Dissertations / Theses on the topic 'CpG Islands'
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Thomson, John Paterson. "Defining the protein complement of CpG islands." Thesis, University of Edinburgh, 2011. http://hdl.handle.net/1842/4885.
Full textWachter, Elisabeth. "Influence of CpG islands on chromatin structure." Thesis, University of Edinburgh, 2014. http://hdl.handle.net/1842/9369.
Full textLongman, Dagmar. "Contribution of CpG islands to ubiquitous gene expression." Thesis, University of Edinburgh, 1997. http://hdl.handle.net/1842/15231.
Full textBrown, David. "Understanding the role of CFP1 at CpG islands." Thesis, University of Oxford, 2014. http://ora.ox.ac.uk/objects/uuid:baf2e91a-4417-407a-8938-bbef1f6c411f.
Full textSertedaki, Amalia. "Study of hypervariable regions and CpG islands in human genomic DNA." Thesis, University of Newcastle Upon Tyne, 1994. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.238783.
Full textFarcas, Anca Madalina. "KDM2B links recognition of CpG islands to polycomb domain formation in vivo." Thesis, University of Oxford, 2013. http://ora.ox.ac.uk/objects/uuid:cc773afe-703c-4b43-a792-7ee7ba333bcd.
Full textZheng, Hao. "Prediction and analysis of the methylation status of CpG islands in human genome." Diss., Georgia Institute of Technology, 2012. http://hdl.handle.net/1853/43631.
Full textKing, Hamish. "Molecular determinants of chromatin accessibility at CpG islands in mouse embryonic stem cells." Thesis, University of Oxford, 2017. https://ora.ox.ac.uk/objects/uuid:53ceabe6-40ba-402e-a430-7474eac30f93.
Full textAuchincloss, Catherine Anne. "Investigations into mouse trinucleotide repeat arrays and their putative association with CpG islands." Thesis, University of Edinburgh, 2001. http://hdl.handle.net/1842/23129.
Full textWong, David J. S. "Methylation of the p16 CpG island during neoplastic progression /." Thesis, Connect to this title online; UW restricted, 2000. http://hdl.handle.net/1773/5074.
Full textDeaton, Aimée M. "Role of CpG island methylation and MBD2 in immune cell gene regulation." Thesis, University of Edinburgh, 2010. http://hdl.handle.net/1842/4758.
Full textLi, Long. "Involvement of DNA methylation and CpG nuclease in environmental carcinogenesis and cancer chemoprevention." Connect to full-text via OhioLINK ETD Center, 2006. http://rave.ohiolink.edu/etdc/view?acc%5Fnum=mco1147792824.
Full text"In partial fulfillment of the requirements for the degree of Doctor of Philosophy in Medical Sciences." Major advisor: Michael A. Pereira. Includes abstract. Document formatted into pages: v, 152 p. Title from title page of PDF document. Title at ETD Web site: Involvement of DNA methylation and CpG endonuclease activity in environmental carcinogenesis and cancer chemoprevention. Bibliography: pages 65-66, 90-92, 123-125, 137-150.
Guillet-Renard, Claire. "Évolution des îlots CpG chez les primates." Thesis, Lyon 1, 2009. http://www.theses.fr/2009LYO10162.
Full textThis thesis analyses selective pressures applying on CpG islands, short sequences which escape methylation in mammalian genomes. We first studied genomic characteristics of CpG islands. We namely studied their relationships with gene transcription start, and with DNA replication origins, using recently published data. We then determined wether base peculiar composition of CpG islands (high number of CpG dinucleotides, high GC content) may be under (negative or positive) selective pressures, and thus play a role in their function, or not. We showed that the relative CpG-richness of CpG islands is the mere consequence of the low methylation of these genomic regions. Moreover, we showed that the high GC content of CpG islands is not under selective pressures, and seem to result from a neutral mechanism, biased gene conversion toward GC. We also discussed the future of CpG islands and primates. We showed that the GC content of CpG islands is decreasing, while the relative CpG content remains constant
Edgar, Rachel. "Meta-analysis of human methylomes reveals stably methylated sequences surrounding CpG islands associated with high gene expression." Thesis, University of British Columbia, 2014. http://hdl.handle.net/2429/50302.
