic regulatory newtworks." Thesis, The University of Hong Kong (Pokfulam, Hong Kong), 2013. http://hub.hku.hk/bib/B50899788.

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Genetic regulatory network (GRN) is a fundamental research area in systems biology. This thesis studies the stability of a class of GRN models. First, a condition is proposed to ensure the robust stability of uncertain GRNs with SUM regulatory functions. It is assumed that the uncertainties are in the form of a parameter vector that determines the coefficients of the model via given functions. Then, the global asymptotic stability conditions of uncertain GRNs affected by disturbances and time delays are further explored. The conditions are obtained by solving a convex optimization problem
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12

Weiss, Ron 1970. "Cellular computation and communications using engineered genetic regulatory networks." Thesis, Massachusetts Institute of Technology, 2001. http://hdl.handle.net/1721.1/8228.

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Thesis (Ph. D.)--Massachusetts Institute of Technology, Dept. of Electrical Engineering and Computer Science, 2001.<br>Includes bibliographical references (p. 130-138).<br>In this thesis, I present an engineering discipline for obtaining complex, predictable, and reliable cell behaviors by embedding biochemical logic circuits and programmed intercellular communications into cells. To accomplish this goal, I provide a well-characterized component library, a biocircuit design methodology, and software design tools. I have built and characterized an initial cellular gate library with biochemical
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13

Wang, Yifei. "Evolutionary innovations and dynamics in Wagner's model of Genetic Regulatory Networks." Thesis, University of Bath, 2016. https://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.687330.

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The gene regulatory network (GRN) controls the expression of genes providing phenotypic traits in living organisms. In particular, transcriptional regulation is essential to life, as it governs all levels of gene products that enable cell survival and numerous cellular functions. However, there is still poor understanding of how shifts in gene regulation alter the underlying evolutionary dynamics and consequently generate evolutionary innovations. By employing Wagner's GRN model, this dissertation investigates how the interplay of simple evolutionary forces (mutation and recombination) with na
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14

Banks, Richard A. "Qualitatively modelling genetic regulatory networks : Petri net techniques and tools." Thesis, University of Newcastle Upon Tyne, 2009. http://hdl.handle.net/10443/2108.

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The development of post-genomic technologies has led to a paradigm shift in the way we study genetic regulatory networks (GRNs) - the underlying systems which mediate cell function. To complement this, the focus is on devising scalable, unambiguous and automated formal techniques for holistically modelling and analysing these complex systems. Quantitative approaches offer one possible solution, but do not appear to be commensurate with currently available data. This motivates qualitative approaches such as Boolean networks (BNs) , which abstractly model the system without requiring such a high
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15

Giagos, Vasileios. "Inference for auto-regulatory genetic networks using diffusion process approximations." Thesis, Lancaster University, 2010. http://eprints.lancs.ac.uk/68421/.

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The scope of this thesis is to propose new inferential tools, based on diffusion process approximations, for the study of the kinetic parameters in auto-regulatory networks. In the first part of this thesis, we study the applicability of the EA methodology to Stochastic Differential Equations (SDEs) which approximate biological systems. In principle EA can be applied to any scalar-valued SDE as long as a transformation (known as Lamperti transform) exists that sets the (new) infinitesimal variance to unity. We explore the numerical limitations of this requirement by considering a biological sy
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16

Hartemink, Alexander J. (Alexander John) 1972. "Principled computational methods for the validation discovery of genetic regulatory networks." Thesis, Massachusetts Institute of Technology, 2001. http://hdl.handle.net/1721.1/8699.

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Thesis (Ph. D.)--Massachusetts Institute of Technology, Dept. of Electrical Engineering and Computer Science, 2001.<br>Includes bibliographical references (p. 193-206).<br>As molecular biology continues to evolve in the direction of high-throughput collection of data, it has become increasingly necessary to develop computational methods for analyzing observed data that are at once both sophisticated enough to capture essential features of biological phenomena and at the same time approachable in terms of their application. We demonstrate how graphical models, and Bayesian networks in particula
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17

Moser, Felix Ph D. Massachusetts Institute of Technology. "Engineered sensors and genetic regulatory networks for control of cellular metabolism." Thesis, Massachusetts Institute of Technology, 2013. http://hdl.handle.net/1721.1/86286.

