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Dissertations / Theses on the topic 'DNA model'

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Published: 4 June 2021

Last updated: 9 February 2022

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1

高銘謙 and Ming-him Ko. "A multi-agent model for DNA analysis." Thesis, The University of Hong Kong (Pokfulam, Hong Kong), 1999. http://hub.hku.hk/bib/B31222778.

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Ko, Ming-him. "A multi-agent model for DNA analysis /." Hong Kong : University of Hong Kong, 1999. http://sunzi.lib.hku.hk/hkuto/record.jsp?B21949116.

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3

Luchetti, Andrea <1976&gt. "Evolution of repetitive DNA in model arthropods." Doctoral thesis, Alma Mater Studiorum - Università di Bologna, 2007. http://amsdottorato.unibo.it/338/.

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4

Friedrich, Tomáš. "Komprese DNA sekvencí." Master's thesis, Vysoké učení technické v Brně. Fakulta informačních technologií, 2010. http://www.nusl.cz/ntk/nusl-237222.

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The increasing volume of biological data requires finding new ways to save these data in genetic banks. The target of this work is design and implementation of a novel algorithm for compression of DNA sequences. The algorithm is based on aligning DNA sequences agains a reference sequence and storing only diferencies between sequence and reference model. The work contains basic prerequisities from molecular biology which are needed for understanding of algorithm details. Next aligment algorithms and common compress schemes suitable for storing of diferencies agains reference sequence are descri

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5

Santos, Elmer Buluran. "Biologic response to papillomavirus DNA in COPV model." Thesis, University of Cambridge, 2001. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.621132.

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6

Arredondo, Ryan. "Properties of Graphs Used to Model DNA Recombination." Scholar Commons, 2014. https://scholarcommons.usf.edu/etd/4979.

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A model for DNA recombination uses 4-valent rigid vertex graphs, called assembly graphs. An assembly graph, similarly to the projection of knots, can be associated with an unsigned Gauss code, or double occurrence word. We define biologically motivated reductions that act on double occurrence words and, in turn, on their associated assembly graphs. For every double occurrence word w there is a sequence of reduction operations that may be applied to w so that what remains is the empty word, [epsilon]. Then the nesting index of a word w, denoted by NI(w), is defined to to be the least number of

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7

Darko, Janice. "Fluorescent Labeling of Antibiotic Resistant Bacteria Model DNA." BYU ScholarsArchive, 2018. https://scholarsarchive.byu.edu/etd/7600.

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Global threats to treatment of bacterial infections due to antibiotic resistance (AR) have been on the rise in recent years. Current diagnostic tests identify bacteria by using blood culture, which takes more than 24 hours. This study focuses on the fluorescent labeling of DNA derived from bacterial AR genes (KPC & VIM) and other model DNAs using oligreen dye (OG) and molecular beacons (MB). A NanoDrop 3300 fluorospectrometer was used to take fluorescence measurements. Linear dynamic range and labeling efficiency were dependent on the following optimized conditions: dilution factor of OG (200

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Allegrini, Paolo. "Model for Long-range Correlations in DNA Sequences." Thesis, University of North Texas, 1996. https://digital.library.unt.edu/ark:/67531/metadc279189/.

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We address the problem of the DNA sequences developing a "dynamical" method based on the assumption that the statistical properties of DNA paths are determined by the joint action of two processes, one deterministic, with long-range correlations, and the other random and delta correlated. The generator of the deterministic evolution is a nonlinear map, belonging to a class of maps recently tailored to mimic the processes of weak chaos responsible for the birth of anomalous diffusion. It is assumed that the deterministic process corresponds to unknown biological rules which determine the DNA pa

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9

Tello, Cajiao John James 1990. "The influence of the DNA conformation on the radiation-induced DNA damage probabilities = A influência da conformação do DNA nas probabilidades de dano induzido por radiações." [s.n.], 2016. http://repositorio.unicamp.br/jspui/handle/REPOSIP/305738.

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Orientador: Mario Antonio Bernal Rodriguez<br>Dissertação (mestrado) - Universidade Estadual de Campinas, Instituto de Física Gleb Wataghin<br>Made available in DSpace on 2018-08-30T22:42:12Z (GMT). No. of bitstreams: 1 TelloCajiao_JohnJames_M.pdf: 2614936 bytes, checksum: e5bdfc91b42434b003cad0b5fa850afb (MD5) Previous issue date: 2016<br>Resumo: O objetivo deste trabalho é estudar a influência da conformação do DNA na probabilidade de dano direto produzido por partículas ionizantes. Além disso, os fundamentos mecanicísticos do modelo Linear-Quadrático são investigadas através de um modelo

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10

Lee, Kyeong Eun. "Bayesian models for DNA microarray data analysis." Diss., Texas A&M University, 2005. http://hdl.handle.net/1969.1/2465.

