Tesis: "Genetics, Sequence Analysi"

1

Cai, Zheng. "Repetitive sequence analysis for soybean genome sequences". Diss., Columbia, Mo. : University of Missouri-Columbia, 2005. http://hdl.handle.net/10355/4249.

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Thesis (M.S.)--University of Missouri-Columbia, 2005.
"May 2005" The entire dissertation/thesis text is included in the research.pdf file; the official abstract appears in the short.pdf file (which also appears in the research.pdf); a non-technical general description, or public abstract, appears in the public.pdf file. Includes bibliographical references.

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2

Olsson, Charlotta. "Quantitative analysis of disease associated mutations and sequence variants". Doctoral thesis, Uppsala : Acta Universitatis Upsaliensis : Univ.-bibl. [distributör], 2001. http://publications.uu.se/theses/91-554-5018-0/.

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3

Liu, Xuan y 劉絢. "BARF1 sequence analysis and functional significance in EBV-Related disorders". Thesis, The University of Hong Kong (Pokfulam, Hong Kong), 2005. http://hub.hku.hk/bib/B36190445.

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4

Lehtonen, M. (Mervi). "Mitochondrial DNA sequence variation in patients with sensorineural hearing impairment and in the Finnish population". Doctoral thesis, University of Oulu, 2002. http://urn.fi/urn:isbn:9514268490.

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Abstract Sensorineural hearing impairment (SNHI) is a well-recognized manifestation of mitochondrial diseases and occurs either in a non-syndromic form or as a part of a syndrome. Mitochondrial deafness is bilateral, usually progressive and is inherited maternally. Approximately 70% of patients with the most common syndromes, Kearns-Sayre, MELAS or MERRF, have SNHI. Several mutations in mitochondrial DNA (mtDNA) have been found to cause non-syndromic SNHI, including 1555A>G, 7445T>C, 7472insC and 7511T>C. In order to estimate prevalences of pathogenic mtDNA mutations in population-based cohorts of patients with SNHI, we obtained samples from 133 patients with SNHI, reportedly representing 117 separate maternal lineages. We found five patients with the 3243A>G mutation and three with the 1555A>G mutation, whereas the other point mutations associated with SNHI were absent. The frequencies of the mutations in the cohort were thus 4.3 % for 3243A>G and 2.6 % for 1555A>G, suggesting a total frequency of 6.9 % for mtDNA mutations known to be associated with hearing impairment. We found a mutation 10044A>G, which has been reported as pathogenic, in our patients with SNHI, but we also found it among the controls. Our results show it to be a homoplasmic polymorphism associated with a fairly rare haplotype within mtDNA haplogroup H which has recently been confirmed as subcluster H4. These results highlight the difficulty in determining the pathogenicity of a mtDNA mutation when it is identified only in one family. Therefore, in addition to the previously published criteria, we suggest that a sufficient number of haplotype-specific controls should be screened before the pathogenic nature of a mtDNA mutation can be verified. We determined the complete mtDNA sequences for 121 Finns, and after complementing our recent data, for a total of 192 Finns, and were able to construct a phylogenetic network based on complete mtDNA sequences, the largest set of complete sequences available at that time. These mtDNAs provide a rich source of information for studies in population genetics and a potential tool for analysing new substitutions and genotypes that entail a risk of mitochondrial disease. We used the phylogenetic network to find new pathogenic mutations or risk genotypes for SNHI. The entire coding region sequences of mtDNA were determined in 32 patients with SNHI and compared with the network. The patients were found to harbour more rare polymorphisms and haplotypes than the controls and to show increased variation in their mtDNA sequences, suggesting mildly deleterious effects for these substitutions. Two of the new mutations were suggested as putatively pathogenic.

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5

Cannon, Paula Marie. "A sequence-directed analysis of plasmid NTP16". Thesis, University of Liverpool, 1989. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.280919.

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6

Joseph, Ansamma K. "DNA sequence analysis of T cell receptors". Thesis, University of Bath, 1996. https://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.321849.

