Relevant bibliographies by topics / Synthetic gene circuits / Dissertations / Theses
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Dissertations / Theses on the topic 'Synthetic gene circuits'

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Published: 18 May 2024

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1

Checkley, Stephen. "Engineering tuneable gene circuits in yeast." Thesis, University of Manchester, 2012. https://www.research.manchester.ac.uk/portal/en/theses/engineering-tuneable-gene-circuits-in-yeast(71dda344-8802-4862-9b29-1a671f4c96ab).html.

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Synthetic biology is an emergent field incorporating aspects of computer science molecular biology-based methodologies in a systems biology context, taking naturally occurring cellular systems, pathways, and molecules, and selectively engineering them for the generation of novel or beneficial synthetic behaviour. This study described the construction of a novel synthetic gene circuit, which utilises the inducible downstream transcriptional activation properties of the pheromone-response pathway in the budding yeast Saccharomyces cerevisiae as the basis for initiation. The circuit was composed
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2

Boada, Acosta Yadira Fernanda. "A systems engineering approach to model, tune and test synthetic gene circuits." Doctoral thesis, Universitat Politècnica de València, 2018. http://hdl.handle.net/10251/112725.

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La biología sintética se define como la ingeniería de la biología: el (re)diseño y construcción de nuevas partes, dispositivos y sistemas biológicos para realizar nuevas funciones con fines útiles, que se basan en principios elucidados de la biología y la ingeniería. Para facilitar la construcción rápida, reproducible y predecible de estos sistemas biológicos a partir de conjuntos de componentes es necesario desarrollar nuevos métodos y herramientas. La tesis plantea la optimización multiobjetivo como el marco adecuado para tratar los problemas comunes que surgen en el diseño racional y el aj
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3

Zhao, Jia. "Engineering serine integrase-based synthetic gene circuits for cellular memory and counting." Thesis, University of Glasgow, 2015. http://theses.gla.ac.uk/6911/.

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A cellular counting system based on synthetic gene circuits would enable complex biological programming and be used in many biotechnology applications. Although a variety of synthetic memory circuits have been constructed, basic modules that can be assembled into a counting system are lacking. This thesis focuses on engineering a binary counting module, which can alternate between two states in response to a single repeating input signal. The highly directional large serine bacteriophage integrases were utilised as the basis for the synthetic circuits constructed in this study. Integrases and
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4

Troisi, Lucie. "Development of a new class of synthetic gene circuits based on protein-protein interactions." Electronic Thesis or Diss., Sorbonne université, 2023. http://www.theses.fr/2023SORUS728.

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La biologie synthétique promet de révolutionner la façon dont les scientifiques manipulent et analysent les systèmes vivants. Dans ce projet, nous proposons de développer une nouvelle classe de réseaux de gènes synthétiques, basée sur la compétition entre la forme active et inactive d'un facteur de transcription synthétique. Afin de déterminer les paramètres moléculaires et les topologies requises pour une fonction voulue, nous utilisons une approche in silico évolutionnaire couplée à de la modélisation. Avec cette méthodologie, nous voulons construire des circuits à multiples entrées, ainsi q
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5

Bandiera, Lucia <1988&gt. "Effects of Transcriptional and Post-Transcriptional Control Mechanisms on Biological Noise in Synthetic Gene Circuits." Doctoral thesis, Alma Mater Studiorum - Università di Bologna, 2016. http://amsdottorato.unibo.it/7403/1/Bandiera_Lucia_Tesi.pdf.

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Synthetic Biology is an interdisciplinary research field seeking to correct faulty cellular processes or implement predictable de-novo tasks by engineering biological systems. In this perspective, the potential of developing biosynthetic devices of industrial and medical relevance is hindered by the requirement of accounting for, controlling and finally exploiting the randomness of biochemical events through which biological complexity is implemented. In this thesis mathematical modelling and experimental acquisitions of basic synthetic circuits are adopted to guide the selection of gene expr
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6

Ferry, Quentin R. V. "RNA-based engineering of inducible CRISPR-Cas9 transcription factors for de novo assembly of eukaryotic gene circuits." Thesis, University of Oxford, 2017. http://ora.ox.ac.uk/objects/uuid:b89c1b17-ea75-4049-a5d0-7cd1b5d0bd8e.