Full textScience, Faculty of
Graduate
Saadeh, Heba. "The role of DNA sequence signals in the epigenetic reprogramming of CpG islands during oogenesis and early embryogenesis." Thesis, King's College London (University of London), 2014. https://kclpure.kcl.ac.uk/portal/en/theses/the-role-of-dna-sequence-signals-in-the-epigenetic-reprogramming-of-cpg-islands-during-oogenesis-and-early-embryogenesis(76174739-3129-4655-b3f7-a72a9ea9a11a).html.
Full textWesterberg, Ivar. "CpG islands, but not their methylation level, are key in the regulation of meiotic recombination in chicken (Gallus gallus)." Thesis, Uppsala universitet, Institutionen för biologisk grundutbildning, 2019. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-376254.
Full textPaci, Giulia. "Statistical methods for the analysis of DNA sequences: application to dinucleotide distribution in the human genome." Master's thesis, Alma Mater Studiorum - Università di Bologna, 2014. http://amslaurea.unibo.it/7615/.
Full textMaldonado, Mariângela Bueno Cordeiro. "Identificação de SNPs em sítios CpG localizados em regiões genômicas relacionadas à produção em bovinos /." Araçatuba, 2017. http://hdl.handle.net/11449/151514.
Full textBanca: Silvia Helena Venturoli Perri
Banca: José Fernando Garcia
Banca: Ricardo da Fonseca
Banca: José bento Sterman Ferraz
Resumo: O objetivo desse estudo foi identificar polimorfismos de nucleotídeo único (SNPs) potencialmente sujeitos a controle epigenético exercido por metilação do DNA via seus envolvimentos na criação, remoção ou deslocamento de sítios CpG (meSNPs) e a partir de tal identificação criar um banco de dados para meSNPs, bem como determinar a possível associação desses marcadores com ilhas CpG (CGIs) e com o perfil metilacional de tecidos submetidos ao ensaio de recuperação de ilhas CpG metiladas combinado com plataformas de sequenciamento de nova geração (MIRA-seq) em bovinos. Usando as variantes anotadas para os SNPs identificados no Run5 do projeto 1000 Bull Genomes e a sequência genômica bovina de referência UMD3.1.1, identificamos e anotamos 12.836.763 meSNPs de acordo com o padrão de variação criado por cada SNP em um sítio CpG. Também analisamos a distribuição genômica desses meSNPs, sendo a maioria deles localizados em regiões intergênicas (68,00%) e intrônicas (26,32%). Globalmente, os meSNPs representam 22,53% dos 56.969.697 SNPs descritos na base de dados e 12,35% deles estão localizados em CGIs. Comparando o número observado com o número esperado de meSNPs nas CGIs e nos tecidos submetidos ao MIRA-seq, verificamos um enriquecimento médio (P<0,01) para meSNPs de 2,47 vezes em CGIs relaxadas e 1,90 vezes em CGIs rigorosas. Nos tecidos, o enriquecimento foi de 1,52 vezes em longissimus dorsi e 2,09 vezes em intestino delgado. Dez meSNPs com metilação diferencial, sendo 1 em longi... (Resumo completo, clicar acesso eletrônico abaixo)
Abstract: The aim of this study was to identify single nucleotide polymorphisms (SNPs) potentially subject to epigenetic control exerted by DNA methylation via their involvement in creating, removing or displacement CpG sites (meSNPs) and from this identification create a database for meSNPs, as well as to determine its possible association with CpG islands (CGIs) and the methylation profile of tissues submitted to the methylated-CpG island recovery assay combined with next generation sequencing platforms (MIRA-seq) in cattle. Using the variant annotations for SNPs identified in Run5 of the 1000 bull genomes project and the UMD3.1.1 bovine reference genome sequence assembly, we identified and classified 12,836,763 meSNPs according to the pattern of variation caused at the CpG site. We have also analyzed the genomic distribution of the meSNPs, with the majority being located in intergenic regions (68.00%) and then in introns (26.32%) and the remainder distributed among proximal promoters (3.93%), coding regions (1.27%), untranslated regions (UTRs) (0.29%), non-coding RNAs (0.11%) and splice regions (0.08%). Overall, meSNPs represent 22.53% of 56,969,697 SNPs described in the database of which 12.35% are located in CGIs. Comparing the observed number with the expected number of meSNPs in the CGIs and tissues submitted to the MIRAseq we found a mean enrichment (P<0.01) for meSNPs of 2.47 times in the relaxed CGIs and 1.90 times in the strict CGIs. In the tissues the enrichment was of 1.52... (Complete abstract click electronic access below)
Doutor
Li, Xiaomeng. "Human Promoter Recognition Based on Principal Component Analysis." Thesis, The University of Sydney, 2008. http://hdl.handle.net/2123/3656.