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7

Hultin, Emilie. "Genetic Sequence Analysis by Microarray Technology". Doctoral thesis, Stockholm : School of Biotechnology, Royal Institute of Technology, 2007. http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-4330.

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8

Hu, Xinrong. "Molecular Pathogenesis of Cervical Carcinoma : Analysis of Clonality, HPV16 Sequence Variations and Loss of Heterozygosity". Doctoral thesis, Uppsala University, Department of Genetics and Pathology, 2001. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-1448.

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A previous model of morphological pathogenesis assumed that cervical carcinoma is of monoclonal origin and progresses through multiple steps from normal epithelium via CINS into invasive carcinomas. The aim of this study was to investigate the molecular mechanism of pathogenesis of cervical neoplasia.

In the clonality study, we found that 75% (6/8) of informative cases of cervical carcinoma had identical patterns of loss of heterozygosity (LOH) in the multiple synchronous lesions, while the remaining cases had different LOU patterns. In an extensively studied "golden case", the multiple carcinoma and cervical intraepithelial neoplasia (CIN) lesions could be divided into several different clonal groups by the X-chromosome inactivation patterns, HPV 16 mutations and LOH patterns. The biggest clonal family included one CIN II, one CIN III and four carcinoma samples, while four other monoclonal families of carcinoma did not include CIN lesions. These results suggested that cervical carcinoma can be either monoclonal or polygonal and contains clones developing either directly or via multiple steps. In the study of HPV types and HPV16 variations, the results confirmed that specific HPV types are the cause of cervical carcinoma but failed to support the previous opinion that HPV16 E6 variants are more malignant than the prototype. We established a novel classification called oncogene lineage of HPV16, and found that additional variations of HPV 16 oncogenes might be a weak further risk factor for cervical carcinoma. In the study of LOH, we found that interstitial deletion of two common regions of chromosome 3p, i.e., 3p2l.1-3p2l.3, and 3p22, was an early event in the development of cervical carcinoma. The results showed that the hMLH1 gene, located in 3p22 and showing LOH in 43% of the studied cases, was not involved in the development of cervical carcinoma because neither the expression level of protein nor the gene sequence was altered in these cases.

In summary, a suggested model of molecular pathogenesis of cervical carcinoma is as follows. Specific types of HPV infect one or more committed stem cells in the basal layer of the epithelium. Fully efficient LOH events turn one (monoclonal origin) or more (polyclonal origin) HPV-infected stem cells into carcinoma cells without CIN steps. Less efficient LOH events would lead to CIN steps where some other unknown factors require to be added to facilitate the formation of carcinoma. In the absence of LOH events no carcinoma develops from the HPV-infected stem cells.

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9

Maskos, Uwe. "A novel method of nucleic acid sequence analysis". Thesis, University of Oxford, 1991. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.306792.

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10

Thompson, James. "Genetic algorithms applied to biological sequence analysis /". Link to online version, 2006. https://ritdml.rit.edu/dspace/handle/1850/2269.

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11

Sonnhammer, Erik Leonard Laage. "Classification of protein domain families for genomic sequence analysis". Thesis, Open University, 1996. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.336799.

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12

Wilson, Daniel John. "Multilocus sequence analysis of the pathogen Neisseria meningitidis". Thesis, University of Oxford, 2005. http://ora.ox.ac.uk/objects/uuid:da523097-d805-45cc-93c6-112c8ee7b101.

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Neisseria meningitidis is the bacterium responsible for meningococcal meningitis and septicaemia in humans. Meningococcal disease is primarily a disease of young children, characterized by rapid deterioration from first symptoms to death, with an 11% fatality rate and a global distribution. Patterns of genetic diversity in meningococcal populations provide an account of their evolutionary history and structure, which can be inferred by population genetics modelling. Understanding these phenomena can inform control and prevention strategies, and provides interesting case studies in evolution. The aim of this thesis is to develop population genetics techniques for inferring the evolutionary history of meningococci. I begin by reviewing the field, and justifying the use of coalescent methods in modelling microparasite populations. Inference on carriage populations of meningococci under the standard neutral model and the neutral microepidemic model is performed using a modification to approximate Bayesian computation. AMOVA and Mantel tests are used to quantify the differentiation between carriage and disease populations, and the extent to which geography and host age structure carriage populations. The results are used to propose revised coalescent models for meningococcal evolution. The role of natural selection in shaping meningococcal diversity is investigated using a novel method that utilises an approximation to the coalescent and reversible-jump Markov chain Monte Carlo to detect sites under selection in the presence of recombination. Having performed a simulation study to assess the statistical properties of the method, I apply it to the porB antigen locus and seven housekeeping loci in N. meningitidis. There is strong evidence for selection imposed by the host immune system in the antigen locus, but not the housekeeping loci which are functionally constrained. Finally I discuss the future direction of population genetic approaches to understanding infectious disease.

