Browsing by Subject "DNA methylation"

Now showing items 1-17 of 17

    • Allele-specific transcriptional elongation regulates monoallelic expression of the igf2bp1 gene 

      Thomas, Brandon J; Rubio, Eric D; Krumm, Niklas; Broin, Pilib Ó; Bomsztyk, Karol; Welcsh, Piri; Greally, John M; Golden, Aaron A; Krumm, Anton (Springer Nature, 2011-01-01)
      Background: Random monoallelic expression contributes to phenotypic variation of cells and organisms. However, the epigenetic mechanisms by which individual alleles are randomly selected for expression are not known. Taking ...

    • An epigenome-wide association study meta-analysis of educational attainment 

      Karlsson Linnér, R; Marioni, R E; Rietveld, C A; Simpkin, A J; Davies, N M; Watanabe, K; Armstrong, N J; Auro, K; Baumbach, C; Bonder, M J; Buchwald, J; Fiorito, G; Ismail, K; Iurato, S; Joensuu, A; Karell, P; Kasela, S; Lahti, J; McRae, A F; Mandaviya, P R; Seppälä, I; Wang, Y; Baglietto, L; Binder, E B; Harris, S E; Hodge, A M; Horvath, S; Hurme, M; Johannesson, M; Latvala, A; Mather, K A; Medland, S E; Metspalu, A; Milani, L; Milne, R L; Pattie, A; Pedersen, N L; Peters, A; Polidoro, S; Räikkönen, K; Severi, G; Starr, J M; Stolk, L; Waldenberger, M; Eriksson, J G; Esko, T; Franke, L; Gieger, C; Giles, G G; Hägg, S; Jousilahti, P; Kaprio, J; Kähönen, M; Lehtimäki, T; Martin, N G; van Meurs, J B C; Ollikainen, M; Perola, M; Posthuma, D; Raitakari, O T; Sachdev, P S; Taskesen, E; Uitterlinden, A G; Vineis, P; Wijmenga, C; Wright, M J; Relton, C; Davey Smith, G; Deary, I J; Koellinger, P D; Benjamin, D J (Springer Nature, 2017-10-31)
      The epigenome is associated with biological factors, such as disease status, and environmental factors, such as smoking, alcohol consumption and body mass index. Although there is a widespread perception that environmental ...

    • Analysis and interpretation of epigenomic patterns in colonic epithelia 

      Barnicle, Alan (2015-12-18)
      The methylation of cytosine nucleotides at the 5' position of DNA is a crucial epigenetic mechanism for the control of gene expression. Epigenome-wide associated studies have demonstrated that specific methylome patterns ...

    • Cmcgg methylation-independent parent-of-origin effects on genome-wide transcript levels in isogenic reciprocal f1 triploid plants 

      Donoghue, M. T. A.; Fort, A.; Clifton, R.; Zhang, X.; McKeown, P. C.; Voigt-Zielinksi, M. L.; Borevitz, J. O.; Spillane, C. (Oxford University Press (OUP), 2013-11-07)
      Triploid F1 hybrids generated via reciprocal interploidy crosses between genetically distinct parental plants can display parent-of-origin effects on gene expression or phenotypes. Reciprocal triploid F1 isogenic plants ...

    • Differential dna methylation patterns of homeobox genes in proximal and distal colon epithelial cells 

      Barnicle, Alan; Seoighe, Cathal; Golden, Aaron; Greally, John M.; Egan, Laurence J. (American Physiological Society, 2016-01-26)
      Region and cell-type specific differences in the molecular make up of colon epithelial cells have been reported. Those differences may underlie the region-specific characteristics of common colon epithelial diseases such ...

    • DNA methylation and zygotic genome activation during early embryogenesis of animals 

      Febrimarsa, Febrimarsa (NUI Galway, 2020-10-25)
      Upon fertilization, after the fusion of two pronuclei, the newly formed zygotic genome is transcriptionally inactive. Hence, early animal development is driven by maternal RNAs and proteins. The zygotic genome becomes ...

    • Epigenetic regulation of NOD-like receptor activity and expression 

      Feerick, Claire L. (NUI Galway, 2018-11-19)
      NOD-like receptors (NLRs) are a family of intracellular pathogen recognition receptors involved in the innate immune response. NOD1 and NOD2 are the best characterised members of this family, and so are the focus of this ...

    • Gene-set analysis is severely biased when applied to genome-wide methylation data 

      Geeleher, Paul; Hartnett, Lori; Egan, Laurance J.; Golden, Aaron; Raja Ali, Raja Affendi; Seoighe, Cathal (Oxford University Press (OUP), 2013-06-03)
      Motivation: DNA methylation is an epigenetic mark that can stably repress gene expression. Because of its biological and clinical significance, several methods have been developed to compare genome-wide patterns of methylation ...