Full textLi, Xiaomeng. "Human Promoter Recognition Based on Principal Component Analysis." University of Sydney, 2008. http://hdl.handle.net/2123/3656.
Full textThis thesis presents an innovative human promoter recognition model HPR-PCA. Principal component analysis (PCA) is applied on context feature selection DNA sequences and the prediction network is built with the artificial neural network (ANN). A thorough literature review of all the relevant topics in the promoter prediction field is also provided. As the main technique of HPR-PCA, the application of PCA on feature selection is firstly developed. In order to find informative and discriminative features for effective classification, PCA is applied on the different n-mer promoter and exon combined frequency matrices, and principal components (PCs) of each matrix are generated to construct the new feature space. ANN built classifiers are used to test the discriminability of each feature space. Finally, the 3 and 5-mer feature matrix is selected as the context feature in this model. Two proposed schemes of HPR-PCA model are discussed and the implementations of sub-modules in each scheme are introduced. The context features selected by PCA are III used to build three promoter and non-promoter classifiers. CpG-island modules are embedded into models in different ways. In the comparison, Scheme I obtains better prediction results on two test sets so it is adopted as the model for HPR-PCA for further evaluation. Three existing promoter prediction systems are used to compare to HPR-PCA on three test sets including the chromosome 22 sequence. The performance of HPR-PCA is outstanding compared to the other four systems.
Maldonado, Mariângela Bueno Cordeiro [UNESP]. "Identificação de SNPs em sítios CpG localizados em regiões genômicas relacionadas à produção em bovinos." Universidade Estadual Paulista (UNESP), 2017. http://hdl.handle.net/11449/151514.
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Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)
Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)
O objetivo desse estudo foi identificar polimorfismos de nucleotídeo único (SNPs) potencialmente sujeitos a controle epigenético exercido por metilação do DNA via seus envolvimentos na criação, remoção ou deslocamento de sítios CpG (meSNPs) e a partir de tal identificação criar um banco de dados para meSNPs, bem como determinar a possível associação desses marcadores com ilhas CpG (CGIs) e com o perfil metilacional de tecidos submetidos ao ensaio de recuperação de ilhas CpG metiladas combinado com plataformas de sequenciamento de nova geração (MIRA-seq) em bovinos. Usando as variantes anotadas para os SNPs identificados no Run5 do projeto 1000 Bull Genomes e a sequência genômica bovina de referência UMD3.1.1, identificamos e anotamos 12.836.763 meSNPs de acordo com o padrão de variação criado por cada SNP em um sítio CpG. Também analisamos a distribuição genômica desses meSNPs, sendo a maioria deles localizados em regiões intergênicas (68,00%) e intrônicas (26,32%). Globalmente, os meSNPs representam 22,53% dos 56.969.697 SNPs descritos na base de dados e 12,35% deles estão localizados em CGIs. Comparando o número observado com o número esperado de meSNPs nas CGIs e nos tecidos submetidos ao MIRA-seq, verificamos um enriquecimento médio (P<0,01) para meSNPs de 2,47 vezes em CGIs relaxadas e 1,90 vezes em CGIs rigorosas. Nos tecidos, o enriquecimento foi de 1,52 vezes em longissimus dorsi e 2,09 vezes em intestino delgado. Dez meSNPs com metilação diferencial, sendo 1 em longissimus dorsi e 9 em intestino delgado, causaram uma alteração na sequência genômica, a qual está associada ao fenótipo de eficiência alimentar em bovinos.