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13

Jones, Melissa. "Sequence Capture Baits for Genetic Analysis in Anatidae". Thesis, University of California, Davis, 2019. http://pqdtopen.proquest.com/#viewpdf?dispub=13419913.

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This project aims to develop a panel of sequence capture baits to use for SNP genotyping for pedigree analysis in Wood Ducks (Aix sponsa ) as well as for general population genetic analysis within species in the family Anatidae. SbfI RAD libraries were prepared with samples comprising five duck species (N = 96). Sequenced libraries were aligned to the Mallard (Anas platyrhynchos) reference genome and screened for 120bp regions proximal to the SbfI cutsite that contained SNPs conserved collectively in each species. A series of screenings identified regions which were used to produce 2,508 custom sequence capture baits. These baits were tested in novel individuals from the same species used to design the baits as well as novel species representing different taxonomic ingroup and outgroup levels within Aves. These baits delineate species at various taxonomic scales, even above the taxonomic level that was originally targeted and will prove useful for analyses of population and comparative genetics for species of Anatidae and perhaps more broadly.

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14

Lundmark, Per Erik. "Genetic and Genomic Analysis of DNA Sequence Variation". Doctoral thesis, Uppsala universitet, Molekylär medicin, 2011. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-158486.

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The studies in this thesis describe the application of genotyping and allele specific expression analysis to genetic studies. The role of the gene NPC1 in Triglyceride metabolism was explored in mouse models and in humans on the population level in study I. NPC1 was found to affect hepatic triglyceride metabolism, and to be relevant for controlling serum triglyceride levels in mice and potentially in humans. In study II the utility of the HapMap CEU samples was investigated for tagSNP selection in six European populations. The HapMap CEU was found to be representative for tagSNP selection in all populations while allele frequencies differed significantly in the sample from Kuusamo, Finland. In study III the power of Allele specific expression as a tool for the mapping of cis-regulatory variation was compared to standard eQTL analysis, ASE was found to be the more powerful type of analysis for a similar sample size. Finally ASE mapping was applied to regions reported to harbour long non-coding RNAs and associated SNPs were compared to published trait-associations. This revealed strong cis-regulatory SNPs of long non-coding RNAs with reported trait or disease associations.

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15

Taylor, Frances Mary. "Sequence and analysis of the cnjB gene from Tetrahymena thermophila". Thesis, McGill University, 1993. http://digitool.Library.McGill.CA:80/R/?func=dbin-jump-full&object_id=41772.

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The nucleotide sequence of cnjB, a conjugation specific gene of Tetrahymena thermophila, has been determined. The gene encodes a putative polypeptide (CnjB) of 1748 amino acids with a calculated molecular weight of 200 kilodaltons and a pI of 7.9. Four transcription start sites were mapped. The gene has only one genomic copy and is not conserved in yeast (as determined by cross-hybridization experiments with yeast DNA). Analysis of the 13 introns in cnjB, accompanied by 15 other T. thermophila intron sequences, shows that they resemble the nuclear pre-mRNA introns of other eukaryotes.
The carboxy-terminal third of CnjB has three regions with repetitive sequences. One region contains seven retroviral-type zinc fingers and the others contain repeated glycine-rich motifs, a motif seen in the heterogeneous nuclear ribonuclear proteins A1 and A2/B1. Proteins with these motifs have single-strand binding and strand annealing activity.
Synthetic phosphorothioate oligonucleotides antisense to regions of the isoleucyl tRNA synthetase gene transcript did not affect cell growth in a sequence-specific manner when cultures of T. thermophila were grown in their presence.

