Bednarek, Piotr T. Orłowska, Renata Niedziela, Agnieszka
Published in
BMC Plant Biology
BackgroundWe present a new methylation-sensitive amplified polymorphism (MSAP) approach for the evaluation of relative quantitative characteristics such as demethylation, de novo methylation, and preservation of methylation status of CCGG sequences, which are recognized by the isoschizomers HpaII and MspI. We applied the technique to analyze alumin...
Cole, John J. Robertson, Neil A. Rather, Mohammed Iqbal Thomson, John P. McBryan, Tony Sproul, Duncan Wang, Tina Brock, Claire Clark, William Ideker, Trey
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Published in
Genome Biology
BackgroundAge-associated epigenetic changes are implicated in aging. Notably, age-associated DNA methylation changes comprise a so-called aging “clock”, a robust biomarker of aging. However, while genetic, dietary and drug interventions can extend lifespan, their impact on the epigenome is uncharacterised. To fill this knowledge gap, we defined age...
Chen, Hong-Chang Huang, Hsuan-Yuan Chen, Yao-Li Lee, Kuan-Der Chu, Yi-Ru Lin, Ping-Yi Hsu, Chia-Chen Chu, Pei-Yi Huang, Tim H.-M. Hsiao, Shu-Huei
...
Published in
Annals of Surgical Oncology
BackgroundMethylation changes within tumor suppressor (TS) genes or polycomb group target (PcG) genes alter cell fates. Chromatin associated with PcG targets is bivalent in stem cells, while TS genes are not normally bivalent. PcG target methylation changes have been identified in tumor stem cells, and abnormal methylation is found in TS genes in c...
Aranyi, Tamas Stockholm, Daniel Yao, Roseline Poinsignon, Catherine Wiart, Thibaut Corre, Guillaume Touleimat, Nizar Tost, Jörg Galy, Anne Paldi, Andràs
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Published in
Epigenetics & Chromatin
BackgroundLentiviral vectors (LV) are widely used for various gene transfer or gene therapy applications. The effects of LV on target cells are expected to be limited to gene delivery. Yet, human hematopoietic CD34+ cells respond to functional LVs as well as several types of non-integrating LVs by genome-wide DNA methylation changes.ResultsA new al...
Lévesque, Nancy Leclerc, Daniel Gayden, Tenzin Lazaris, Anthoula De Jay, Nicolas Petrillo, Stephanie Metrakos, Peter Jabado, Nada Rozen, Rima
Published in
Mammalian Genome
Polymorphisms and decreased activity of methylenetetrahydrofolate reductase (MTHFR) are linked to disease, including cancer. However, epigenetic regulation has not been thoroughly studied. Our goal was to generate DNA methylation profiles of murine/human MTHFR gene regions and examine methylation in brain and liver tumors. Pyrosequencing in four mu...
Ozer, Bugra Sezerman, Osman Uğur
Published in
BMC Genomics
BackgroundRecently, a wide range of diseases have been associated with changes in DNA methylation levels, which play a vital role in gene expression regulation. With ongoing developments in technology, attempts to understand disease mechanism have benefited greatly from epigenetics and transcriptomics studies. In this work, we have used expression ...
Nadeau, Joseph H.
Published in
Genome Biology
Not so fast. The Iqbal et. al. study and the associated Whitelaw commentary highlight the appropriately high standards of study design and interpretation needed to obtain good evidence for or against epigenetic inheritance. Please see related article: www.dx.doi.org/10.1186/s13059-015-0714-1
Prickett, A. R. Ishida, M. Böhm, S. Frost, J. M. Puszyk, W. Abu-Amero, S. Stanier, P. Schulz, R. Moore, G. E. Oakey, R. J.
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Published in
Human Genetics
Silver–Russell syndrome (SRS) is a clinically heterogeneous disorder characterised by severe in utero growth restriction and poor postnatal growth, body asymmetry, irregular craniofacial features and several additional minor malformations. The aetiology of SRS is complex and current evidence strongly implicates imprinted genes. Approximately, half ...
Hesson, Luke B Ward, Robyn L
Published in
Clinical Epigenetics
No abstract
Guilhamon, Paul Butcher, Lee M Presneau, Nadege Wilson, Gareth A Feber, Andrew Paul, Dirk S Schütte, Moritz Haybaeck, Johannes Keilholz, Ulrich Hoffman, Jens
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Published in
Genome Medicine
BackgroundThe use of tumour xenografts is a well-established research tool in cancer genomics but has not yet been comprehensively evaluated for cancer epigenomics.MethodsIn this study, we assessed the suitability of patient-derived tumour xenografts (PDXs) for methylome analysis using Infinium 450 K Beadchips and MeDIP-seq.ResultsControlled for co...