The aim of this study was to identify single nucleotide polymorphisms (SNPs) potentially subject to epigenetic control exerted by DNA methylation via their involvement in creating, removing or displacement CpG sites (meSNPs) and from this identification create a database for meSNPs, as well as to determine its possible association with CpG islands (CGIs) and the methylation profile of tissues submitted to the methylated-CpG island recovery assay combined with next generation sequencing platforms (MIRA-seq) in cattle. Using the variant annotations for SNPs identified in Run5 of the 1000 bull genomes project and the UMD3.1.1 bovine reference genome sequence assembly, we identified and classified 12,836,763 meSNPs according to the pattern of variation caused at the CpG site. We have also analyzed the genomic distribution of the meSNPs, with the majority being located in intergenic regions (68.00%) and then in introns (26.32%) and the remainder distributed among proximal promoters (3.93%), coding regions (1.27%), untranslated regions (UTRs) (0.29%), non-coding RNAs (0.11%) and splice regions (0.08%). Overall, meSNPs represent 22.53% of 56,969,697 SNPs described in the database of which 12.35% are located in CGIs. Comparing the observed number with the expected number of meSNPs in the CGIs and tissues submitted to the MIRAseq we found a mean enrichment (P<0.01) for meSNPs of 2.47 times in the relaxed CGIs and 1.90 times in the strict CGIs. In the tissues the enrichment was of 1.52 times in ribeye and 2.09 times in small intestine. Ten meSNPs, differing in methylation status, 1 in ribeye and 9 in small intestine, caused an alteration in the genomic sequence which is associated with a feed efficiency phenotype in cattle.
FAPESP: 2015/20557-5
FAPESP: 2016/07584-6
Zeng, Jia. "The evolutionary significance of DNA methylation in human genome." Diss., Georgia Institute of Technology, 2013. http://hdl.handle.net/1853/50308.
Full textAntunes, João André Rodrigues. "Distâncias inter-simbólicas no ADN." Master's thesis, Universidade de Aveiro, 2013. http://hdl.handle.net/10773/12777.
Full textO presente trabalho visou estudar o contributo das distâncias-inter simbólicas na segmentação do ADN. Para esse efeito, foi estudada a segmentação das sequências genómicas em código e não código e em ilhas e não ilhas CpG. Desenvolveu-se um estudo das distâncias inter-trinucleótidas no contexto da identificação de regiões codificantes e das distâncias inter-dinucleótidas para a identificação de ilhas CpG. Com base nestas distâncias foi analisado o desempenho de um algoritmo para discriminação de regiões de código e não código, tendo os resultados evidenciado haver ainda margem para aperfeiçoamento e foi desenvolvido um algoritmo para identificação de ilhas CpG tendo as taxas de boa classificação atingido valores elevados.
The present work aimed to study the contribution of the inter-symbolic distances in DNA segmentation. To this end, the segmentation of genomic sequences into coding and non coding regions and CpG islands and non CpG islands was studied. A study of the inter-trinculeotide distances in the context of identifying coding regions and of the inter-dinucleotide distances for identifying CpG islands was developed. Based on these distances the performance of an algorithm to discriminate coding and non coding regions was analyzed, with the results showing there is still room for improvement and an algorithm for identification of CpG islands was designed, resulting in high values of good classification rates.
Millán, Ariño Lluís 1984. "Genomic distribution and functional specificity of human histone H1 subtypes." Doctoral thesis, Universitat Pompeu Fabra, 2013. http://hdl.handle.net/10803/292370.