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Thesis: Ph. D., Massachusetts Institute of Technology, Department of Brain and Cognitive Sciences, 2013.<br>Cataloged from PDF version of thesis.<br>Includes bibliographical references (pages 114-125).<br>Complex synthetic genetic programs promise unprecedented control over cellular metabolism and behavior. In this thesis, I describe the design and development of a synthetic genetic program to detect conditions underlying acetate formation in Escherichia coli. To construct this program, I first developed sensors that detected and propagated relevant information into genetic circuits. These sen
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18

Nicol, Megan E. "Unraveling the Nexus: Investigating the Regulatory Genetic Networks of Hereditary Ataxias." Ohio University Honors Tutorial College / OhioLINK, 2014. http://rave.ohiolink.edu/etdc/view?acc_num=ouhonors1400604580.

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19

Thomas, Rodney H. "Machine Learning for Exploring State Space Structure in Genetic Regulatory Networks." Diss., NSUWorks, 2018. https://nsuworks.nova.edu/gscis_etd/1053.

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Genetic regulatory networks (GRN) offer a useful model for clinical biology. Specifically, such networks capture interactions among genes, proteins, and other metabolic factors. Unfortunately, it is difficult to understand and predict the behavior of networks that are of realistic size and complexity. In this dissertation, behavior refers to the trajectory of a state, through a series of state transitions over time, to an attractor in the network. This project assumes asynchronous Boolean networks, implying that a state may transition to more than one attractor. The goal of this project is to
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20

Ramos, Rodríguez Mireia. "β-cells cis-regulatory networks and type 1 diabetes". Doctoral thesis, Universitat de Barcelona, 2020. http://hdl.handle.net/10803/672192.

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Type 1 Diabetes (T1D) is a ­cell­targeted autoimmune disease, leading to a reduction in pancreatic ­cell mass that renders patients insulin­dependent for life. In early stages of the disease, cells from the immune system infiltrate pancreatic islets in a process called insulitis. During this stage, a cross­talk is established between cells in the pancreatic islets and the infiltrating immune cells, mediated by the release of cytokines and chemokines. Studying the gene regulatory networks driving cell responses during insulitis, will allow us to pinpoint key gene pathways leading to ­cell l
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21

Arda, H. Efsun. "C. Elegans Metabolic Gene Regulatory Networks: A Dissertation." eScholarship@UMMS, 2010. https://escholarship.umassmed.edu/gsbs_diss/479.

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In multicellular organisms, determining when and where genes will be expressed is critical for their development and physiology. Transcription factors (TFs) are major specifiers of differential gene expression. By establishing physical contacts with the regulatory elements of their target genes, TFs often determine whether the target genes will be expressed or not. These physical and/or regulatory TF-DNA interactions can be modeled into gene regulatory networks (GRNs), which provide a systems-level view of differential gene expression. Thus far, much of the GRN delineation efforts focused on m
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22

Gandhi, Arpita S. "Analysis of time course microarray data for dynamic inference of gene regulatory networks." Access to citation, abstract and download form provided by ProQuest Information and Learning Company; downloadable PDF file, 53 p, 2008. http://proquest.umi.com/pqdweb?did=1605156441&sid=5&Fmt=2&clientId=8331&RQT=309&VName=PQD.

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23

Nguyen, Lan K. "Dynamical modelling of feedback gene regulatory networks." Diss., Lincoln University, 2009. http://hdl.handle.net/10182/1340.

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Living cells are made up of networks of interacting genes, proteins and other bio-molecules. Simple interactions between network components in forms of feedback regulations can lead to complex collective dynamics. A key task in cell biology is to gain a thorough understanding of the dynamics of intracellular systems and processes. In this thesis, a combined approach of mathematical modelling, computational simulation and analytical techniques, has been used to obtain a deeper insight into the dynamical aspects of a variety of feedback systems commonly encountered in cells. These systems range
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24

Karlsson, Fredrik. "Dynamics in Boolean Networks." Thesis, Linköping University, Department of Science and Technology, 2005. http://urn.kb.se/resolve?urn=urn:nbn:se:liu:diva-2888.