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16

Hilbert, Helmut. "Sequence and analysis of the genome of the bacterium Mycoplasma pneumoniae". Thesis, Open University, 1995. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.296610.

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17

Adhikari, Kaustubh. "Statistical Methodology for Sequence Analysis". Thesis, Harvard University, 2012. http://dissertations.umi.com/gsas.harvard:10178.

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Rare disease variants are receiving increasing importance in the past few years as the potential cause for many complex diseases, after the common disease variants failed to explain a large part of the missing heritability. With the advancement in sequencing techniques as well as computational capabilities, statistical methodology for analyzing rare variants is now a hot topic, especially in case-control association studies. In this thesis, we initially present two related statistical methodologies designed for case-control studies to predict the number of common and rare variants in a particular genomic region underlying the complex disease. Genome-wide association studies are nowadays routinely performed to identify a few putative marker loci or a candidate region for further analysis. These methods are designed to work with SNP data on such a genomic region highlighted by GWAS studies for potential disease variants. The fundamental idea is to use Bayesian methodology to obtain bivariate posterior distributions on counts of common and rare variants. While the ﬁrst method uses randomly generated (minimal) ancestral recombination graphs, the second method uses ensemble clustering method to explore the space of genealogical trees that represent the inherent structure in the test subjects. In contrast to the aforesaid methods which work with SNP data, the third chapter deals with next-generation sequencing data to detect the presence of rare variants in a genomic region. We present a non-parametric statistical methodology for rare variant association testing, using the well-known Kolmogorov-Smirnov framework adapted for genetic data. it is a fast, model-free robust statistic, designed for situations where both deleterious and protective variants are present. It is also unique in utilizing the variant locations in the test statistic.

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18

Wong, Yin-pui. "Comparative analysis of mitochondrial genome sequences of penicillium and aspergillus species". Thesis, The University of Hong Kong (Pokfulam, Hong Kong), 2010. http://hub.hku.hk/bib/B44658758.

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19

Lin, Yonggu 1963. "Sequence analysis of a follicle cell-specific gene from the mosquito, Aedes aegypti". Thesis, The University of Arizona, 1991. http://hdl.handle.net/10150/277858.

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The follicle cell-specific (FCS) gene, a 3,023 bp gene specific to follicle cells of the mosquito, Aedes aegypti, was characterized at the nucleotide level. Genomic Southern blots demonstrated that there was only one copy of this gene in the A. aegypti genome. An ovary-specific cDNA library was constructed from female mosquitoes 24 hours post blood meal. Then a cDNA clone containing the complete coding region was identified, and its nucleotide sequence was determined. The deduced protein contained unusually high levels of alanine and proline. Search of a protein data base revealed that the FCS gene was similar to Drosophila vitelline membrane protein genes, with 47.5% similarity in nucleotide sequence and 46.7% similarity in amino acid sequence. The conserved hydrophobic regions from several vitelline membrane proteins were compared. Another cDNA clone, 1D, was isolated from the cDNA library screened with the FCS gene. These two mosquito genes shared a 60% similarity at the nucleic acid level and a 79.8% similarity at the amino acid level.

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20

Tu, Liwen. "Cloning and sequence analysis of multiple genes from Bifidobacterium infantis /". free to MU campus, to others for purchase, 2004. http://wwwlib.umi.com/cr/mo/fullcit?p3137758.

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21

Daly, Mark K. "DNA sequence and structure analysis of the Drosophila gene Polyhomeotic". Thesis, University of British Columbia, 1990. http://hdl.handle.net/2429/28956.