Full textFins a set variants de la histona H1 s han identificat en mamífers, les quals mostres una prevalença diferent entre tipus cel lulars i durant el procés de diferenciació. Tot i que la histona H1 juga un paper clau en l estructuració de la cromatina, no s acaba d entendre encara com participa exactament en els diferent processos cel lulars. A més a més, encara no està clar si les diferents variants tenen funcions específiques ni si es distribueixen igual al llarg del genoma. Mitjançant anticossos específics per algunes variants d H1 i de línies cel lulars de càncer de mama que expressen H1s recombinant fusionades a un pèptid HA, s ha estudiat la distribució genòmica de H1.2 a H1.5, H1.0 i H1X, combinant ChIP-qPCR, ChIP-chip i ChIP-seq. Totes les H1s es troben a promotors gènics i empobrides a l inici de transcripció dels gens actius, i també a les regions reguladores. El grau de disminució d H1 al promotor depèn de l estat transcripcional del gen i presenta diferències entre variants. Els anàlisis mostren que la histona H1 no es distribueix uniformement al genoma i que hi ha diferències entre variants, essent H1.2 la variant que presenta un patró més específic i una correlació més forta amb repressió gènica a cèl lules de càncer de mama. Aquests resultats suggereixen que variants d H1 diferents es troben presents als diversos tipus de cromatina, i aquest fet podria dependre de la línia cel lular, l estat de diferenciació, o de si les cèl lules s han originat durant un procés neoplàsic. En una segona part de la tesi, es mostra que una línia cel lular anteriorment descrita que inhibeix H1.4 presenta un efecte inespecífic contra lamina B2. Així, s ha desenvolupat una altra línia que inhibeix H1.4 específicament, la qual s assembla a un mutant anteriorment caracteritzat que inhibeix H1.2. Finalment, la inhibició combinada de H1.4/lamina B2 i H1.2/H1.4 provoca efectes fenotípics semblants a cèl lules de càncer de mama T47D.
Cluny, Vasco Silva Oliveira. "Exploratory study of age related epigenomic patterns." Master's thesis, Universidade de Aveiro, 2016. http://hdl.handle.net/10773/17887.
Full textSabe-se hoje que o genoma humano, para além da sua sequencia nucleotídica, revela várias alterações químicas no DNA, nomeadamente metilações das citosinas. Estas modificações estabelecem padrões específicos que podem ser transmitidos de uma geração para a seguinte e exercem controlo sobre os genes que são expressos a cada momento nas células, tecidos ou orgãos. Esta tese teve como objectivos: explorar as principais bases de dados que contêm dados epigenómicos relevantes; obter ficheiros fastq de bibliotecas bisulfite-seq aplicando métodos de data mining a dados reais de bases de dados públicas de sequenciação de segunda geração; alinhar e mapear estes ficheiros usando software adequado (Methy-Pipe); fazer uma análise comparative por forma obter características associadas ao envelhecimento saudável de indivíduos e á evolução do epigenoma ao longo da vida; finalmente é esperado que, após atingidos os objectivos anteriores, se perceba o contributo do epienoma no envelhecimento saudável das populações .
It is already known today, that the human genome, in addition to its nucleotide sequence, shows multiple chemical modifications at the DNA level, namely cytosine methylations. These modifications changes establish specific patterns that can be transmitted from generation to generation and exercise control over the genes that are expressed at every moment in the life of the cells / tissues / organs. This thesis aimed to: understand the contribution of the epigenome to a healthy lifestyle; to explore the main databases containing relevant epigenomic data; to obtain fastq files of bisulfite-seq libraries by applying data mining methods to real data from next generation public databases; to align and map these files using adequate software (Methy Pipe); to do a comparative analysis in order to identify features associable to a healthy aging of individuals and the evolution of the epigenome in humans throughout life.In doing so, it is expected that this work will contribute to the understanding of the contribution of the epigenome to a healthy lifestyle.
Illingworth, Robert S. "Comprehensive analysis of human CpG island methylation." Thesis, University of Edinburgh, 2008. http://hdl.handle.net/1842/10972.
