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  2. Histone H2B deubiquitination is performed by numerous deubiquitinases in eukaryotic cells including Ubp8, the catalytic subunit of the tetrameric deubiquitination module (DUBm: Ubp8; Sus1; Sgf11; Sgf73) of the...

    Authors: Carme Nuño-Cabanes, Varinia García-Molinero, Manuel Martín-Expósito, María-Eugenia Gas, Paula Oliete-Calvo, Encar García-Oliver, María de la Iglesia-Vayá and Susana Rodríguez-Navarro

    Citation: Epigenetics & Chromatin 2020 13:46

    Content type: Research

    Published on:

  3. Chlamydia are Gram-negative, obligate intracellular bacterial pathogens responsible for a broad spectrum of human and animal diseases. In humans, Chlamydia trachomatis is the most prevalent bacterial sexually tra...

    Authors: Regan J. Hayward, James W. Marsh, Michael S. Humphrys, Wilhelmina M. Huston and Garry S. A. Myers

    Citation: Epigenetics & Chromatin 2020 13:45

    Content type: Research

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  4. The chromatin-binding E3 ubiquitin ligase ubiquitin-like with PHD and RING finger domains 1 (UHRF1) contributes to the maintenance of aberrant DNA methylation patterning in cancer cells through multivalent his...

    Authors: Robert M. Vaughan, Ariana Kupai, Caroline A. Foley, Cari A. Sagum, Bailey M. Tibben, Hope E. Eden, Rochelle L. Tiedemann, Christine A. Berryhill, Varun Patel, Kevin M. Shaw, Krzysztof Krajewski, Brian D. Strahl, Mark T. Bedford, Stephen V. Frye, Bradley M. Dickson and Scott B. Rothbart

    Citation: Epigenetics & Chromatin 2020 13:44

    Content type: Research

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  6. 5′ methylation of cytosines in DNA molecules is an important epigenetic mark in eukaryotes. Bisulfite sequencing is the gold standard of DNA methylation detection, and whole-genome bisulfite sequencing (WGBS) ...

    Authors: Suhua Feng, Zhenhui Zhong, Ming Wang and Steven E. Jacobsen

    Citation: Epigenetics & Chromatin 2020 13:42

    Content type: Research

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  7. Transcription of genes residing within constitutive heterochromatin is paradoxical to the tenets of epigenetic code. The regulatory mechanisms of Drosophila melanogaster heterochromatic gene transcription remain ...

    Authors: Parna Saha, Divya Tej Sowpati, Mamilla Soujanya, Ishanee Srivastava and Rakesh Kumar Mishra

    Citation: Epigenetics & Chromatin 2020 13:41

    Content type: Research

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  9. Partially methylated domains (PMDs) are a hallmark of epigenomes in reproducible and specific biological contexts, including cancer cells, the placenta, and cultured cell lines. Existing methods for deciding w...

    Authors: Benjamin E. Decato, Jianghan Qu, Xiaojing Ji, Elvin Wagenblast, Simon R. V. Knott, Gregory J. Hannon and Andrew D. Smith

    Citation: Epigenetics & Chromatin 2020 13:39

    Content type: Research

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  10. UTX/KDM6A is known to interact and influence multiple different chromatin modifiers to promote an open chromatin environment to facilitate gene activation, but its molecular activities in developmental gene re...

    Authors: Beisi Xu, Brett Mulvey, Muneeb Salie, Xiaoyang Yang, Yurika Matsui, Anjana Nityanandam, Yiping Fan and Jamy C. Peng

    Citation: Epigenetics & Chromatin 2020 13:38

    Content type: Research

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  12. An amendment to this paper has been published and can be accessed via the original article.

    Authors: Gayathri Govindaraju, Rajashekar Varma Kadumuri, Devadathan Valiyamangalath Sethumadhavan, C. A. Jabeena, Sreenivas Chavali and Arumugam Rajavelu

    Citation: Epigenetics & Chromatin 2020 13:36

    Content type: Correction

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    The original article was published in Epigenetics & Chromatin 2020 13:33

  13. Gametes are highly differentiated cells specialized to carry and protect the parental genetic information. During male germ cell maturation, histone proteins undergo distinct changes that result in a highly co...

    Authors: Marion Crespo, Lacey J. Luense, Marie Arlotto, Jialei Hu, Jean Dorsey, Encar García-Oliver, Parisha P. Shah, Delphine Pflieger, Shelley L. Berger and Jérôme Govin

    Citation: Epigenetics & Chromatin 2020 13:35

    Content type: Research

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  14. DNA methylation, as an essential epigenetic modification found in mammals and plants, has been implicated to play an important role in insect reproduction. However, the functional role and the regulatory mecha...