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<p>In this thesis several random Boolean networks are simulated. Both completely computer generated network and models for biological networks are simulated. Several different tools are used to gain knowledge about the robustness. These tools are Derrida plots, noise analysis and mean probability for canalizing rules. Some simulations on how entropy works as an indicator on if a network is robust are also included. The noise analysis works by measuring the hamming distance between the state of the network when noise is applied and when no noise is applied. For many of the simulated networks tw
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25

Stefan, Diana. "Structural and parametric identification of bacterial regulatory networks." Thesis, Grenoble, 2014. http://www.theses.fr/2014GRENM019/document.

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Les technologies expérimentales à haut débit produisent de grandes quantités de données sur les niveaux d'expression des gènes dans les bactéries à l'état d'équilibre ou lors des transitions de croissance.Un défi important dans l'interprétation biologique de ces données consiste à en déduire la topologie du réseau de régulation ainsi que les fonctions de régulation quantitatives des gènes.Un grand nombre de méthodes d'inférence a été proposé dans la littérature. Ces méthodes ont été utilisées avec succès dans une variété d'applications, bien que plusieurs problèmes persistent.Nous nous intéres
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26

Kohutyuk, Oksana. "Retina Workbench a flexible database system for manipulating and mining expression data and genetic regulatory networks /." [Ames, Iowa : Iowa State University], 2007.

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27

Xie, Zhi. "Modelling genetic regulatory networks: a new model for circadian rhythms in Drosophila and investigation of genetic noise in a viral infection process." Phd thesis, Lincoln University. Agriculture and Life Sciences Division, 2007. http://theses.lincoln.ac.nz/public/adt-NZLIU20070712.144258/.

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In spite of remarkable progress in molecular biology, our understanding of the dynamics and functions of intra- and inter-cellular biological networks has been hampered by their complexity. Kinetics modelling, an important type of mathematical modelling, provides a rigorous and reliable way to reveal the complexity of biological networks. In this thesis, two genetic regulatory networks have been investigated via kinetic models. In the first part of the study, a model is developed to represent the transcriptional regulatory network essential for the circadian rhythms in Drosophila. The model
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28

Al-Musawi, Ahmad Jr. "COMPLEX NETWORK GROWING MODEL USING DOWNLINK MOTIFS." VCU Scholars Compass, 2013. http://scholarscompass.vcu.edu/etd/3088.

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Understanding the underlying architecture of gene regulatory networks (GRNs) has been one of the major goals in systems biology and bioinformatics as it can provide insights in disease dynamics and drug development. Such GRNs are characterized by their scale-free degree distributions and existence of network motifs, which are small subgraphs of specific types and appear more abundantly in GRNs than in other randomized networks. In fact, such motifs are considered to be the building blocks of GRNs (and other complex networks) and they help achieve the underlying robustness demonstrated by most
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29

Nakajima, Natsu. "Genetic Network Completion Using Dynamic Programming and Least-Squares Fitting." 京都大学 (Kyoto University), 2015. http://hdl.handle.net/2433/195987.

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30

Xiong, Hao. "Constrained expectation-maximization (EM), dynamic analysis, linear quadratic tracking, and nonlinear constrained expectation-maximation (EM) for the analysis of genetic regulatory networks and signal transduction networks." Thesis, [College Station, Tex. : Texas A&M University, 2008. http://hdl.handle.net/1969.1/ETD-TAMU-2332.

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31

Sikkink, Kristin. "Experimental Evolution of Phenotypic Plasticity for Stress Resistance in the Nematode Caenorhabditis remanei." Thesis, University of Oregon, 2014. http://hdl.handle.net/1794/18425.

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Many organisms can acclimate to new environments through phenotypic plasticity, a complex trait that can be heritable, be subject to selection, and evolve. However, the rate and genetic basis of plasticity evolution remain largely unknown. Experimentally evolved populations of the nematode Caenorhabditis remanei were created by selecting for stress resistance under different environmental conditions. This resource was used to address key questions about how phenotypic plasticity evolves and what the genetic basis of plasticity is. Here, I highlight ways in which a fuller understanding of the e
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32

Marchand, Gwenaëlle. "Gene regulatory networks involved in drought stress responses : identification, genetic control and variability in cultivated sunflower, Helianthus annuus and its relatives." Toulouse 3, 2014. http://thesesups.ups-tlse.fr/2597/.