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polyhomeotic is a gene of the Polycomb-group required for proper segment determination in Drosophila. Genetic and molecular analysis has shown that ph has a repetetive structure. The DNA sequence presented here shows that ph consists of a direct tandem duplication with very high sequence conservation. Analysis of the sequence has revealed several conserved open reading frames and splice junctions, putative transcriptional promoter and terminator sequences, polyadenylation signals and translational start signals. In addition, the DNA sequence shows that ph contains a zinc finger sequence in each repeat. This suggests that ph may encode a DNA-binding protein.
Science, Faculty of
Zoology, Department of
Graduate

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22

Fulop, Lynda Dorothy. "Molecular analysis of flavivirus genome sequences : implications for virus classification". Thesis, University of Surrey, 1995. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.308496.

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23

Bickmore, Wendy Anne. "Molecular analysis of DNA sequences from the human Y chromosome". Thesis, University of Edinburgh, 1986. http://hdl.handle.net/1842/10808.

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24

Hsieh, Jui-Cheng. "Structure-function analysis of the bacteriophage PRD1 DNA terminal protein: Nucleotide sequence, overexpression, and site-directed mutagenesis of the terminal protein gene". Diss., The University of Arizona, 1990. http://hdl.handle.net/10150/184974.

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The nucleotide sequence of the PRD1 terminal protein gene has been determined. The coding region for PRD1 terminal protein is 777 base pairs long and encodes 259 amino acid residues (29,326 daltons). The deduced amino acid sequence of PRD1 terminal protein reveals no overall homology with other known terminal proteins or related proteins. A closer examination revealed a highly conserved amino acid sequence, YSRLRT, exist among all identified DNA terminal proteins including PRD1, PZA, Nf, φ29 and adenovirus. This is the first conserved amino acid sequence that has been found in all identified DNA terminal proteins. Not only is the YSRLRT sequence conserved, but its spatial location is similar as well. Therefore, the significance of the YSRLRT conserved sequence is suggested by both its conservative spatial location and high degree of homology across species. To study the structure-function relationship of the YSRLRT sequence of PRD1 terminal protein, in vitro site-directed mutagenesis was performed to determine the role of each amino acid in this conserved region. The PRD1 terminal protein and DNA polymerase genes were cloned into phagemid pEMBLex3, and the recombinant plasmid used for constructing mutants. Eleven PRD1 terminal protein mutant clones were examined for their priming complex formation activities. Our results have strongly demonstrated that the positive charge residue of arginine-174 plays an important role for PRD1 terminal protein function. There are 13 tyrosine residues in the predicted PRD1 terminal protein. It was of interest to known which tyrosine is actually linked to terminal nucleotide of the PRD1 DNA. We used a new approach involving replacing the tyrosine residues with phenylalanine residues in the carboxyl terminal portion of the protein. From analyses, the tyrosine-190 has been determined to be the most likely linkage site between terminal protein and PRD1 DNA.

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25

Riley, Susan. "Molecular analysis of the human X-chromosomal hypervariable sequence (DXS255) and its surrounding region". Thesis, University of Oxford, 1993. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.335814.

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26

Tsang, Yee-man Vivien. "Development of a multilocus sequence typing method for analysis of Laribacter hongkongensis". Click to view the E-thesis via HKUTO, 2004. http://sunzi.lib.hku.hk/hkuto/record/B31972238.

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27

Tsang, Yee-man Vivien y 曾綺雯. "Development of a multilocus sequence typing method for analysis of Laribacter hongkongensis". Thesis, The University of Hong Kong (Pokfulam, Hong Kong), 2004. http://hub.hku.hk/bib/B31972238.

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28

Alderson, Alison Louise. "Sequence analysis and molecular cloning of enzyme inhibitors from seeds of rye (Secale cereale L.)". Thesis, Durham University, 1990. http://etheses.dur.ac.uk/6613/.