    Authors: Guanfeng Xu, Yangqin Yi, Hao Lyu, Chengcheng Gong, Qili Feng, Qisheng Song, Xuezhen Peng, Lin Liu and Sichun Zheng

    Citation: Epigenetics & Chromatin 2020 13:34

    Content type: Research

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  15. Plasmodium falciparum exhibits high translational plasticity during its development in RBCs, yet the regulation at the post-transcriptional level is not well understood. The N6-methyl adenosine (m6A) is an import...

    Authors: Gayathri Govindaraju, Rajashekar Varma Kadumuri, Devadathan Valiyamangalath Sethumadhavan, C. A. Jabeena, Sreenivas Chavali and Arumugam Rajavelu

    Citation: Epigenetics & Chromatin 2020 13:33

    Content type: Research

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    The Correction to this article has been published in Epigenetics & Chromatin 2020 13:36

  16. The three-dimensional organization of the genome in the nucleus plays an integral role in many biological processes, including gene expression. The genome is folded into DNA loops that bring together distal re...

    Authors: Nicole L. Arruda, Zachary M. Carico, Megan Justice, Ying Frances Liu, Junjie Zhou, Holden C. Stefan and Jill M. Dowen

    Citation: Epigenetics & Chromatin 2020 13:32

    Content type: Research

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  17. Epigenetics research is progressing in basic, pre-clinical and clinical studies using various model systems. Hence, updating the knowledge and integration of biological data emerging from in silico, in vitro a...

    Authors: Sanket G. Shah, Tushar Mandloi, Pooja Kunte, Abhiram Natu, Mudasir Rashid, Divya Reddy, Nikhil Gadewal and Sanjay Gupta

    Citation: Epigenetics & Chromatin 2020 13:31

    Content type: Research

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  18. Several thousand sex-differential distal enhancers have been identified in mouse liver; however, their links to sex-biased genes and the impact of any sex-differences in nuclear organization and chromatin inte...

    Authors: Bryan J. Matthews and David J. Waxman

    Citation: Epigenetics & Chromatin 2020 13:30

    Content type: Research

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  20. H2A.B, the most divergent histone variant of H2A, can significantly modulate nucleosome and chromatin structures. However, the related structural details and the underlying mechanism remain elusive to date. In...

    Authors: Junhui Peng, Chuang Yuan, Xinfan Hua and Zhiyong Zhang

    Citation: Epigenetics & Chromatin 2020 13:28

    Content type: Research

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  21. Chromatin physical interactions provide essential information for understanding the regulation of cis-elements like enhancers, promoters, and insulators in cell development and differentiation. The Hi-C assay is ...

    Authors: Yan Zhang, Zhaoqiang Li, Shasha Bian, Hao Zhao, Delong Feng, Yanhong Chen, Yuhe Hou, Qifa Liu and Bingtao Hao

    Citation: Epigenetics & Chromatin 2020 13:27

    Content type: Methodology

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  22. Histone H1 is the most mobile histone in the cell nucleus. Defining the positions of H1 on chromatin in situ, therefore, represents a challenge. Immunoprecipitation of formaldehyde-fixed and sonicated chromati...

    Authors: Vladimir B. Teif, Travis J. Gould, Christopher T. Clarkson, Logan Boyd, Enoch B. Antwi, Naveed Ishaque, Ada L. Olins and Donald E. Olins

    Citation: Epigenetics & Chromatin 2020 13:26

    Content type: Research

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  23. DNA methylation is a highly studied epigenetic signature that is associated with regulation of gene expression, whereby genes with high levels of promoter methylation are generally repressed. Genomic imprintin...

    Authors: Stephany Orjuela, Dania Machlab, Mirco Menigatti, Giancarlo Marra and Mark D. Robinson

    Citation: Epigenetics & Chromatin 2020 13:25

    Content type: Methodology

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  24. The YEATS domain is a highly conserved protein structure that interacts with acetylated and crotonylated lysine residues in N-terminal tails of histones. The budding yeast genome encodes three YEATS domain pro...

    Authors: Kadri Peil, Henel Jürgens, Johanna Luige, Kersti Kristjuhan and Arnold Kristjuhan

    Citation: Epigenetics & Chromatin 2020 13:24

    Content type: Research

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  25. DNA packaging into chromatin regulates all DNA-related processes and at chromosomal ends could affect both essential functions of telomeres: protection against DNA damage response and telomere replication. Des...