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La sécheresse affecte le rendement des plantes de grande culture comme le tournesol. Ces plantes développent des réponses morpho-physiologiques pour améliorer leur tolérance au manque d'eau. De nombreux gènes formant un réseau de régulation (GRN) contribuent à un contrôle génétique complexe de ces réponses. Le travail présenté étudie ce réseau, ses différents gènes et leurs interactions chez le tournesol. Tout d'abord, nous avons mis en évidence trois gènes récepteurs du signal environnemental afin de construire un biomarqueur du statut hydrique. Puis, par une étude d'association, nous avons r
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33

Abdelmotaleb, Ahmed Mostafa Othman. "Evolution of spiking neural networks for temporal pattern recognition and animat control." Thesis, University of Hertfordshire, 2016. http://hdl.handle.net/2299/17181.

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I extended an artificial life platform called GReaNs (the name stands for Gene Regulatory evolving artificial Networks) to explore the evolutionary abilities of biologically inspired Spiking Neural Network (SNN) model. The encoding of SNNs in GReaNs was inspired by the encoding of gene regulatory networks. As proof-of-principle, I used GReaNs to evolve SNNs to obtain a network with an output neuron which generates a predefined spike train in response to a specific input. Temporal pattern recognition was one of the main tasks during my studies. It is widely believed that nervous systems of biol
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34

Crocetti, Guilherme Martins. "Halobacterium salinarum NRC-1: rede de regulação gênica e sua análise probabilística." Universidade de São Paulo, 2018. http://www.teses.usp.br/teses/disponiveis/95/95131/tde-31052018-172109/.

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Este trabalho teve como objetivo principal modelar a Rede de Regulação Gênica do organismo modelo Halobacterium salinarum NRC-1, estabelecendo interações entre as entidades da rede por intermédio de experimentos inéditos de interação física: ChIP- *, RIP-* e dRNA-seq. Em contraponto com as abordagens clássicas de construção de redes, que estimam interações através de medições de expressão gênica, este trabalho as estabeleceu exclusivamente de interações físicas, permitindo que a estrutura final seja uma representação mais fiel ao fenômeno físico de regulação gênica, baseando-se nos fundamentos
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35

Buck, Moritz. "Towards the evolution of multicellularity : a computational artificial life approach." Thesis, University of Hertfordshire, 2011. http://hdl.handle.net/2299/6409.

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Technology, nowadays, has given us huge computational potential, but computer sciences have major problems tapping into this pool of resources. One of the main issues is how to program and design distributed systems. Biology has solved this issue about half a billion years ago, during the Cambrian explosion: the evolution of multicellularity. The evolution of multicellularity allowed cells to differentiate and so divide different tasks to different groups of cells; this combined with evolution gives us a very good example of how massively parallel distributed computational system can function
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36

Watson, Emma. "Diet-responsive Gene Networks Rewire Metabolism in the Nematode Caenorhabditis elegans to Provide Robustness against Vitamin B12 Deficiency: A Dissertation." eScholarship@UMMS, 2015. https://escholarship.umassmed.edu/gsbs_diss/801.

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Maintaining cellular homeostasis is a complex task, which involves monitoring energy states and essential nutrients, regulating metabolic fluxes to accommodate energy and biomass needs, and preventing buildup of potentially toxic metabolic intermediates and byproducts. Measures aimed at maintaining a healthy cellular economy inherently depend on the composition of nutrients available to the organism through its diet. We sought to delineate links between dietary composition, metabolic gene regulation, and physiological responses in the model organism C. elegans. As a soil-dwelling bacterivore,
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37

Watson, Emma. "Diet-responsive Gene Networks Rewire Metabolism in the Nematode Caenorhabditis elegans to Provide Robustness against Vitamin B12 Deficiency: A Dissertation." eScholarship@UMMS, 2009. http://escholarship.umassmed.edu/gsbs_diss/801.