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Inhibitors of trypsin (EC 3.4.21.4) and a-amylase (1,4-a-D-glucan glucanohydrolase, EC 3.2.1.1) were purified from seeds of rye and their complete and partial amino-acid sequences, respectively, were determined, in part by homology. The trypsin inhibitor was a single polypeptide chain of Mr 13753. Both proteins exhibited sequence homology with a group of cereal seed proteins that include inhibitors of proteinases and a-amylase. The trypsin inhibitor was most closely related to the barley trypsin inhibitor (76% identity) and the a-amylase inhibitor to CMa of barley (also an inhibitor of a-amylase activity) and to CMl1and CM2 of wheat (no known inhibitory activity). Antisera raised against the two inhibitors did not cross react, but the a-amylase inhibitor reacted with an antiserum raised against the 0.28 a-amylase inhibitor of wheat. The rye inhibitors had similar secondary structure contents with about 36-39% a-helix and 11-19% 13-sheet. These are the first amino-acid sequence and conformation studies reported for enzyme inhibitors from rye. Poly(A)-rich RNA from total polysomes, prepared from rye endosperms, was used as a template for cDNA synthesis and a cDNA library was constructed in AgtlO. The library was screened using two oligonucleotide probes which encoded two regions of the trypsin inhibitor (from amino-acids 38-42 and 44-48).One clone was isolated that hybridised to both probes. The nucleotide sequence of the clone AC(C.In) was determined. 1709 bp were sequenced showing an open reading frame that extended from the 5' end to 1621 and encoded a protein of 540 residues. The predicted amino-acid sequence showed striking sequence similarity to the serine/threonine SNFl subfamily of protein kinases with 62% and 48% identity, respectively, to the catalytic domains of SNFl and niml(^+). The functions of the SNFl subfamily are discussed.

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29

Sharma, H. W. "Identification, cloning and DNA sequence analysis of the nitrogen regulation gene NTRC of Agrobacterium tumefaciens". Thesis, University of Leeds, 1988. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.333052.

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30

Beesley, Clare Elizabeth. "The analysis of heterocyst-specific sequences from the cyanobacterium nostoc PCC 6720". Thesis, Lancaster University, 1994. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.239072.

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31

Maydt, Jochen. "Analysis of recombination in molecular sequence data". Aachen Shaker, 2008. http://d-nb.info/993318045/04.

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32

Bettini, Natalia. "NOS-related natural antisense transcripts : sequence analysis and characterization of expression". Thesis, University of Sussex, 2011. http://sro.sussex.ac.uk/id/eprint/7420/.

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Endogenous nitric oxide (NO) produced by the enzyme NO synthase (NOS) has an important role in a variety of physiological processes. However, NO becomes noxious to cells if produced in excess. Therefore, the production of NO is tightly regulated. A particularly exciting and novel aspect of the regulation of NO signalling is the possibility that the expression of NOS genes is controlled by unconventional mechanisms that depend on the presence of natural antisense transcripts (NATs). In this thesis I investigate the important properties of two distinct NOS-related NATs: Lym-antiNOS2 and Mm-antiNOS1. I show that Lym-antiNOS2 RNA is widely expressed in the CNS of the pond snail Lymnaea stagnalis. Furthermore, I demonstrate that the expression of Lym-antiNOS2 is differentially regulated by training leading to long-term memory formation. Moreover, my results indicate that Lym-antiNOS2 RNA is subjected to peripheral trafficking in neurons. As for Mm-antiNOS1, I find that its expression is restricted to embryonic brain tissue and is almost undetectable in the adult brain of Mus musculus.

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33

GARVEY, KEVIN JAMES. "DNA SEQUENCE ANALYSIS OF BACILLUS PHAGE PHI29 RIGHT EARLY REGION AND LATE GENES 14, 15 AND 16 (LYSOZYME)". Diss., The University of Arizona, 1986. http://hdl.handle.net/10150/183839.

