DNA methylation landscapes: provocative insights from epigenomics
DOI 10.1038/nrg2341
Cited by (1,007)
Items 101–200 of 1,007
- Single-base resolution maps of cultivated and wild rice methylomes and regulatory roles of DNA methylation in plant gene expressionXin Li, Jingde Zhu, Fengyi Hu, Song Ge, Mingzhi Ye, Hui Xiang, Guojie Zhang, Xiaoming Zheng, Hongyu Zhang, Shilai Zhang et al. · 2012 · BMC Genomics
- Genome-wide DNA methylation analysis for diabetic nephropathy in type 1 diabetes mellitusChristopher G. Bell, Andrew Erich Teschendorff, Vardhman K. Rakyan, Alexander Peter Maxwell, Stephan Beck, David A. Savage · 2010 · BMC Medical Genomics
- Replication timing-related and gene body-specific methylation of active human genesAran, Dvir, Toperoff, Gidon, Rosenberg, Michael, Hellman, Asaf · 2011 · Human Molecular Genetics
- Genetics and epigenetics: stability and plasticity during cellular differentiationFabio Mohn, Dirk Schübeler · 2009 · Trends in Genetics
- Salt Stress Induced Variation in DNA Methylation Pattern and Its Influence on Gene Expression in Contrasting Rice GenotypesRatna Karan, Teresa B. De Leon, Hanamareddy Biradar, Prasanta Kumar Subudhi · 2012 · PLoS ONE
- The Redox Basis of Epigenetic Modifications: From Mechanisms to Functional ConsequencesAnthony Roger Cyr, Frederick E. Domann · 2010 · Antioxidants and Redox Signaling
- MeCP2 binds to non-CG methylated DNA as neurons mature, influencing transcription and the timing of onset for Rett syndromeChen, Lin, Chen, Kaifu, Lavery, Laura A., Baker, Steven Andrew, Shaw, Chad A., Li, Wei, Zoghbi, Huda Y. · 2015 · Proceedings of the National Academy of Sciences
- Methylome analysis using MeDIP-seq with low DNA concentrationsOluwatosin Taiwo, Gareth A. Wilson, Tiffany J. Morris, Stefanie Seisenberger, Wolf Reik, Daniel Pearce, Stephan Beck, Lee M Butcher · 2012 · Nature Protocols
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- Rescue of aging-associated decline in Dnmt3a2 expression restores cognitive abilitiesAna M.M. Oliveira, Thekla J. Hemstedt, Hilmar Bading · 2012 · Nature Neuroscience
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- Marine Environmental EpigeneticsJose Maria Eirin-Lopez, Hollie M. Putnam · 2018 · Annual Review of Marine Science
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- RETRACTED: A New Class of Quinoline-Based DNA Hypomethylating Agents Reactivates Tumor Suppressor Genes by Blocking DNA Methyltransferase 1 Activity and Inducing Its DegradationJharna Datta, Kalpana Ghoshal, William Alexander Denny, Swarna A. Gamage, Darby G. Brooke, Pasit Phiasivongsa, Sanjeev Redkar, Samson T. Jacob · 2009 · Cancer Research · Retracted
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- Histone Methyl Transferases and Demethylases; Can They Link Metabolism and Transcription?Raffaele Teperino, Kristina Schoonjans, Johan H. Auwerx · 2010 · Cell Metabolism
- Generation and replication-dependent dilution of 5fC and 5caC during mouse preimplantation developmentAzusa Inoue, Li Shen, Qing Dai, Chuan He, Yi Zhang · 2011 · Cell Research
- Epigenetics of Host–Pathogen Interactions: The Road Ahead and the Road BehindElena Gómez‐Díaz, Mireia Jordà, Miguel Angel Peinado, Ana Rivero · 2012 · PLoS Pathogens