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Maintaining cellular homeostasis is a complex task, which involves monitoring energy states and essential nutrients, regulating metabolic fluxes to accommodate energy and biomass needs, and preventing buildup of potentially toxic metabolic intermediates and byproducts. Measures aimed at maintaining a healthy cellular economy inherently depend on the composition of nutrients available to the organism through its diet. We sought to delineate links between dietary composition, metabolic gene regulation, and physiological responses in the model organism C. elegans. As a soil-dwelling bacterivore,
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38

Chen, Ye. "Fuzzy Cognitive Maps: Learning Algorithms and Biomedical Applications." University of Cincinnati / OhioLINK, 2015. http://rave.ohiolink.edu/etdc/view?acc_num=ucin1423581705.

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39

Scofield, Michael D. "Elucidating the Transcriptional Network Underlying Expression of a Neuronal Nicotinic Receptor Gene: A Dissertation." eScholarship@UMMS, 2010. https://escholarship.umassmed.edu/gsbs_diss/497.

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Neuronal nicotinic acetylcholine receptors (nAChRs) are involved in a plethora of fundamental biological processes ranging from muscle contraction to the formation of memories. The studies described in this work focus on the transcriptional regulation of the CHRNB4 gene, which encodes the ß4 subunit of neuronal nAChRs. We previously identified a regulatory sequence (5´– CCACCCCT –3´), or “CA box”, critical for CHRNB4 promoter activity in vitro. Here I report transcription factor interaction at the CA box along with an in vivo analysis of CA box transcriptional activity. My data indicate that S
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40

Odorico, Andréas. "Modéliser l'évolution de la relation génotype-phénotypes dans des réseaux de régulation." Thesis, Université Paris-Saclay (ComUE), 2019. http://www.theses.fr/2019SACLS537/document.

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L’identification de l’information génétique comme support de l’hérédité a accordé aux gènes une importance majeure dans l’étude de l’évolution et des mécanismes permettant la mise en place des caractères. Cependant, les processus permettant à une variation génétique de se traduire en variation phénotypique sont complexes et leur identification est centrale pour la compréhension de l’évolution.On parle de relation génotype-phénotype pour désigner la fonction qui relie l’espace des gènes à celui des caractères. Étudier les propriétés de cette relation permet d’identifier des mécanismes pouvant a
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41

Bezerra, George Barreto Pereira. "Aplicações de computação bioinspirada em bioinformatica : investigando o papel dos genes e suas interações." [s.n.], 2006. http://repositorio.unicamp.br/jspui/handle/REPOSIP/259068.

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Orientador: Fernando Jose Von Zuben<br>Dissertação (mestrado) - Universidade Estadual de Campinas, Faculdade de Engenharia Eletrica e de Computação<br>Made available in DSpace on 2018-08-11T13:03:57Z (GMT). No. of bitstreams: 1 Bezerra_GeorgeBarretoPereira_M.pdf: 1423598 bytes, checksum: 5587c3941203fcdd6c2eddb7dad89a93 (MD5) Previous issue date: 2006<br>Resumo: Esta dissertação trata das redes gênicas, o mecanismo de controle da ativação dos genes nas células, sob três perspectivas computacionais diferentes. Inicialmente, sob uma ótica de engenharia, é elaborada uma ferramenta de inferência
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42

Muhammad, Ridzuan Mohd Ikhwan Bin. "Reliability assessment of distribution networks incorporating regulator requirements, generic network equivalents and smart grid functionalities." Thesis, University of Edinburgh, 2017. http://hdl.handle.net/1842/29009.

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Over the past decades, the concepts and methods for reliability assessment have evolved from analysing the ability of individual components to operate without faults and as intended during their lifetime, into the comprehensive approaches for evaluating various engineering strategies for system planning, operation and maintenance studies. The conventional reliability assessment procedures now receive different perspectives in different engineering applications and this thesis aims to improve existing approaches by incorporating in the analysis: a) a more detailed and accurate models of LV and
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43

Boualia, Sami. "The gene regulatory network of early kidney development." Thesis, McGill University, 2012. http://digitool.Library.McGill.CA:80/R/?func=dbin-jump-full&object_id=107584.