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The sequence of the rightmost 4,626 bp of the Bacillus phage φ29 genome is presented and analyzed. Nine large open reading frames (ORF's) have been found. Three of these ORF's are correlated with the late genes 14, 15 and 16. The remaining six ORF's are in the right early region. One of these early ORF's has been identified as gene 17 (g17), the only early gene to have been genetically mapped in this region. The remaining ORF's (16.5, 16.6, 16.7, 16.8 and 16.9) were previously unknown. The biological efficacies of some of these putative early ORF's were demonstrated using an in vitro E. coli transcription-translation system. The primary amino acid sequences, molecular weights, translational initiation sequences and genetic organization of these nine genes are presented and discussed. Gene product 15 (gp15) was found to have strong homology with Salmonella phage P22 gp19, a lysozyme. gp15 also has a lesser but possibly significant homology with T4 gene product e (gpe), also a lysozyme. Using a clone containing φ29 g15 it was shown that gp15 can complement T4 gene e (ge) mutant infections, leading to the conclusion that φ29 g15 encodes a lysozyme. Three transcriptional initiation sites (P(E)3, P(EC)3 and B2) were previously mapped in this region. The sequences of the putative P(EC)3 and B2 promoter sites are presented and shown to have homology with the Bacillus σ⁵⁵ concensus sequence. Sequences having homology to a minor Bacillus sigma factor recognition site, σ³², are also presented and discussed. The region between the last late gene (g16) and the last early gene (ORF-16.5) consists of only 30 bp. Analysis of potential secondary structures of transcripts across this region suggests that the same sequences may be involved in the termination of both late and early transcription.

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34

Scott, Simon David. "Identification and sequence analysis of the thymidine kinase and flanking genes in two Marek's disease herpesviruses". Thesis, University of Cambridge, 1989. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.334194.

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35

Webster, Matthew Thomas. "Molecular and population genetic analysis of allelic sequence diversity in the human #beta#-globin gene cluster". Thesis, University of Oxford, 2000. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.365781.

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36

Hatt, Christopher. "Cloning and analysis of the nucleotide sequence of the cryptic plasmid of Chlamydia trachomatis serovar L1". Thesis, University of Southampton, 1991. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.316303.

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37

Yong, Mark. "Cloning and analysis of DNA ligase sequences from Arabidopsis thaliana and Hansenula polymorpha". Thesis, University of Oxford, 1993. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.386734.

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38

Watts, Talina Christensen. "Genetic analysis of the role of SmpB in determining frame on tmRNA /". Diss., CLICK HERE for online access, 2008. http://contentdm.lib.byu.edu/ETD/image/etd2501.pdf.

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39

Lovmar, Lovisa. "Methods for Analysis of Disease Associated Genomic Sequence Variation". Doctoral thesis, Uppsala : Acta Universitatis Upsaliensis : Univ.-bibl. [distributör], 2004. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-4525.

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40

Baker, Anne-Marie. "Natural resistance-associated macrophage protein (Nramp) : genetic mapping around the locus on chromosome 1 and comparative sequence analysis". Thesis, University of Cambridge, 1995. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.388368.

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41

Divne, Anna-Maria. "Evaluation of New Technologies for Forensic DNA Analysis". Doctoral thesis, Uppsala : Acta Universitatis Upsaliensis : Univ.-bibl. [distributör], 2005. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-5744.

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42

Kothiyal, Prachi. "Detection and Classification of Sequence Variants for Diagnostic Evaluation of Genetic Disorders". University of Cincinnati / OhioLINK, 2010. http://rave.ohiolink.edu/etdc/view?acc_num=ucin1275922297.

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43

Lu, Yang 1972. "High throughput study of the translational effect of human single nucleotide polymorphisms". Thesis, McGill University, 2008. http://digitool.Library.McGill.CA:80/R/?func=dbin-jump-full&object_id=116089.

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Introduction: As a part of the Gene Regulators in Disease project (GRID), this study aims to create a novel high throughput method to discover the genetic effect on gene translation, taking advantage of the rationale that efficiently translated mRNAs associate with multiple ribosomes, while less active ones with fewer or none.
Methods: Lymphoblastoid cell lines (LCLs) from 44 HapMap European individuals were used for polyribosomal fractionation and establishing the sample bank for the future study. The fractionated mRNA samples of 10 out of the 44 individuals were run on an Illumina GoldenGate Beadarray to detect allelic imbalance (developed by the group of T.J. Hudson and T.M. Pastinen).
Results: This study established a high-quality RNA bank, including 1,100 RNA fraction samples. By the Illumina chip, translational imbalance was detected in 75 out of 1483 (5.06%) assays, and 63 out of269 (23.4%) genes. The translational effect was well replicable by the resequencing method.
Conclusion: This study found that genetic effect on gene translation is a common mechanism of expression regulation. Our best hit found in the integrin beta 1 binding protein 1 gene (ITGB1BP1 ) highlights the role of mRNA 3'UTR secondary structure in gene translation.
Keywords: Gene translation, High throughput genotyping, Human genetics, Polyribosome, RNA, Single nucleotide polymorphism

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44

Chung, Denise T. "The development of novel STR miniplex primer sets for the analysis of degraded and compromised DNA samples". Ohio : Ohio University, 2004. http://www.ohiolink.edu/etd/view.cgi?ohiou1097609199.