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Selection of signi?cant genes via expression patterns is important in a microarray problem. Owing to small sample size and large number of variables (genes), the selection process can be unstable. This research proposes a hierarchical Bayesian model for gene (variable) selection. We employ latent variables in a regression setting and use a Bayesian mixture prior to perform the variable selection. Due to the binary nature of the data, the posterior distributions of the parameters are not in explicit form, and we need to use a combination of truncated sampling and Markov Chain Monte Carlo (MCMC)

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11

Aydogan, Bulent. "A computational atomistic model of radiation damage to DNA." [Gainesville, Fla.] : University of Florida, 2001. http://etd.fcla.edu/etd/uf/2001/anp4323/Aydogan.pdf.

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Thesis (Ph. D.)--University of Florida, 2001.<br>Title from first page of PDF file. Document formatted into pages; contains xviii, 294 p.; also contains graphics. Vita. Includes bibliographical references (p. 284-293).

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12

Srivastava, Alok Kumar 1967. "A model for sample stacking in microcapillary DNA electrophoresis." Thesis, Massachusetts Institute of Technology, 2002. http://hdl.handle.net/1721.1/29922.

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Thesis (Ph. D.)--Massachusetts Institute of Technology, Dept. of Mechanical Engineering, 2002.<br>Includes bibliographical references (leaves 129-135).<br>Sanger's method of chain termination is the method of choice in DNA sequencing, where electrophoresis is used to separate the different sized DNA. In the past decade, microfabricated capillary devices have been developed and are increasingly used to perform DNA electrophoresis. While tremendous progress has been made in the process, sample injection has not been well understood. In an earlier study, images of sample injection obtained using

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Snodin, Benedict E. K. "Simulating large DNA nanostructures with a coarse-grained model." Thesis, University of Oxford, 2015. https://ora.ox.ac.uk/objects/uuid:86b2d03e-3cad-423c-8db0-3d56c65ccc20.

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In this thesis we investigate the self-assembly and structural properties of DNA origamis, which are large-scale DNA nanostructures comprising thousands of DNA base pairs, using the coarse-grained model of DNA called oxDNA. We use simulations of oxDNA, with both a "brute-force" approach and with a rareevent method, to probe how the origamis self-assemble from single strands of DNA in solution. With the brute-force approach we are able to simulate the complete assembly of a small 384-base-pair origami at a high strand concentration, and identify kinetic traps under certain conditions, as well a

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14

Brun, Ludovic. "Search and Capture Model in different DNA Segregation processes." Paris 7, 2011. http://www.theses.fr/2011PA077026.

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La ségrégation des chromosomes chez les cellules eucaryotes et des plasmides chez les bactéries ont en commun une phase initiale de "recherche et capture" pendant laquelle des fibres explorent le volume de la cellule à partir d'une position spécifique. Schématiquement des polymères croissent à partir d'un point et essayent d'atteindre des cibles réparties dans un espace confiné. Etonnement, les fibres impliquées présentent un même type de dynamique. Nous présentons d'abord un modèle d'instabilité dynamique basée sur l'idée populaire que la croissance du polymère est permise par une coiffe à l'

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15

Baker, John C. III. "Application of the Fisher Dimer Model to DNA Condensation." VCU Scholars Compass, 2017. http://scholarscompass.vcu.edu/etd/4791.

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This paper considers the statistical mechanics occupation of the edge of a single helix of DNA by simple polymers. Using Fisher's exact closed form solution for dimers on a two-dimensional lattice, a one-dimensional lattice is created mathematically that is occupied by dimers, monomers, and holes. The free energy, entropy, average occupation, and total charge on the lattice are found through the usual statistical methods. The results demonstrate the charge inversion required for a DNA helix to undergo DNA condensation.

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16

Chakraverty, Ronjon. "A yeast model of Bloom's syndrome." Thesis, Open University, 1999. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.264397.

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17

Postránecká, Tereza. "Porovnání metod pro konstrukci barevných DNA spektrogramů." Master's thesis, Vysoké učení technické v Brně. Fakulta elektrotechniky a komunikačních technologií, 2013. http://www.nusl.cz/ntk/nusl-220019.