- DNA Methylation Dynamics of Human Hematopoietic Stem Cell DifferentiationMatthias Farlik, Florian Halbritter, Fabian Müller, Fizzah Choudry, Peter Ebert, Johanna Klughammer, Samantha Farrow, Antonella Santoro, Valerio Ciaurro, Anthony Mathur et al. · 2016 · Cell stem cell
- Coordinated changes in AHRR methylation in lymphoblasts and pulmonary macrophages from smokersMonick, Martha M., Beach, Steven R.H., Plume, Jeff, Sears, Rory, Gerrard, Meg, Brody, Gene H., Philibert, Robert A. · 2012 · American Journal of Medical Genetics Part B: Neuropsychiatric Genetics
- Connections between TET proteins and aberrant DNA modification in cancerYun Huang, Anjana Rao · 2014 · Trends in Genetics
- Aging and Chronic Sun Exposure Cause Distinct Epigenetic Changes in Human SkinElke Grönniger, Barbara Weber, Oliver Heil, Nils Peters, Franz Stäb, Horst Wenck, Bernhard Korn, Marc Winnefeld, Frank Lyko · 2010 · PLoS Genetics
- Reconfiguration of DNA methylation in agingZampieri, Michele, Ciccarone, Fabio, Calabrese, Roberta, Franceschi, Claudio, Bürkle, Alexander, Caiafa, Paola · 2015 · Mechanisms of Ageing and Development
- DNA methylation in mammalian development and diseaseZachary D. Smith, Sara Hetzel, Alexander Meissner · 2024 · Nature Reviews Genetics
- Direct lineage conversions: unnatural but useful?Vierbuchen, Thomas, Wernig, Marius · 2011 · Nature Biotechnology
- DNA N6-methyladenine: a new epigenetic mark in eukaryotes?Luo, Guan-Zheng, Blanco, Mario Andres, Greer, Eric Lieberman, He, Chuan, Shi, Yang · 2015 · Nature Reviews Molecular Cell Biology
- DNA methylation status predicts cell type‐specific enhancer activityWiench, Malgorzata, John, Sam, Baek, Songjoon, Johnson, Thomas A, Sung, Myong‐Hee, Escobar, Thelma, Simmons, Catherine A, Pearce, Kenneth H, Biddie, Simon C, Sabo, Pete J et al. · 2011 · The EMBO Journal
- Integrated Genetic and Epigenetic Analysis Identifies Haplotype-Specific Methylation in the FTO Type 2 Diabetes and Obesity Susceptibility LocusChristopher G. Bell, Sarah Finer, Cecilia M. Lindgren, Gareth A. Wilson, Vardhman K. Rakyan, Andrew Erich Teschendorff, Pelin Akan, Elia Stupka, Thomas A. Down, Inga Prokopenko et al. · 2010 · PLoS ONE
- The Evolution of Invertebrate Gene Body MethylationShrutii Sarda, J. Zeng, Brendan G. Hunt, S. V. Yi · 2012 · Molecular Biology and Evolution
- The struggle for life of the genome's selfish architectsAurélie Hua‐Van, Arnaud Le Rouzic, Thibaud Boutin, Jonathan Filée, Pierre Capy · 2011 · Biology Direct
- Effects of cytosine methylation on transcription factor binding sitesYulia A. Medvedeva, Abdullah M. Khamis, Ivan V. Kulakovskiy, Wail Ba-Alawi, Md. Shariful Islam Bhuyan, Hideya Kawaji, Timo Lassmann, Matthias Harbers, Alistair R. R. Forrest, Vladimir B. Bajić · 2014 · BMC Genomics
- RNA-directed DNA methylationHuiming Zhang, Jian‐Kang Zhu · 2011 · Current Opinion in Plant Biology
- CpG-island promoters drive transcription of human telomeresSolomon G. Nergadze, Benjamin O. Farnung, Harry Wischnewski, Lela Khoriauli, Valerio Vitelli, Raghav Chawla, Elena Giulotto, Claus M. Azzalin · 2009 · RNA