    • Genetic variation indnmt3band increased global dna methylation is associated with suicide attempts in psychiatric patients 

      Murphy, T. M.; Mullins, N.; Ryan, M.; Foster, T.; Kelly, C.; McClelland, R.; O'Grady, J.; Corcoran, E.; Brady, J.; Reilly, M.; Jeffers, A.; Brown, K.; Maher, A.; Bannan, N.; Casement, A.; Lynch, D.; Bolger, S.; Buckley, A.; Quinlivan, L.; Daly, L.; Kelleher, C.; Malone, K. M. (Wiley-Blackwell, 2012-10-26)
      Recently, a significant epigenetic component in the pathology of suicide has been realized. Here we investigate candidate functional SNPs in epigenetic-regulatory genes, DNMT1 and DNMT3B, for association with suicide attempt ...

    • Genomic imprinting effects on complex traits in domesticated animal species 

      O’Doherty, Alan M.; MacHugh, David E.; Spillane, Charles; Magee, David A. (Frontiers Media SA, 2015-04-24)
      Monoallelically expressed genes that exert their phenotypic effect in a parent-of-origin specific manner are considered to be subject to genomic imprinting, the most well understood form of epigenetic regulation of gene ...

    • Identification of imprinted genes subject to parent-of-origin specific expression in arabidopsis thaliana seeds 

      McKeown, Peter C; Laouielle-Duprat, Sylvia; Prins, Pjotr; Wolff, Philip; Schmid, Marc W; Donoghue, Mark TA; Fort, Antoine; Duszynska, Dorota; Comte, Aurélie; Lao, Nga; Wennblom, Trevor J; Smant, Geert; Köhler, Claudia; Grossniklaus, Ueli; Spillane, Charles (Springer Nature, 2011-01-01)
      Background: Epigenetic regulation of gene dosage by genomic imprinting of some autosomal genes facilitates normal reproductive development in both mammals and flowering plants. While many imprinted genes have been identified ...

    • Inflammation-associated dna methylation patterns in epithelium of ulcerative colitis 

      Barnicle, Alan; Seoighe, Cathal; Greally, John M.; Golden, Aaron; Egan, Laurence J. (Informa UK Limited, 2017-05-30)
      Aberrant DNA methylation patterns have been reported in inflamed tissues and may play a role in disease. We studied DNA methylation and gene expression profiles of purified intestinal epithelial cells from ulcerative colitis ...

    • Oup accepted manuscript 

      Unknown author (Oxford University Press (OUP), 2018-01-01)
      Psychosocial adversity in childhood (e.g. abuse) and low socioeconomic position (SEP) can have significant lasting effects on social and health outcomes. DNA methylation-based biomarkers are highly correlated with chronological ...

    • Regulation of nf- b responses by epigenetic suppression of i b  expression in hct116 intestinal epithelial cells 

      O'Gorman, A.; Colleran, A.; Ryan, A.; Mann, J.; Egan, L. J. (American Physiological Society, 2010-04-08)
      O'Gorman A, Colleran A, Ryan A, Mann J, Egan LJ. Regulation of NF-kappa B responses by epigenetic suppression of I kappa B alpha expression in HCT116 intestinal epithelial cells. Am J Physiol Gastrointest Liver Physiol ...

    • Regulation of surfactant protein b gene expression in bone marrow-derived cells 

      Field-Corbett, Ciara; English, Karen; O'Dea, Shirley (Wiley-Blackwell, 2009-03-01)
      While investigating the differentiation potential of bone marrow-derived cells, we previously demonstrated upregulated expression of the lung-related surfactant protein B (SP-B) gene in hematopoietic progenitor cells (HPCs) ...

    • Rna:dna hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships 

      Nadel, Julie; Athanasiadou, Rodoniki; Lemetre, Christophe; Wijetunga, N. Ari; Ó Broin, Pilib; Sato, Hanae; Zhang, Zhengdong; Jeddeloh, Jeffrey; Montagna, Cristina; Golden, Aaron; Seoighe, Cathal; Greally, John M. (Springer Nature, 2015-11-16)
      Background: RNA:DNA hybrids represent a non-canonical nucleic acid structure that has been associated with a range of human diseases and potential transcriptional regulatory functions. Mapping of RNA:DNA hybrids in human ...

    • Understanding the regulation of pattern recognition receptors in inflammatory diseases - a ‘nod’ in the right direction 

      Feerick, Claire L.; McKernan, Declan P. (Wiley-Blackwell, 2016-11-14)
      Nucleotide-binding oligomerization domain (NOD) -like receptors (NLRs) are a family of 23 receptors known as pattern recognition receptors; they are expressed in many cell types and play a key role in the innate immune ...