Full textAli, Isse. "Analysing and predicting differences between methylated and unmethylated DNA sequence features." Thesis, De Montfort University, 2015. http://hdl.handle.net/2086/12616.
Full textNerušil, Václav. "Vyhledávání CpG ostrůvků z DNA sekvencí." Master's thesis, Vysoké učení technické v Brně. Fakulta elektrotechniky a komunikačních technologií, 2015. http://www.nusl.cz/ntk/nusl-221308.
Full textLong, Hannah Katherine. "Evolutionary usage and developmental roles of vertebrate non-methylated DNA." Thesis, University of Oxford, 2014. http://ora.ox.ac.uk/objects/uuid:78b14c1d-1fa3-46f1-815f-a8ba55579c43.
Full textGarg, Dharmendra Kumar. "Quantification of CpG island methylation in the human large bowel." Thesis, University of Newcastle upon Tyne, 2006. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.427274.
Full textLadopoulos, Vasileios. "Regulation of CpG island promoters by the histone methyltransferase MLL2." Thesis, University of Birmingham, 2013. http://etheses.bham.ac.uk//id/eprint/4030/.
Full textLiu, Mengning. "Evolutionary landscape of CpG island methylation in X chromosome inactivation." Thesis, University of Cambridge, 2009. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.611328.
Full textRahmatpanah, Farahnaz B. Caldwell Charles W. "Large scale CpG island methylation profiling of small B cell lymphoma." Diss., Columbia, Mo. : University of Missouri-Columbia, 2008. http://hdl.handle.net/10355/6863.
Full textDahlin, Anna. "The CpG island methylator phenotype in colorectal cancer : studies on risk and prognosis." Doctoral thesis, Umeå universitet, Patologi, 2011. http://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-41270.
Full textSiqueira, Flavia Ramos de. "Restrição no consumo de sódio durante a gestação é responsável pelo baixo peso ao nascimento e pela resistência à insulina da prole na idade adulta: estudo do mecanismo epigenético por metilação do DNA." Universidade de São Paulo, 2014. http://www.teses.usp.br/teses/disponiveis/5/5148/tde-13082014-142638/.
Full textIt is known that some maternal nutritional alterations during pregnancy are associated with metabolic disorders in adult offspring, such as insulin resistance, type 2 diabetes mellitus, obesity and arterial hypertension. The period of pregnancy in which these nutritional alterations influence adult offspring remains uncertain. Epigenetic changes are proposed to underlie these metabolic disorders. Twelve-week-old female Wistar rats were fed a low-salt (LS - 0.15% NaCl) or normal-salt (NS - 1.3% NaCl) diet since the first day of gestation until delivery or LS during the first (LS10) or second (LS20) half of gestation. Body weight, food and water intake were weekly evaluated during gestation. Blood glucose, insulin (ITT) and glucose (GTT) tolerance tests, HOMA-IR were performed in adult offspring. Gene expression and DNA methylation were mapped using bisulfite treatment evaluated by pyrosequencing in the male and female neonates and adult offspring. Weight gain was lower in LS and LS20 dams than in NS and LS10 dams in the third week of pregnancy. Birth weights were lower in male and female LS20 and LS rats compared with NS and LS10 neonates. HOMA-IR was higher in 12-week-old LS males compared with NS and in 20-week-old male LS10 rats compared with NS and LS20 rats. In 12-week-old LS10 females, HOMA-IR was higher than in LS. Serum insulin levels were higher in 20 week-old LS10 male compared with NS rats and in 12-week-old LS10 female compared to LS rats. The area under the curve of GTT indicated glucose intolerance in 12- and 20-week-old LS male. Methylation of CpG islands of the Insr, Igf1, Igf1r, Ins1 and Ins2 genes in liver in neonates male and female offspring and liver, white adipose tissue and muscle in 20-week-old male offspring were influenced by low-salt intake during pregnancy. None of these alterations was identified in 20-week-old females. In conclusion, low-salt diet consumption in the second half of pregnancy can result in low birth weights in the males and females offspring. Glucose intolerance observed in adult offspring occurred only if low salt intake was given throughout pregnancy. However, insulin resistance in response to low salt intake during pregnancy is related to the time at which this insult occurs and to the age of the offspring. Alterations in the DNA methylation of Igf1 were observed to be correlated with low birth weight in response to low salt feeding during pregnancy
Gautrey, Hannah Elizabeth. "Age-associated changes in promoter CpG island methylation and their potential role in cancer development." Thesis, University of Newcastle Upon Tyne, 2013. http://hdl.handle.net/10443/1824.