- Reading the unique DNA methylation landscape of the brain: Non-CpG methylation, hydroxymethylation, and MeCP2Kinde, Benyam, Gabel, Harrison W., Gilbert, Caitlin S., Griffith, Eric C., Greenberg, Michael E. · 2015 · Proceedings of the National Academy of Sciences
- DNA methylation in insects: on the brink of the epigenomic eraKarl M. Glastad, Brendan G. Hunt, Soojin V. Yi, Michael A. D. Goodisman · 2011 · Insect Molecular Biology
- Prospects for epigenetic epidemiologyFoley, D. L., Craig, J. M., Morley, R., Olsson, C. J., Dwyer, T., Smith, K., Saffery, R. · 2008 · American Journal of Epidemiology
- On the origin of obesity: identifying the biological, environmental and cultural drivers of genetic risk among human populationsQasim, A., Turcotte, M., de Souza, R. J., Samaan, M. C., Champredon, D., Dushoff, J., Speakman, J. R., Meyre, D. · 2018 · Obesity Reviews
- RNA interference knockdown of DNA methyl-transferase 3 affects gene alternative splicing in the honey beeHongmei Li‐Byarlay, Yang Li, Hume Stroud, Suhua Feng, Thomas C. Newman, Megan M. Kaneda, Kirk K. Hou, Kim C. Worley, Christine G. Elsik, Samuel A. Wickline et al. · 2013 · Proceedings of the National Academy of Sciences
- Regulation of Primary Response GenesTrent Fowler, Ranjan Sen, Ananda L. Roy · 2011 · Molecular Cell
- Consumption of soybean, soy foods, soy isoflavones and breast cancer incidence: Differences between Chinese women and women in Western countries and possible mechanismsFen-Jin He, Jin‐Qiang Chen · 2013 · Food Science and Human Wellness
- Redistribution of H3K27me3 upon DNA hypomethylation results in de-repression of Polycomb target genesReddington, James P, Perricone, Sara M, Nestor, Colm E, Reichmann, Judith, Youngson, Neil A, Suzuki, Masako, Reinhardt, Diana, Dunican, Donncha S, Prendergast, James G, Mjoseng, Heidi et al. · 2013 · Genome Biology
- Epigenetic Regulation of Macrophage Polarization by DNA Methyltransferase 3bXiaosong Yang, Xianfeng Wang, Dongxu Liu, Liqing Yu, Bingzhong Xue, Hang Shi · 2014 · Molecular Endocrinology
- Epigenetics at the crossroads between genes, environment and resilience in anxiety disordersSchiele, M. A., Domschke, K. · 2018 · Genes, Brain and Behavior
- High definition profiling of mammalian DNA methylation by array capture and single molecule bisulfite sequencingEmily C. Hodges, Andrew D. Smith, Jude Kendall, Zhenyu Xuan, Kandasamy Ravi, Michelle G. Rooks, Michael Q. Zhang, Kenny Q. Ye, Arindam Bhattacharjee, Leonardo Brizuela et al. · 2009 · Genome Research
- Autism Spectrum Disorders and EpigeneticsGrafodatskaya, Daria, Chung, Brian, Szatmari, Peter, Weksberg, Rosanna · 2010 · Journal of the American Academy of Child & Adolescent Psychiatry
- An epigenetic framework for neurodevelopmental disorders: From pathogenesis to potential therapyMillan, Mark J. · 2013 · Neuropharmacology
- Genetic, Epigenetic, and Environmental Contributions to Neural Tube ClosureJonathan J. Wilde, Juliette R. Petersen, Lee Ann Niswander · 2014 · Annual Review of Genetics
- Characterizing 5-methylcytosine in the mammalian epitranscriptomeShobbir Hussain, Jelena Aleksic, Sandra Blanco, Sabine Dietmann, Michaela Frye · 2013 · Genome biology
- Epigenetic reprogramming of host genes in viral and microbial pathogenesisKonstantinos Paschos, Martin J. Allday · 2010 · Trends in Microbiology