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Synthetic biology in mammalian cells holds great promise for reverse engineering biological processes and rewiring cellular behaviors for therapeutic purpose. An essential aspect in our ability to reprogram the cellular code is the availability of highly orthogonal, inducible transcriptional regulators. CRISPR-based strategies employing effector-domain tethering to the single guide RNA (sgRNA)-dCas9 complex have greatly advanced this field by allowing for precise activation or repression of any gene via simple sgRNA reprograming. However, the implementation of inducible CRISPR-based transcript
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7

Harris, Andreas William Kisling. "The design of gene regulatory networks with feedback and small non-coding RNA." Thesis, University of Oxford, 2017. https://ora.ox.ac.uk/objects/uuid:e3a323b1-9067-415d-8728-6c70c1b6cf23.

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The objective of the field of Synthetic Biology is to implement novel functionalities in a biological context or redesign existing biological systems. To achieve this, it employs tried and tested engineering principles, such as standardisation and the design-build-test cycle. A crucial part of this process is the convergence of modelling and experiment. The aim of this thesis is to improve the design principles employed by Synthetic Biology in the context of Gene Regulatory Networks (GRNs). Small Ribonucleic Acids (sRNAs), in particular, are focussed on as a mechanism for post-transcriptional
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8

Ao, Xue. "Study of fluctuations in gene regulation circuits with memory." HKBU Institutional Repository, 2012. https://repository.hkbu.edu.hk/etd_ra/1428.

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9

Matsuura, Satoshi. "Synthetic RNA-based logic computation in mammalian cells." Kyoto University, 2019. http://hdl.handle.net/2433/242426.

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10

Junetha, Syed Jabarulla. "Chemical Biology Approaches for Regulating Eukaryotic Gene Expression." 京都大学 (Kyoto University), 2015. http://hdl.handle.net/2433/202664.

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11

Vignoni, Alejandro. "Invariance and Sliding Modes. Application to coordination of multi-agent systems, bioprocesses estimation, and control in living cells." Doctoral thesis, Editorial Universitat Politècnica de València, 2014. http://hdl.handle.net/10251/37743.

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The present thesis employs ideas of set invariance and sliding modes in order to deal with different relevant problems control of nonlinear systems. Initially, it reviews the techniques of set invariance as well as the more relevant results about sliding modes control. Then the main methodologies used are presented: sliding mode reference conditioning, second order sliding modes and continuous approximation of sliding modes. Finally, the methodologies are applied to different problems in control theory and to a variety of biologically inspired applications. The contributions of the the
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12

Wong, Meng Lai Nicole. "Medical applications of synthetic gene circuits and switches." Thesis, 2020. https://hdl.handle.net/2144/41028.

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Synthetic biology enables us to create artificial systems using existing biological components, allowing for an exertion of control over the system so that we can further understand how these components interact or bestow them with new capabilities. A multitude of such applications have emerged in recent decades, among them the introduction of protein chimeras and genetic circuits to cells that can be used to accelerate the development of medical treatments and make them safer. T cell immunotherapy is an example of such a technology, and has shown promising results in the treatment of various
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13

Swaminathan, Anandh. "Application, Computation, and Theory for Synthetic Gene Circuits." Thesis, 2018. https://thesis.library.caltech.edu/10606/14/main.pdf.

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<p>The field of synthetic gene circuits is concerned with engineering novel gene expression dynamics into organisms. This field, a subset of synthetic biology, was started almost two decades ago with the creation of two synthetic circuits: a bistable toggle switch and an oscillator. From the very outset, modeling has played a role in the development of synthetic circuits. However, modeling has been used to gain qualitative insight into dynamics, and actual quantitative modeling has been lagging behind.</p> <p>Parameters for quantitative models for biological systems often cannot be adequate
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14

Nagaraj, Seema. "Transcriptional Regulation in Synthetic Gene Networks." Thesis, 2010. http://hdl.handle.net/1807/24838.

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The study of synthetic gene regulatory networks allows the isolation and investigation of components and motifs in natural regulatory networks. Many synthetic gene networks are regulated at the transcriptional level. In this work, two methods of regulating gene expression at the transcriptional level were studied with the objective of gaining finer control over network behaviour. The first approach focuses on activation and repression of promoters by transcription factors. A synthetic repressor-activator network was engineered using the cI and cro genes and the PRM promoter from bacterioph
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15

Ang, Jordan. "Designing Synthetic Gene Circuits for Homeostatic Regulation and Sensory Adaptation." Thesis, 2013. http://hdl.handle.net/1807/35763.

