Searching journal content for articles similar to Rakyan et al. 20 (4): 434.

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  1. Research: Decoding the function of bivalent chromatin in development and cancer
    • Dhirendra Kumar,
    • Senthilkumar Cinghu,
    • Andrew J. Oldfield,
    • Pengyi Yang,
    • and Raja Jothi
    Genome Res. December 2021 31: 2170-2184; Published in Advance October 19, 2021, doi:10.1101/gr.275736.121
    ...suggest that bivalent domains are likely a product of PRC2 activity at genomic regions with high CpG density.H3K4me3 at bivalent chromatin protects promoters from de novo DNA methylationGene promoters targeted by PRC2 in ESCs—mostly bivalent genes—are often found to be DNA hypermethylated in adult human...
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  2. Research: H3K4me1 marks DNA regions hypomethylated during aging in human stem and differentiated cells
    • Agustín F. Fernández,
    • Gustavo F. Bayón,
    • Rocío G. Urdinguio,
    • Estela G. Toraño,
    • María G. García,
    • Antonella Carella,
    • Sandra Petrus-Reurer,
    • Cecilia Ferrero,
    • Pablo Martinez-Camblor,
    • Isabel Cubillo,
    • Javier García-Castro,
    • Jesús Delgado-Calle,
    • Flor M. Pérez-Campo,
    • José A. Riancho,
    • Clara Bueno,
    • Pablo Menéndez,
    • Anouk Mentink,
    • Katia Mareschi,
    • Fabian Claire,
    • Corrado Fagnani,
    • Emanuela Medda,
    • Virgilia Toccaceli,
    • Sonia Brescianini,
    • Sebastián Moran,
    • Manel Esteller,
    • Alexandra Stolzing,
    • Jan de Boer,
    • Lorenza Nisticò,
    • Maria A. Stazi,
    • and Mario F. Fraga
    Genome Res. January 2015 25: 27-40; Published in Advance September 30, 2014, doi:10.1101/gr.169011.113
    ...examples of hypo- and hypermethylated DNA regions associated with specific chromatin signatures are displayed below.DNA hypomethylation during aging preferentially occurs at H3K4me1-rich sitesTo identify chromatin marks associated with CpG sites hypomethylated in aged MSCs, we aligned the DNA sequences...
  3. Resource: A DNA methylation fingerprint of 1628 human samples
    • Agustin F. Fernandez,
    • Yassen Assenov,
    • Jose Ignacio Martin-Subero,
    • Balazs Balint,
    • Reiner Siebert,
    • Hiroaki Taniguchi,
    • Hiroyuki Yamamoto,
    • Manuel Hidalgo,
    • Aik-Choon Tan,
    • Oliver Galm,
    • Isidre Ferrer,
    • Montse Sanchez-Cespedes,
    • Alberto Villanueva,
    • Javier Carmona,
    • Jose V. Sanchez-Mut,
    • Maria Berdasco,
    • Victor Moreno,
    • Gabriel Capella,
    • David Monk,
    • Esteban Ballestar,
    • Santiago Ropero,
    • Ramon Martinez,
    • Marta Sanchez-Carbayo,
    • Felipe Prosper,
    • Xabier Agirre,
    • Mario F. Fraga,
    • Osvaldo Graña,
    • Luis Perez-Jurado,
    • Jaume Mora,
    • Susana Puig,
    • Jaime Prat,
    • Lina Badimon,
    • Annibale A. Puca,
    • Stephen J. Meltzer,
    • Thomas Lengauer,
    • John Bridgewater,
    • Christoph Bock,
    • and Manel Esteller
    Genome Res. February 2012 22: 407-419; Published in Advance May 25, 2011, doi:10.1101/gr.119867.110
    ...transcription start sites that are not within a CpG island. For disease, the generated DNA methylation fingerprints show that, during tumorigenesis, human cancer cells underwent a progressive gain of promoter CpG-island hypermethylation and a loss of CpG methylation in non-CpG-island promoters. Although...
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  4. Research: Age-associated DNA methylation in pediatric populations
    • Reid S. Alisch,
    • Benjamin G. Barwick,
    • Pankaj Chopra,
    • Leila K. Myrick,
    • Glen A. Satten,
    • Karen N. Conneely,
    • and Stephen T. Warren
    Genome Res. April 2012 22: 623-632; Published in Advance February 1, 2012, doi:10.1101/gr.125187.111
    ...Age-associated DNA methylation in pediatric populations Reid S. Alisch 1 , 4 , Benjamin G. Barwick 1 , 4 , Pankaj Chopra 1 , Leila K. Myrick 1 , Glen A. Satten 1 , 2 , Karen N. Conneely 1 and Stephen T. Warren 1 , 3...
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  5. Research: Age-dependent DNA methylation of genes that are suppressed in stem cells is a hallmark of cancer
    • Andrew E. Teschendorff,
    • Usha Menon,
    • Aleksandra Gentry-Maharaj,
    • Susan J. Ramus,
    • Daniel J. Weisenberger,
    • Hui Shen,
    • Mihaela Campan,
    • Houtan Noushmehr,
    • Christopher G. Bell,
    • A. Peter Maxwell,
    • David A. Savage,
    • Elisabeth Mueller-Holzner,
    • Christian Marth,
    • Gabrijela Kocjan,
    • Simon A. Gayther,
    • Allison Jones,
    • Stephan Beck,
    • Wolfgang Wagner,
    • Peter W. Laird,
    • Ian J. Jacobs,
    • and Martin Widschwendter
    Genome Res. April 2010 20: 440-446; Published in Advance March 10, 2010, doi:10.1101/gr.103606.109
    ...signatures (Fisher’s exact test, P = 10#2;30) with >80% concordance. Healthy and pretreatment samples were thus combined and supervised analysis was performed on this larger set to identify with more confidence a DNA methylation signature for aging. This gave 589 age-associated CpGs (q < 0.05), termed...
  6. Research: Neonatal DNA methylation profile in human twins is specified by a complex interplay between intrauterine environmental and genetic factors, subject to tissue-specific influence
    • Lavinia Gordon,
    • Jihoon E. Joo,
    • Joseph E. Powell,
    • Miina Ollikainen,
    • Boris Novakovic,
    • Xin Li,
    • Roberta Andronikos,
    • Mark N. Cruickshank,
    • Karen N. Conneely,
    • Alicia K. Smith,
    • Reid S. Alisch,
    • Ruth Morley,
    • Peter M. Visscher,
    • Jeffrey M. Craig,
    • and Richard Saffery
    Genome Res. August 2012 22: 1395-1406; Published in Advance July 16, 2012, doi:10.1101/gr.136598.111
    ...Neonatal DNA methylation profile in human twins is specified by a complex interplay between intrauterine environmental and genetic factors, subject to tissue-specific influence Lavinia Gordon 1 , Jihoon E. Joo 2 , 3 , Joseph E. Powell 4 , 5 , Miina...
  7. Research: Loss of epigenetic suppression of retrotransposons with oncogenic potential in aging mammary luminal epithelial cells
    • Parijat Senapati,
    • Masaru Miyano,
    • Rosalyn W. Sayaman,
    • Mudaser Basam,
    • Amy Leung,
    • Mark A. LaBarge,
    • and Dustin E. Schones
    Genome Res. August 2023 33: 1229-1241; Published in Advance July 18, 2023, doi:10.1101/gr.277511.122
    ...decline in tissue and organ function and is associated with many diseases, including cancer. At the genomic level, alterations to the epi contribute to the development of age-associated diseases (López-Otín et al. 2013; Booth and Brunet 2016). DNA methylation is a relatively stable component of the epi...
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