- Roles of RNA methylation by means of N6-methyladenosine (m6A) in human cancersSiwei Wang, Chunxiao Sun, Jianhua Li, Erbao Zhang, Zhifei Ma, Weizhang Xu, Hong Li, Mantang Qiu, Youtao Xu, Wenjia Xia et al. · 2017 · Cancer Letters
- The zebrafish: A fintastic model for hematopoietic development and diseaseAniket V. Gore, Laura M. Pillay, Marina Venero Galanternik, Brant M. Weinstein · 2018 · Wiley Interdisciplinary Reviews Developmental Biology
- The epigenetic landscape of addictionIan S. Maze, Eric J. Nestler · 2011 · Annals of the New York Academy of Sciences
- The interplay between DNA and histone methylation: molecular mechanisms and disease implicationsLi, Yinglu, Chen, Xiao, Lu, Chao · 2021 · The EMBO Reports
- Reversible DNA methylation regulates seasonal photoperiodic time measurementTyler John Stevenson, Brian J. Prendergast · 2013 · Proceedings of the National Academy of Sciences
- DNA hypomethylation in the origin and pathogenesis of human diseasesIgor P. Pogribny, Frederick A. Beland · 2009 · Cellular and Molecular Life Sciences
- Epigenome dynamics: a quantitative genetics perspectiveFrank M. Johannes, Vincent Colot, Ritsert C. Jansen · 2008 · Nature Reviews Genetics
- Antibiotic dialogues: induction of silent biosynthetic gene clusters by exogenous small moleculesBethany K. Okada, Mohammad R. Seyedsayamdost · 2016 · FEMS Microbiology Reviews
- LncRNA-mediated DNA methylation: an emerging mechanism in cancer and beyondWanxu Huang, Hua Li, Qingsong Yu, Wei Xiao, Dan Ohtan Wang · 2022 · Journal of Experimental & Clinical Cancer Research
- Epigenetic Regulation in Human Brain—Focus on Histone Lysine MethylationSchahram Akbarian, Hsien‐Sung Huang · 2008 · Biological Psychiatry
- DNA methylation regulates associative reward learningJeremy J. Day, Daniel S. Childs, Mikael Guzman Karlsson, Mercy Kibe, Jerome Moulden, Esther Y. Song, Absar Tahir, J. David Sweatt · 2013 · Nature Neuroscience
- Understanding the Relationship Between Brain Gene Expression and Social Behavior: Lessons from the Honey BeeAmro Zayed, Gene E. Robinson · 2012 · Annual Review of Genetics
- Transcriptome and methylome interactions in rice hybridsRamakrishna K. Chodavarapu, Suhua Feng, Bo Ding, Stacey A. Simon, David Lopez, Yulin Jia, Guo‐Liang Wang, Blake C. Meyers, Steven E. Jacobsen, Matteo A. Pellegrini · 2012 · Proceedings of the National Academy of Sciences
- Epigenetic mechanisms for nutrition determinants of later health outcomesSteven H. Zeisel · 2009 · American Journal of Clinical Nutrition
- Effects of short-term high-fat overfeeding on genome-wide DNA methylation in the skeletal muscle of healthy young menStine C. Jacobsen, Charlotte Brøns, Jette Bork‐Jensen, Rasmus Ribel‐Madsen, Beatrice T. Yang, Ester Lara, Elin Hall, Vincenzo Calvanese, E. Nilsson, Sine Wanda Jørgensen et al. · 2012 · Diabetologia
- Epigenome plasticity in plantsJames P. B. Lloyd, Ryan Lister · 2021 · Nature Reviews Genetics
- Insects as innovative models for functional studies of DNA methylationFrank Lyko, Ryszard Maleszka · 2011 · Trends in Genetics
- Epigenetics in natural animal populationsJuntao Hu, Rowan D. H. Barrett · 2017 · Journal of Evolutionary Biology