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Living cells are exquisite systems. They are strongly regulated to perform in highly specific ways, but are at the same time wonderfully robust. This combination arises from the sophistication of their construction and operation: their internal variables are carefully controlled by complex networks of dynamic biochemical interactions, crafted and refined by billions of years of evolution. Using mod- ern DNA engineering technology, scientists have begun to circumvent the long process of evolution by employing a rational design-based approach to construct novel gene networks inside living cells.
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16

"Construction of Gene Circuits to Control Cell Behavior." Master's thesis, 2016. http://hdl.handle.net/2286/R.I.38624.

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abstract: Synthetic biology is a novel method that reengineers functional parts of natural genes of interest to build new biomolecular devices able to express as designed. There is increasing interest in synthetic biology due to wide potential applications in various fields such as clinics and fuel production. However, there are still many challenges in synthetic biology. For example, many natural biological processes are poorly understood, and these could be more thoroughly studied through model synthetic gene networks. Additionally, since synthetic biology applications may have numerous des
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17

Cornejo, de los Santos Emmanuel Lorenzo. "Expanding the Toolkit for Synthetic Biology: Frameworks for Native-like Non-natural Gene Circuits." Thesis, 2015. https://thesis.library.caltech.edu/8865/1/delossantos_elc_2015_thesis.pdf.

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Synthetic biology combines biological parts from different sources in order to engineer non-native, functional systems. While there is a lot of potential for synthetic biology to revolutionize processes, such as the production of pharmaceuticals, engineering synthetic systems has been challenging. It is oftentimes necessary to explore a large design space to balance the levels of interacting components in the circuit. There are also times where it is desirable to incorporate enzymes that have non-biological functions into a synthetic circuit. Tuning the levels of different components, however,
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18

Singhal, Vipul. "Modeling, Computation, and Characterization to Accelerate the Development of Synthetic Gene Circuits in Cell-Free Extracts." Thesis, 2019. https://thesis.library.caltech.edu/11161/50/CODE_test015_tetRdata.zip.

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<p>Synthetic biology may be defined as an attempt at using engineering principles to design and build novel biological functionalities. An important class of such functionalities involves the bottom up design of genetic networks (or 'circuits') to control cellular behavior. Performing design iterations on these circuits in vivo is often a time consuming process. One approach that has been developed to address these long design times is to use E. coli cell extracts as simplified circuit prototyping environments. The analogy with similar approaches in engineering, such as prototyping using wind
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19

Marguet, Philippe Robert. "Molecular Bioengineering: From Protein Stability to Population Suicide." Diss., 2010. http://hdl.handle.net/10161/3143.

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<p>Driven by the development of new technologies and an ever expanding knowledge base of molecular and cellular function, Biology is rapidly gaining the potential to develop into a veritable engineering discipline - the so-called `era of synthetic biology' is upon us. Designing biological systems is advantageous because the engineer can leverage existing capacity for self-replication, elaborate chemistry, and dynamic information processing. On the other hand these functions are complex, highly intertwined, and in most cases, remain incompletely understood. Brazenly designing within these syste
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20

"Engineering of Synthetic DNA/RNA Modules for Manipulating Gene Expression and Circuit Dynamics." Doctoral diss., 2020. http://hdl.handle.net/2286/R.I.62937.

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abstract: Gene circuit engineering facilitates the discovery and understanding of fundamental biology and has been widely used in various biological applications. In synthetic biology, gene circuits are often constructed by two main strategies: either monocistronic or polycistronic constructions. The Latter architecture can be commonly found in prokaryotes, eukaryotes, and viruses and has been largely applied in gene circuit engineering. In this work, the effect of adjacent genes and noncoding regions are systematically investigated through the construction of batteries of gene circuits in div
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21

"Design and Engineering of Synthetic Gene Networks." Doctoral diss., 2017. http://hdl.handle.net/2286/R.I.45573.

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abstract: Synthetic gene networks have evolved from simple proof-of-concept circuits to complex therapy-oriented networks over the past fifteen years. This advancement has greatly facilitated expansion of the emerging field of synthetic biology. Multistability is a mechanism that cells use to achieve a discrete number of mutually exclusive states in response to environmental inputs. However, complex contextual connections of gene regulatory networks in natural settings often impede the experimental establishment of the function and dynamics of each specific gene network. In this work, d
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