Global ETD Search
Search theses and dissertations gathered from participating repositories worldwide. Every result links back to the library that holds it. No account is needed.
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Showing 1 to 20 of 23 for “"transcriptional regulatory networks"”.
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Dissecting Transcriptional Regulatory Networks with Systems Biology Approaches
… is focused on understanding these mechanisms of transcriptional regulation using systems biology approaches. Transcription regulatory networks play an important role in mediating external stimuli and coordinating responses to changing environments. Different methods that infer regulatory …
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Histone Deacetylase 7 and Transcriptional Regulatory Networks of the Vascular Endothelium
Cells respond to stimuli in part through the modulation of gene expression. Signal transduction from the environment to the nucleus culminates in the activation of factors that modify chromatin structure to either facilitate or inhibit gene transcription. Histone acetyltransferases (HATs) and …
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Nutrition, Hormones, Transcriptional Regulatory Networks and Division of Labor in Honey Bee Colonies
… nutritionally- and hormonally-driven changes in transcriptional regulatory networks in the fat bodies (as well in the brain), and I suggest methodologies for their elucidation. Finally, in Chapter 5, I utilize the molecular systems biology approach outlined in Chapter 4 to show that a …
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Structure and topology of transcriptional regulatory networks and their applications in bio-inspired networking
<p>"Biological networks carry out vital functions necessary for sustenance despite environmental adversities. Transcriptional Regulatory Network (TRN) is one such biological network that is formed due to the interaction between proteins, called Transcription Factors (TFs), and segments of DNA, …
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Characterization of Bacterial Transcriptional Regulatory Networks through Genome-Wide in vitro Run-Off Transcription RNA-Seq (ROSE)
The current methods for characterizing transcriptional regulatory networks are limited to in vivo conditions, providing a snapshot of multiple regulatory interactions simultaneously. To complement these approaches, a new method called ROSE (Run-Off transcription/RNA-sequencing) has been developed …
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Representation and visualization of genetic regulatory networks
… Sonnet to the visualization and manipulation of transcriptional regulatory networks in yeast. Sonnet is particularly well adapted to this application as native presentation of these networks yields dense and difficult to decipher results.
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CoryneRegNet : a reference database and analysis platform for corynebacterial gene regulatory networks
… in the regulation of gene expression) and on transcriptional regulatory interactions of microorganisms deduced from literature-derived knowledge, computer predictions and global DNA microarray hybridization experiments, has opened the way for the genome-wide analysis of transcriptional …
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Dissecting the transcriptional regulatory network of embryonic stem cells
… is poorly understood. An understanding of the transcriptional regulatory networks that establish and maintain gene expression programs in mammalian cells is fundamental to understand development and should provide the foundation for improved diagnosis and treatment of disease. Although it is …
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Exploiting network-based approaches for understanding gene regulation and function
… Chapter 1 is an introduction to the concepts of networks and graph theory summarizing the various properties which are frequently studied in biological networks along with an overview of different kinds of cellular networks that are amenable for graph-theoretical analysis, emphasizing in …
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GATA1 Occupancy Site Regulates Erythroid Cell Fitness through Pleiotropic Functions
… genetics, largely due to limited knowledge about regulatory sequence grammar, complex chromatin environments, and the transcriptional regulatory networks that link genotype to phenotype. In this study, we combined base editor-mediated perturbations of regulatory elements, CRISPR-mediated gene …
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Understanding the functional consequences of genetic variation on gene regulation
… gene expression is one of fundamental goals of regulatory genomics. Perturbing certain locations in the non-coding DNA causes a disturbance to the precise spatial and temporal expression of the genes. Gene regulatory mechanisms determine the amount of change in the gene expression from …
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Quantitative dynamic modeling of transcriptional networks of embryonic stem cells using integrated framework of Pareto optimality and energy balance
… and mass balance constraints. Analysis of transcriptional regulatory networks and metabolic networks in ESCs thus requires both a nonequilibrium thermodynamic and mass balance framework for designing and understanding complex ESC network approach as well as an optimality approach which can …
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Exploring flowering gene networks in soybean and arabidopsis through transcriptome analysis
… of this thesis was to explore the flowering gene networks in soybean through an RNASeq based transcriptome analysis. Chapter One discusses the effect of three photoperiod treatments, short day (SD), long day (LD) and shift from 3 weeks LD to 1 week SD on six domesticated varieties of Glycine max; …
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Investigating the role of the basic helix-loop-helix transcription factor MIST1 in pancreatic diseases
… The focus of this thesis is to interrogate transcriptional regulatory networks that are susceptible to AP and the role that these networks play in acinar cell and exocrine pancreas responses. The overall goal is to determine the importance of the acinar-specific maturation transcription …
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Genetic networks controlled by the bacterial replication initiator and transcription factor DnaA in Bacillus subtilis
… also been implicated in directing part of the transcriptional response to replication stress. Because dnaA is essential, most of DnaA's potential effects on gene expression have been determined through indirect methods, which have implemented perturbations in replication and sequence analyses …
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Regulation of Global Transcription Dynamics During Cell Division and Root Development
… computational techniques, to examine the role of transcriptional regulatory mechanisms in controlling the complex gene expression programs underlying two fundamental biological processes---the cell cycle and the development and differentiation of an organ.</p><p>We generate a dataset describing …
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Taming Biological Complexity Through the Use of Symmetries
… and with the environment. In the case of gene networks, every interaction between genes is modulated by a number of different microscopic parameters and produces an overall network that is all but impossible to understand. Here we ask the question how can we possibly ”tame” this complexity in …
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INTEGRATED MOLECULAR INVESTIGATIONS OF MYRF AND SFRP2: UNVEILING REGULATORY MECHANISMS OF ER STRESS AND ECM REMODELLING IN PANCREATIC CANCER
… in every tumor. Following the identification of transcriptional regulatory networks in the various biotypes, we decided to better characterize two pivotal proteins controlling specific hallmarks of pancreatic cancer biology, like evading growth suppression and activating invasion. First, we …
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Computational analysis of regulatory networks using genome-scale data
… In single-celled organisms such as S. Cerevisiae regulatory networks respond to the external environment, optimizing the cell at a given time for survival in this environment. Thus a yeast cell, finding itself in a sugar solution, will turn on genes to make enzymes that process the sugar to …
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Inferring Transcriptional and Post-Transcriptional Network Structure by Exploiting Natural Sequence Variation
… to study genetic variation at the level of gene regulatory networks rather than individual genes. This thesis consists of four parts, each of which outlines a different strategy for integrating genome-wide expression data and genotype data in order to identify transcriptional and …
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