- Development and application of the adverse outcome pathway framework for understanding and predicting chronic toxicity: I. Challenges and research needs in ecotoxicologyKsenia J. Groh, R. Carvalho, James Kevin Chipman, Nancy D. Denslow, Marlies Halder, Cheryl A. Murphy, Dick Roelofs, Alexandra Rolaki, Kristin Schirmer, Karen H. Watanabe · 2014 · Chemosphere
- Dnmt1-Independent CG Methylation Contributes to Nucleosome Positioning in Diverse EukaryotesJason T. Huff, Daniel Zilberman · 2014 · Cell
- Ocean acidification influences host DNA methylation and phenotypic plasticity in environmentally susceptible coralsHollie M. Putnam, Jennifer M. Davidson, Ruth D. Gates · 2016 · Evolutionary Applications
- Chromatin accessibility profiling methodsMinnoye, Liesbeth, Marinov, Georgi K., Krausgruber, Thomas, Pan, Lixia, Marand, Alexandre P., Secchia, Stefano, Greenleaf, William J., Furlong, Eileen E. M., Zhao, Keji, Schmitz, Robert J. et al. · 2021 · Nature Reviews Methods Primers
- DNA cytosine methylation in plant developmentMeishan Zhang, Josphert N. Kimatu, Kezhang Xu, Liu B · 2010 · Journal of genetics and genomics/Journal of Genetics and Genomics
- Relics of repeat-induced point mutation direct heterochromatin formation in Neurospora crassaZachary Lewis, Shinji Honda, Tamir K. Khlafallah, Jennifer K. Jeffress, Michael Freitag, Fabio Mohn, Dirk Schübeler, Eric U. Selker · 2008 · Genome Research
- Allosteric control of mammalian DNA methyltransferases – a new regulatory paradigmAlbert Jeltsch, Renata Zofia Jurkowska · 2016 · Nucleic Acids Research
- Functional Annotation of Animal Genomes (FAANG): Current Achievements and RoadmapElisabetta Giuffra, Christopher Keith Tuggle · 2018 · Annual Review of Animal Biosciences
- The sound of silence: Transgene silencing in mammalian cell engineeringAlan Cabrera, Hailey I. Edelstein, Fokion Glykofrydis, Kasey S. Love, Sebastian Palacios, Josh Tycko, Meng Zhang, Sarah Lensch, Cara E. Shields, Mark Livingston et al. · 2022 · Cell Systems
- Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNAAaron L. Statham, Mark D. Robinson, Jenny Z. Song, Marcel W. Coolen, Clare Stirzaker, Susan J. Clark · 2012 · Genome Research
- Evolution of Eukaryotic DNA Methylation and the Pursuit of Safer SexAssaf Zemach, Daniel Zilberman · 2010 · Current Biology
- The effect of smoking on DNA methylation of peripheral blood mononuclear cells from African American womenMeeshanthini V. Dogan, Bridget E. Shields, Carolyn E. Cutrona, Long Gao, Frederick X. Gibbons, Ronald L. Simons, Martha M. Monick, Gene H. Brody, Kai Tan, Steven R. H. Beach et al. · 2014 · BMC Genomics
- RNA–Mediated Epigenetic Heredity Requires the Cytosine Methyltransferase Dnmt2Jafar Kiani, Valérie Grandjean, Reinhard Liebers, Francesca Tuorto, Hossein Ghanbarian, Frank Lyko, François Cuzin, Minoo Rassoulzadegan · 2013 · PLoS Genetics
- Role of BDNF epigenetics in activity-dependent neuronal plasticityKarpova, Nina N. · 2014 · Neuropharmacology
- Whole-genome bisulfite sequencing of multiple individuals reveals complementary roles of promoter and gene body methylation in transcriptional regulationShaoke Lou, Heung Man Lee, Hao Qin, Jing‐Woei Li, Zhibo Gao, Xin Liu, Landon Long Chan, Vincent K. L. Lam, Wing‐Yee So, Ying Wang et al. · 2014 · Genome biology