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This thesis discusses about possibilities of construction colour DNA spectrograms and about patterns which can be detected there. Spectrograms as tools of spectral analysis give us a simultaneous view of the local frequency throughout the nucleotide sequence. They are suitable for gene identification or gene regions identification, determination of global character about whole chromosomes and also give us a chance for the discovery of yet unknown regions of potential significance. For purpose of this kind of DNA analysis is possible to use digital signal processing methods. We can apply them o

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18

Ashok, M. S. "Evaluation Of The Efficacy Of DNA Vaccines For Japanese Encephalitis In A Murine Intracerebral Japanese Encephalitis Virus Challenge Model." Thesis, Indian Institute of Science, 2000. http://hdl.handle.net/2005/169.

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Japanese encephalitis virus (JEV), a member of the family flaviviridae, is one of the most important pathogens of the developing countries, causing high mortality and morbidity amongst children. The present study is aimed at the development of a DNA vaccine for Japanese Encephalitis (JE). As a first step towards developing a DNA vaccine for JE, an eukaryotic expression plasmid encoding the envelope (E) glycoprotein of Japanese Encephalitis Virus (pCMXENV) was constructed. This plasmid expresses the E protein intracellularly, when transfected into Vero cells in culture. Several independent immu

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19

Srivastava, Shambhavi. "An informational-dynamical approach to characterise and model the complexity of the DNA." Thesis, University of Aberdeen, 2015. http://digitool.abdn.ac.uk:80/webclient/DeliveryManager?pid=227605.

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In this thesis, we show how to create an approximate Markov model for the DNA. This model is constructed by encoding the DNA nucleotides into finite length symbolic sequences, referred to as words, and creating a 2D symbolic space for the DNA, where points plotted in that space represent words. From the construction of our model, we are able to specify words for the DNA, their lengths and how they can be organised together in groups of symbolic similarities. The model also allows the construction of a network of the DNA, where the nodes represent group of words and the edges connecting two nod

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De, Pooter Renee. "Immunomodulatory effects following naked DNA transfer in an autoimmune model." Thesis, McGill University, 2001. http://digitool.Library.McGill.CA:80/R/?func=dbin-jump-full&object_id=31218.

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Immune modulation is one treatment modality which is being explored in the context of human diseases and disorders. Methods of such manipulation which use gene therapy have an advantage in the treatment of chronic diseases such as autoimmunity because they are less invasive and more persistent. Furthermore, naked plasmid has advantages as a vector over other methods: it is more persistent and less immunogenic and cytotoxic than viral vectors, and simpler than DNA-conjugate vectors. Thus, naked plasmid is a viable alternative treatment to study in the context of an autoimmune disease such as di

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21

Stubbs, Thomas Michael. "DNA methylation : a model system for the study of ageing." Thesis, University of Cambridge, 2018. https://www.repository.cam.ac.uk/handle/1810/275689.

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DNA methylation is an important epigenetic mark spanning all of life's kingdoms. In humans, DNA methylation has been associated with a wide range of age-related pathologies, including type II diabetes and cancer. More recently, in humans, changes in DNA methylation at specific positions in the genome have been found to be predictive of chronological age. Interestingly, DNA methylation age is also predictive of health status and time-to-death. A better understanding of what these DNA methylation changes represent and whether they might be causative in the ageing process will be important to asc

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22

Entazam, A. "DNA instability and pathology in a fragile premutation mouse model." Thesis, Exeter and Plymouth Peninsula Medical School, 2010. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.700491.

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23

Latham, Tom. "De novo methyltransferases, DNA methylation and cancer : a transgenic model." Thesis, University of Edinburgh, 2007. http://hdl.handle.net/1842/24811.

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One of the most important controversies in the field of cancer epigenetics is the question of whether aberrant CpG island methylation of tumour suppressor genes can cause cancer or whether such abnormalities of DNA methylation are secondary to the malignant process. We address this question by prospectively causing abnormal methylation events <i>in vivo</i>. We have produced transgenic mice which over-express the <i>de novo</i> methyltransferase Dnmt3b under the widely expressed CAG promoter. <i>Tg(Dnmt3b)+</i>mice develop normally and are fertile, but die at 4-5 months, developing dilated car

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24

Shah, Sohrab P. "Model based approaches to array CGH data analysis." Thesis, University of British Columbia, 2008. http://hdl.handle.net/2429/2808.