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45

Nilsson, Martina. "Mitochondrial DNA in Sensitive Forensic Analysis". Doctoral thesis, Uppsala : Acta Universitatis Upsaliensis : Univ.-bibl. [distributör], 2007. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-7458.

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46

Micklem, Thomas Gospatric. "Analysis of HMR silencer sequences and identification of two HMR-specific SIR genes in Saccharomyces cerevisiae". Thesis, University of Cambridge, 1989. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.317885.

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47

Dunning, Ted Emerson. "Finding structure in text, genome and other symbolic sequences". Thesis, University of Sheffield, 1998. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.310811.

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48

Perry, L. J. "DNA sequence analysis of the repeat and adjoining unique region of the long segment of Herpes Simplex Virus Type 1". Thesis, University of Glasgow, 1986. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.376190.

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49

Libby, Eric. "Investigations into the design and dissection of genetic networks". Thesis, McGill University, 2007. http://digitool.Library.McGill.CA:80/R/?func=dbin-jump-full&object_id=103265.

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The sequencing of the human genome revealed that the number of genes does not explain why humans are different from other organisms like mice and dogs. Instead, it is how genes interact with each other and the environment that separates us from other organisms. This motivates the study of genetic networks and, consequently, my research. My work delves into the roles that simple genetic networks play in a cell and explores the biotechnological aspects of how to uncover such genes and their interactions in experimental models.
Cells must respond to the extracellular environment to contract, migrate, and live. Cells, however, are subject to stochastic fluctuations in protein concentrations. I investigate how cells make important decisions such as gene transcription based on noisy measurements of the extracellular environment. I propose that genetic networks perform Bayesian inference as a way to consider the probabilistic nature of these measurements and make the best decision. With mathematical models, I show that allosteric repressors and activators can correctly infer the state of the environment despite fluctuating concentrations of molecules. Viewing transcriptional networks as inference modules explains previous experimental data. I also discover that the particular inference problem determines whether repressors or activators are better.
Next, I explore the genetic underpinnings of two canine models of atrial fibrillation: atrial tachypacing and ventricular tachypacing. Using Affymetrix microarrays, I find that the genetic signatures of these two models are significantly different both in magnitude and in class of genes expressed. The ventricular tachypacing model has thousands of transcripts differentially expressed with little overlap between 24 hours and 2 weeks, suggesting independent mechanisms. The atrial tachypacing model demonstrates an adaptation as the number of genes found changed decreases with increasing time to the point that no genes are changed at 6 weeks. I use higher level analysis to find that extracellular matrix components are among the most changed in ventricular tachypacing and that genes like connective tissue growth factor may be responsible.
Finally, I generalize the main problem of microarray analysis into an evaluation problem of choosing between two competing options based on the scores of many independent judges. In this context, I rediscover the voting paradox and compare two different solutions to this problem: the sum rule and the majority rule. I find that the accuracy of a decision depends on the distribution of the judges' scores. Narrow distributions are better solved with a sum rule, while broad distributions prefer a majority rule. This finding motivates a new algorithm for microarray analysis which outperforms popular existing algorithms on a sample data set and the canine data set examined earlier. A cost analysis reveals that the optimal number of judges depends on the ratio of the cost of a wrong decision to the cost of a judge.

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50

Tobin, Allison Claire Simmons. "Patenting human genetic sequences : a comparative analysis of intellectual property protection policies". Thesis, Georgia Institute of Technology, 1994. http://hdl.handle.net/1853/31043.

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Tesis sobre el tema "Genetics, Sequence Analysi"

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