- Global Methylation Patterns in Idiopathic Pulmonary FibrosisEinat I. Rabinovich, Maria G. Kapetanaki, Israel Steinfeld, Kevin F. Gibson, Kusum V. Pandit, Guoying Yu, Zohar Yakhini, Naftali Kaminski · 2012 · PLoS ONE
- The Epigenome and Plant DevelopmentGuangming He, Axel A. Elling, Xing Wang Deng · 2011 · Annual Review of Plant Biology
- Epigenetic regulation of macrophage polarization and inflammation by DNA methylation in obesityXianfeng Wang, Qiang Cao, Liqing Yu, Huidong Shi, Bingzhong Xue, Hang Shi · 2016 · JCI Insight
- Functional DNA methylation differences between tissues, cell types, and across individuals discovered using the M&M algorithmBo Zhang, Yan Zhou, Nan Lin, Rebecca F. Lowdon, Chibo Hong, Raman P. Nagarajan, Jeffrey B. Cheng, Daofeng Li, Michael Stevens, Hyung Joo Lee et al. · 2013 · Genome Research
- Evolutionary conservation of the eumetazoan gene regulatory landscapeMichaela Schwaiger, Anna Schönauer, André F. Rendeiro, Carina Pribitzer, Alexandra Schauer, Anna F. Gilles, Johannes Benno Schinko, Eduard Renfer, David Fredman, Ulrich Technau · 2014 · Genome Research
- Epigenetics of Early Child DevelopmentChris Murgatroyd, Dietmar Spengler · 2011 · Frontiers in Psychiatry
- Oxidative Stress and Chromatin Remodeling in Chronic Obstructive Pulmonary Disease and Smoking-Related DiseasesIsaac Kirubakaran Sundar, Hongwei Yao, Irfan Rahman · 2012 · Antioxidants and Redox Signaling
- Augmenting Antitumor Immune Responses with Epigenetic Modifying AgentsErika Héninger, Timothy E. G. Krueger, Joshua Michael Lang · 2015 · Frontiers in Immunology
- Genome-wide screen of promoter methylation identifies novel markers in melanomaYasuo Koga, Mattia Pelizzola, Elaine Cheng, Michael O. Krauthammer, Mario Sznol, Stephan Ariyan, Deepak Narayan, Annette M. Molinaro, Ruth Halaban, Sherman M. Weissman · 2009 · Genome Research
- DNA methylation of the oxytocin receptor gene predicts neural response to ambiguous social stimuliJack, Allison, Connelly, Jessica J., Morris, James P. · 2012 · Frontiers in Human Neuroscience
- Epigenetic changes in the progression of Alzheimer's diseaseMelissa A. Bradley‐Whitman, Mark A. Lovell · 2013 · Mechanisms of Ageing and Development
- The RNA–Methyltransferase Misu (NSun2) Poises Epidermal Stem Cells to DifferentiateSandra Blanco, Agata Kurowski, Jennifer Nichols, Fiona M. Watt, Salvador Aznar Benitah, Michaela Frye · 2011 · PLoS Genetics
- DNA Methylation in Plants: Relationship to Small RNAs and Histone Modifications, and Functions in Transposon InactivationHidetoshi Saze, Kazuo Tsugane, Tatsuo Kanno, Takehiro Nishimura · 2012 · Plant and Cell Physiology
- Structure and Function of Noncanonical NucleobasesThomas Carell, Caterina Brandmayr, Antje Hienzsch, Markus Müller, David Pearson, Veronika Reiter, Ines Thoma, Peter Thumbs, Mirko Wagner · 2012 · Angewandte Chemie International Edition
- DNA methylation in social insects: how epigenetics can control behavior and longevityYan, Hua, Bonasio, Roberto, Simola, Daniel F., Liebig, Jürgen, Berger, Shelley L., Reinberg, Danny · 2015 · Annual Review of Entomology