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DNA copy number alterations (CNAs) are genetic changes that can produce adverse effects in numerous human diseases, including cancer. CNAs are segments of DNA that have been deleted or amplified and can range in size from one kilobases to whole chromosome arms. Development of array comparative genomic hybridization (aCGH) technology enables CNAs to be measured at sub-megabase resolution using tens of thousands of probes. However, aCGH data are noisy and result in continuous valued measurements of the discrete CNAs. Consequently, the data must be processed through algorithmic and statistica

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Entezam, Ali. "DNA instability and pathology in a fragile X premutation mouse model." Thesis, Exeter and Plymouth Peninsula Medical School, 2010. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.531710.

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26

Byng, Martyn Charles. "A statistical model for locating regulatory regions in novel DNA sequences." Thesis, University of Reading, 2001. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.369119.

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27

Steele, Benjamin (Benjamin Craig). "A computational model for the isothermal assembly of tiled DNA nanostructures." Thesis, Massachusetts Institute of Technology, 2014. http://hdl.handle.net/1721.1/87467.

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Thesis: S.M., Massachusetts Institute of Technology, Department of Biology, 2014.<br>Cataloged from PDF version of thesis.<br>Includes bibliographical references (pages 47-49).<br>Complex DNA nanostructures have proven difficult to assemble from starting materials. Inefficient nanostructure assembly constitutes a barrier to the widespread use of DNA nanotechnology and is difficult to investigate experimentally due to the complicated nature of the assembly. This work introduces a type of tile assembly model, the isothermal tile assembly model (iTAM). The iTAM seeks to capture the behavior of as

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28

Lapato, Dana. "Latent Growth Model Approach to Characterize Maternal Prenatal DNA Methylation Trajectories." VCU Scholars Compass, 2019. https://scholarscompass.vcu.edu/etd/5995.

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Background. DNA methylation (DNAm) is a removable chemical modification to the DNA sequence intimately associated with genomic stability, cellular identity, and gene expression. DNAm patterning reflects joint contributions from genetic, environmental, and behavioral factors. As such, differences in DNAm patterns may explain interindividual variability in risk liability for complex traits like major depression (MD). Hundreds of significant DNAm loci have been identified using cross-sectional association studies. This dissertation builds on that foundational work to explore novel statistical app

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29

Khatib, Maha. "The generalized Poland-Scheraga model : bivariate renewal approach to DNA denaturation." Thesis, Sorbonne Paris Cité, 2016. http://www.theses.fr/2016USPCC293/document.

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Le modèle de Poland-Scheraga (PS) est le modèle standard pour étudier la transition de dénaturation de deux brins d’ADN complémentaires et de même longueur. Ce modèle a fait l’objet d’une attention remarquable car il est exactement résoluble dans sa version homogène. Le caractère résoluble est lié au fait que le modèle PS homogène peut être mis en correspondance avec un processus de renouvellement discret. Dans la littérature biophysique une généralisation du modèle, obtenue en considérant des brins non complé- mentaires et de longueurs différentes, a été considérée et le caractère résoluble s

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Zabarmawi, Yusra. "Ionizing Model to Predict the Clustered in Nucleotide Damageafter Low & High LET Radiation." University of Cincinnati / OhioLINK, 2019. http://rave.ohiolink.edu/etdc/view?acc_num=ucin1563274274747153.

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Dannenberg, Frits Gerrit Willem. "Modelling and verification for DNA nanotechnology." Thesis, University of Oxford, 2016. https://ora.ox.ac.uk/objects/uuid:a0b5343b-dcee-44ff-964b-bdf5a6f8a819.

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DNA nanotechnology is a rapidly developing field that creates nanoscale devices from DNA, which enables novel interfaces with biological material. Their therapeutic use is envisioned and applications in other areas of basic science have already been found. These devices function at physiological conditions and, owing to their molecular scale, are subject to thermal fluctuations during both preparation and operation of the device. Troubleshooting a failed device is often difficult and we develop models to characterise two separate devices: DNA walkers and DNA origami. Our framework is that of c

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Angeleska, Angela. "Combinatorial models for DNA rearrangements in ciliates." [Tampa, Fla] : University of South Florida, 2009. http://purl.fcla.edu/usf/dc/et/SFE0002998.