Full textShi, Gongping. "Pattern of RECK CpG methylation as a potential marker for predicting breast cancer prognosis and drug-sensitivity." Kyoto University, 2016. http://hdl.handle.net/2433/216181.
Full textKyoto University (京都大学)
0048
新制・課程博士
博士(医学)
甲第19927号
医博第4147号
新制||医||1017(附属図書館)
33013
京都大学大学院医学研究科医学専攻
(主査)教授 山田 泰広, 教授 妹尾 浩, 教授 武田 俊一
学位規則第4条第1項該当
Vannini, Andrea <1983>. "Transcriptional responses of the Helicobacter pylori cag pathogenicity island." Doctoral thesis, Alma Mater Studiorum - Università di Bologna, 2013. http://amsdottorato.unibo.it/5824/.
Full textAllinen, M. (Minna). "DNA damage response genes and chromosome 11q21-q24 candidate tumor suppressor genes in breast cancer." Doctoral thesis, University of Oulu, 2002. http://urn.fi/urn:isbn:9514267141.
Full textZhu, Yiping [Verfasser]. "Epigenetic regulation of the pKi-67 gene promotor. DNA methylation analysis of its CpG island / Yiping Zhu." Lübeck : Zentrale Hochschulbibliothek Lübeck, 2011. http://d-nb.info/1010394193/34.
Full textBerglund, Jonas. "Meiotic Recombination in Human and Dog : Targets, Consequences and Implications for Genome Evolution." Doctoral thesis, Uppsala universitet, Institutionen för medicinsk biokemi och mikrobiologi, 2014. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-233195.
Full textMacKenzie, Douglas James. "A functional dissection of the relationships between BRAF, DNMT3B and the CpG island methylator phenotype in colorectal cancer." Thesis, University of Glasgow, 2017. http://theses.gla.ac.uk/8867/.
Full textDodge, Jonathan Eldon. "Selective variegated methylation of the p15/INK4B CpG island is a high frequency event in acute myeloid leukemia (AML)." Diss., The University of Arizona, 2000. http://hdl.handle.net/10150/284143.
Full textZhou, Jin Chuan. "Biochemical characterisation of KDM2A." Thesis, University of Oxford, 2012. http://ora.ox.ac.uk/objects/uuid:030faa1d-5d3c-4066-9e9f-a44cd13cf85c.
Full textCorless, Samuel. "Role of DNA supercoiling in genome structure and regulation." Thesis, University of Edinburgh, 2014. http://hdl.handle.net/1842/9623.
Full textTrimarchi, Michael Paul Trimarchi. "Identification of endometrial cancer methylation features using a combined methylation analysis method." The Ohio State University, 2016. http://rave.ohiolink.edu/etdc/view?acc_num=osu1461302615.
Full textKouri, Kimberly. "Genetic characterization and molecular evolution of the cag pathogenicity island of Helicobacter pylori." Thesis, National Library of Canada = Bibliothèque nationale du Canada, 1999. http://www.collectionscanada.ca/obj/s4/f2/dsk1/tape2/PQDD_0029/MQ64384.pdf.
Full textBechtel, Jason M. "Characterization of Genomic MidRange Inhomogeneity." University of Toledo Health Science Campus / OhioLINK, 2008. http://rave.ohiolink.edu/etdc/view?acc_num=mco1217365784.