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Congenital anomalies of the kidney and urinary tract (CAKUT) are the most common cause of chronic kidney disease in infants. CAKUT includes a spectrum of urinary tract anomalies that can be found alone or in combination, such as vesicoureteral reflux, and duplex kidneys. Murine models of these defects have been instrumental in identifying novel genetic regulators of both normal and aberrant kidney development. In mammals, kidney formation proceeds through three phases; pro-, meso- and metanephric development. Gene inactivation studies have identified essential regulators at each stage of nor
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44

Jiménez, Ray Dueñas. "Algoritmos genéticos em inferência de redes gênicas." reponame:Repositório Institucional da UFABC, 2014.

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45

Irons, David James. "Novel applications of Boolean network models to genetic regulatory systems." Thesis, University of Sheffield, 2006. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.434502.

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46

Deyell, Matthew. "Multiplexed Genetic Perturbations of the Regulatory Network of E. coli." Thesis, Sorbonne Paris Cité, 2018. http://www.theses.fr/2018USPCC175/document.

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Malgré les progrès réalisés dans le séquençage de l’ADN, nous n’avons pas encore compris comment le phénotype d’un organisme se rapporte au contenu de son génome. Cependant, il est devenu clair que l'impact des gènes dépend du contexte. La simple présence d'un gène dans un génome ne nous informe pas du moment où il est exprimé et des autres gènes qui y sont exprimés. Comprendre comment l'expression des gènes est régulée est un élément nécessaire pour comprendre comment les phénotypes émergent d'un génotype donné. Les facteurs de transcription, qui peuvent activer ou réprimer l'expression d'un
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47

Pakka, Vijayanarasimha Hindupur. "Dynamics of molecular fluctuations in gene regulatory networks." Thesis, University of Southampton, 2009. https://eprints.soton.ac.uk/71823/.

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The components that are central to cellular processing are proteins, whose production is regulated by other proteins known as transcription factors. Proteins are products of genes that regulate the expression of one another, thereby forming large gene regulatory networks that perform specific cellular functions. The complex connectivity between genes of a network could result in various behaviours that are interesting. The assumption then is that tracking subnetwork behaviour helps understand the characteristics of the larger networks they are embedded in. For example, the structure of a subne
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48

Abedi, Vida. "System-identification of gene regulatory networks by systematic gene perturbation analysis." Thesis, University of Ottawa (Canada), 2009. http://hdl.handle.net/10393/28254.

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Systems biology is an interdisciplinary field that combines engineering and molecular biology to better understand the 'design principles' of biological systems. One of the main goals in systems biology is to understand and map complex biological networks. In order to achieve this goal, tools able to process the non-linearity and high dimensionality of biological systems are urgently needed. To develop, test and benchmark tools for investigation of biological processes, it is important to utilize a model system that is able to provide a glimpse of complexity found in higher organisms, and be s
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49

Rodrigo, Tarrega Guillermo. "Computational design and designability of gene regulatory networks." Doctoral thesis, Universitat Politècnica de València, 2011. http://hdl.handle.net/10251/14179.

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Nuestro conocimiento de las interacciones moleculares nos ha conducido hoy hacia una perspectiva ingenieril, donde diseños e implementaciones de sistemas artificiales de regulación intentan proporcionar instrucciones fundamentales para la reprogramación celular. Nosotros aquí abordamos el diseño de redes de genes como una forma de profundizar en la comprensión de las regulaciones naturales. También abordamos el problema de la diseñabilidad dada una genoteca de elementos compatibles. Con este fin, aplicamos métodos heuríticos de optimización que implementan rutinas para resolver problemas inver
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50

Rhodes, Johanna. "Identifying gene regulatory networks common to multiple plant stress responses." Thesis, University of Warwick, 2012. http://wrap.warwick.ac.uk/56238/.

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Stress responses in plants can be defined as a change that affects the homeostasis of pathways, resulting in a phenotype that may or may not be visible to the human eye, affecting the fitness of the plant. Crosstalk is believed to be the shared components of pathways of networks, and is widespread in plants, as shown by examples of crosstalk between transcriptional regulation pathways, and hormone signalling. Crosstalk between stress responses is believed to exist, particularly crosstalk within the responses to biotic stress, and within the responses to abiotic stress. Certain hormone pathways
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