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33

Taslim, Cenny. "Algorithm for comparing large scale protein-DNA interaction data." The Ohio State University, 2011. http://rave.ohiolink.edu/etdc/view?acc_num=osu1306894920.

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Dražková, Jana. "Emergentní vlastnosti sítě G1/S." Master's thesis, Vysoké učení technické v Brně. Fakulta strojního inženýrství, 2010. http://www.nusl.cz/ntk/nusl-229035.

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Tato práce se zabývá buněčným cyklem kvasinky Saccgaromyces cerevisiae. Oblastí našeho zájmu je přechod mezi G1 a S fází, kde je naším cílem identifikovat velikosti buňky v době počátku DNA replikace. Nejprve se věnujeme nedávno publikovanému matematickému modelu, který popisuje mechanismy vedoucí k S fázi. Práce poskytuje detailní popis tohoto modelu, stejně jako časový průběh některých důležitých proteinů či jejich sloučenin. Dále se zabýváme pravděpodobnostním modelem aktivace replikačních počátků DNA. Nově uvažujeme vliv šíření DNA replikace mezi sousedícími počátky a analyzujeme jeho důsl

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Christopher, Andrea. "Mathematical model of 'on-demand' histone protein synthesis during S phase in humans." Thesis, University of Aberdeen, 2016. http://digitool.abdn.ac.uk:80/webclient/DeliveryManager?pid=230770.

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During DNA replication the DNA has to be unpacked, duplicated and repacked into chromatin, which is comprised of DNA and histone proteins (Nicholson and Muller, 2008b). The coordinated replication of DNA and histone protein synthesis is vital for the correct chromatin formation (Marzluff et al., 2008). The mechanism controlling the histone gene expression is only partially understood, especially the mechanism controlling any disturbances in the coordination of DNA replication and histone protein synthesis. Previous experiments suggested that the regulation mechanism of histone balance could in

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Callow, Philip Austin. "Cationic lipid : DNA complexes - their structure and interactions with model cell membranes." Thesis, King's College London (University of London), 2003. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.400591.

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Paschalis, Vasileios. "Revised model for the DNA replication fork in Bacillus subtilis : polymerase asymmetry." Thesis, University of Nottingham, 2017. http://eprints.nottingham.ac.uk/40887/.

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Replication of DNA is a vital process for growth and cell division in all domains of life. The mechanisms of helicase loading as well as hand-off of nascent RNA primers from the primase to the replicative polymerases during DNA synthesis are of fundamental importance. The prototype structural/functional model provided by the widely studied Gram-negative Escherichia coli DNA replication system is not universally applicable. The current model for the Gram-positive Bacillus subtilis DNA replication suggests that PolC is the main processive replicative polymerase with DnaE playing an essential but

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Fraga, Timiraos Ana Belén. "Model Studies on the Photorepair of (6-4) Dimeric Lesions of DNA." Doctoral thesis, Universitat Politècnica de València, 2019. http://hdl.handle.net/10251/117610.

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[ES] La radiación ultravioleta está asociada a la formación de ciertas lesiones en el ADN que están en el origen del cáncer de piel. Entre las más relevantes se encuentran los daños que se producen en las bases pirimidínicas: los dímeros ciclobutánicos (CPDs) y fotoproductos (6-4) (6-4PPs). Como protección contra las fotolesiones del ADN, los organismos vivos disponen de enzimas que restauran las lesiones a su forma original, manteniendo así la integridad genética. Algunos organismos manifiestan un proceso de reparación adicional de los CPDs y los 6-4PPs, que corresponde a la foto-rreactivació

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Peters, David G. "Characterisation of GATA binding proteins using Aspergillus nidulans as a model organism." Thesis, University of Liverpool, 1994. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.240865.

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Falcon, Alaric Antonio. "Building an episomal model of aging in saccharomyces cerevesiae." [Gainesville, Fla.] : University of Florida, 2004. http://wwwlib.umi.com/cr/ufl/fullcit?p3136937.

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Thesis (Ph.D.)--University of Florida, 2004.<br>Typescript. Title from title page of source document. Document formatted into pages; contains 117 pages. Includes Vita. Includes bibliographical references.

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Chambers, Mark Andrew. "Studies of the immune response to human papillomavirus type-16 proteins in a mouse model." Thesis, University of Cambridge, 1993. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.308297.

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Brümmer, Anneke. "Mathematical modelling of DNA replication." Doctoral thesis, Humboldt-Universität zu Berlin, Mathematisch-Naturwissenschaftliche Fakultät I, 2010. http://dx.doi.org/10.18452/16212.