Full textKgatle, Mankgopo Magdeline. "An investigation of genome-wide promoter region cytosine-phosphate-guanine (CpG) Island methylation profiles in patients with chronic hepatitis B virus infection." Doctoral thesis, University of Cape Town, 2014. http://hdl.handle.net/11427/8800.
Full textHepatitis B virus (HBV) is oncogenic and a major cause of hepatocellular carcinoma (HCC) in the developing world. It integrates parts of its genome such as the HBx gene, core and surface antigens into the human genome. The integrated viral DNA disrupts gene function resulting in physiological changes that cause liver disease. The viral inserts are inactivated through methylation. This is a protective innate response driven by human DNA methyltransferases triggered by the presence of viral DNA inserts. This thesis investigates the hypothesis that during the innate response to methylate integrated HBV DNA, there is unintended methylation of genomic DNA around the intercalated viral DNA that could be adjacent host promoter Cytosine-phosphateGuanine (CpG) islands. This would activate or silence genes including tumour suppressors and result in the clinical disease phenotypes of hepatic inflammation, fibrosis and HCC that characterise chronic HBV infection. Genome-wide microarray analysis was used to investigate for the presence of promoter CpG island methylation in a cohort of patients with liver disease due to HBV infection, HCC, autoimmune hepatitis which is a non-viral liver disease and normal cases with no liver disease. The study identified hypermethylation in promoter regions, transcription start sites, gene exons and introns. Only sites in the promoter region and within 100bp upstream of a transcription start site were analysed for this thesis presentation. Using an extended cohort of patients with chronic HBV infection and normal controls, bisulfite DNA sequencing was used to validate and confirm the presence of DNA methylation in a selection of some of genes identified. HBV infected patients were shown to have hypermethylation in the promoter CpG island regions of several genes that regulate hepatic metabolism, tumour suppression, ribonucleic acid splicing, vitamin D receptor binding, protein ubiquitination and the cell cycle. Many of these genes have transcriptional binding factors that are known to be affected by the transcriptional transactivator HBx protein, suggesting that HBx protein is important in the pathogenesis of liver disease. Amongst the most hypermethylated core promoter regions identified were those for cyclin kinases genes such as Cyclin D3 (CCND3). CCND3 gene is important in liver regeneration and wound healing and its abnormal function has been linked to the development of liver fibrosis and HCC. Increased methylation of CCND3 gene was associated with HBV e antigen positive status and genotype D, supporting the hypothesis that increased methylation is associated with host and viral factors. Methylation induced alteration in the function of the identified gene promoters would affect cellular signalling with effects on cell growth, differentiation, proliferation and apoptosis. These changes would explain the development of hepatic inflammation, apoptosis, fibrosis and malignant transformation seen in chronic HBV infection. Further investigation of these genes will provide new insights on mechanisms of HBV induced liver disease and the development of new molecular diagnostic tools or therapeutic interventions.
Cruz, Guilherme Marcello Queiroga. "Desvendando as interações entre retrotransposons e genomas vegetais, com ênfase em cana-de-açúcar." Universidade de São Paulo, 2014. http://www.teses.usp.br/teses/disponiveis/87/87131/tde-27012015-084619/.
Full textThis doctoral thesis is structured in two chapters. In the first chapter we explore the LTRretrotransposons (LTR-RT) in sugarcane, these results were published in an article entitled \'\'Analysis of plant LTR-etrotransposons at the fine-scale family level reveals individual molecular patterns\'\'. In this paper we show that different sugarcane LTR-RT families have distinct structure and are differentially regulated. In the second chapter we try to find answers to questions that came up in the first half of this work, but instead of focusing in one plant genome we chose to work with the Del lineage of LTR-RT in tem angiosperm sequenced genomes. These results are submitted to publication as an article entitled \'\'Virus-like attachment sites and plastic CpG islands: landmarks of diversity in plant Del retrotransposons\'\'. Our results indicate that the LTR region is dynamic and important in the evolution of LTR-retrotransposons, we speculate that it is a trigger for retrotransposon diversification.