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Bevor sich eine Zelle teilt muss sie ihr gesamtes genetisches Material verdoppeln. Eukaryotische Genome werden von einer Vielzahl von Replikationsstartpunkten, den sogenannten Origins, aus repliziert, die über das gesamte Genome verteilt sind. In dieser Arbeit wird der zugrundeliegende molekulare Mechanismus quantitativ analysiert, der für die nahezu simultane Initiierung der Origins exakt ein Mal pro Zellzyklus verantwortlich ist. Basierend auf umfangreichen experimentellen Studien, wird zunächst ein molekulares regulatorisches Netzwerk rekonstruiert, welches das Binden von Molekülen an die O

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Huang, Chao-Min. "Robust Design Framework for Automating Multi-component DNA Origami Structures with Experimental and MD coarse-grained Model Validation." The Ohio State University, 2020. http://rave.ohiolink.edu/etdc/view?acc_num=osu159051496861178.

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Frith, Richard William. "Model studies relating to the mode of action of O'6-alkylguanine-DNA alkyltransferase." Thesis, University of Newcastle Upon Tyne, 1993. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.285689.

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Bellamy, Michael Bruce. "A double strand DNA break model of photon and electron relative biological effectiveness." Diss., Georgia Institute of Technology, 2013. http://hdl.handle.net/1853/47711.

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The ICRP recommends a radiation weighting factor of one for all low-LET radiation. However, many experimental studies find inconsistencies between low-LET RBE and the ICRP's current radiation weighting factor. Generally, there is evidence that dependence exists between radiation energy and radiation RBE where lower energy radiations tend to have a greater biological effect than higher energy radiation. Specifically, the radiations of tritium and carbon K-shell x-rays have been studied in numerous experiments and the biological effects of both of these radiations are consistently greater than

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Busch, Marc Gregory. "Evaluation of different SIV plasmid DNA vaccines : a model for HIV vaccine development /." For electronic version search Digital dissertations database. Restricted to UC campuses. Access is free to UC campus dissertations, 2004. http://uclibs.org/PID/11984.

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Siu, Kim-Man. "A computational estimation of errors in model genomes using exactly duplicated DNA sequences /." View abstract or full-text, 2005. http://library.ust.hk/cgi/db/thesis.pl?MATH%202005%20SIU.

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Silva, Eduardo Ferreira da. "Estudo da interação DNA-HOESCHT (33258) por pinçamento ótico." Universidade Federal de Viçosa, 2013. http://locus.ufv.br/handle/123456789/4267.

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Made available in DSpace on 2015-03-26T13:35:22Z (GMT). No. of bitstreams: 1 texto completo.pdf: 1403023 bytes, checksum: a018f8a9517a70e3f44eed507700561d (MD5) Previous issue date: 2013-07-25<br>Coordenação de Aperfeiçoamento de Pessoal de Nível Superior<br>By performing single molecule stretching experiments with optical tweezers, we have stu- died the DNA interaction with the ligand Hoechst(33258). The mechanical properties of the complexes as a function of ligand concentration were directly determined from these measure- ments by fitting the force versus extension curve to the WormLike C

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Rachamadugu, Sairaj. "Manipulation of 3D knotted polygons." TopSCHOLAR®, 2012. http://digitalcommons.wku.edu/theses/1162.

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Abstract:

This thesis discusses the development of software architecture to support the computational investigation of random polygons in 3 space. The random polygons themselves are a simple model of long polymer chains. (A DNA molecule is one example of a polymer.) This software architecture includes "building blocks" which specify the actual manipulations and computations to be performed, and a structural framework which allows the user to specify which manipulations/computations to perform, in which order and with how many repetitions. The overall framework is designed in such a way that new building

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Bagci, V. M. Kemal. "Anderson Localization in Two-Channel Wires with Correlated Disorder: DNA as an Application." Thesis, University of North Texas, 2007. https://digital.library.unt.edu/ark:/67531/metadc5204/.

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This research studied the Anderson localization of electrons in two-channel wires with correlated disorder and in DNA molecules. It involved an analytical calculation part where the formula for the inverse localization length for electron states in a two-channel wire is derived. It also involved a computational part where the localization length is calculated for some DNA molecules. Electron localization in two-channel wires with correlated disorder was studied using a single-electron tight-binding model. Calculations were within second-order Born-approximation to second-order in disorder par

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