    Authors: Emeline Pasquier and Raymund J. Wellinger

    Citation: Epigenetics & Chromatin 2020 13:23

    Content type: Research

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  26. Chromatin dysregulation is associated with developmental disorders and cancer. Numerous methods for measuring genome-wide chromatin accessibility have been developed in the genomic era to interrogate the funct...

    Authors: Jake J. Reske, Mike R. Wilson and Ronald L. Chandler

    Citation: Epigenetics & Chromatin 2020 13:22

    Content type: Methodology

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  27. Next-generation sequencing allows genome-wide analysis of changes in chromatin states and gene expression. Data analysis of these increasingly used methods either requires multiple analysis steps, or extensive...

    Authors: Lorinc S. Pongor, Jacob M. Gross, Roberto Vera Alvarez, Junko Murai, Sang-Min Jang, Hongliang Zhang, Christophe Redon, Haiqing Fu, Shar-Yin Huang, Bhushan Thakur, Adrian Baris, Leonardo Marino-Ramirez, David Landsman, Mirit I. Aladjem and Yves Pommier

    Citation: Epigenetics & Chromatin 2020 13:21

    Content type: Methodology

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  28. Understanding the transcriptome is critical for explaining the functional as well as regulatory roles of genomic regions. Current methods for the identification of transcription units (TUs) use RNA-seq that, h...

    Authors: Anshupa Sahu, Na Li, Ilona Dunkel and Ho-Ryun Chung

    Citation: Epigenetics & Chromatin 2020 13:20

    Content type: Methodology

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  29. Mature sperm carry thousands of RNAs, including mRNAs, lncRNAs, tRNAs, rRNAs and sncRNAs, though their functional significance is still a matter of debate. Growing evidence suggests that sperm RNAs, especially...

    Authors: Eli Sellem, Sylvain Marthey, Andrea Rau, Luc Jouneau, Aurelie Bonnet, Jean-Philippe Perrier, Sébastien Fritz, Chrystelle Le Danvic, Mekki Boussaha, Hélène Kiefer, Hélène Jammes and Laurent Schibler

    Citation: Epigenetics & Chromatin 2020 13:19

    Content type: Research

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  30. MeCP2 and MBD2 are members of a family of proteins that possess a domain that selectively binds 5-methylcytosine in a CpG context. Members of the family interact with other proteins to modulate DNA packing. St...

    Authors: Ming Liu, Saeid Movahed, Saroj Dangi, Hai Pan, Parminder Kaur, Stephanie M. Bilinovich, Edgar M. Faison, Gage O. Leighton, Hong Wang, David C. Williams Jr. and Robert Riehn

    Citation: Epigenetics & Chromatin 2020 13:18

    Content type: Research

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  31. Allele-specific DNA methylation (ASM) describes genomic loci that maintain CpG methylation at only one inherited allele rather than having coordinated methylation across both alleles. The most prominent of the...

    Authors: Dana M. Freeman, Dan Lou, Yanqiang Li, Suzanne N. Martos and Zhibin Wang

    Citation: Epigenetics & Chromatin 2020 13:17

    Content type: Research

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  32. SETD8 is the sole methyltransferase capable of mono-methylating histone H4, lysine 20. SETD8 and H4K20me1 play a role in a number of essential biologic processes, including cell cycle progression, establishmen...

    Authors: Jacquelyn A. Myers, Tyler Couch, Zachary Murphy, Jeffrey Malik, Michael Getman and Laurie A. Steiner

    Citation: Epigenetics & Chromatin 2020 13:16

    Content type: Research

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  33. Transcriptional repression of Nanog is an important hallmark of stem cell differentiation. Chromatin modifications have been linked to the epigenetic profile of the Nanog gene, but whether chromatin organizati...

    Authors: Francisco J. González-Rico, Cristina Vicente-García, Almudena Fernández, Diego Muñoz-Santos, Lluís Montoliu, Antonio Morales-Hernández, Jaime M. Merino, Angel-Carlos Román and Pedro M. Fernández-Salguero

    Citation: Epigenetics & Chromatin 2020 13:15

    Content type: Research

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  34. Pharmacologic inhibition of bromodomain and extra-terminal (BET) proteins is currently being explored as a new therapeutic approach in cancer. Some studies have also implicated BET proteins as regulators of ce...

    Authors: Archit Trivedi, Aanchal Mehrotra, Caitlin E. Baum, Brandon Lewis, Tupa Basuroy, Thomas Blomquist, Robert Trumbly, Fabian V. Filipp, Vijayasaradhi Setaluri and Ivana L. de la Serna

    Citation: Epigenetics & Chromatin 2020 13:14

    Content type: Research

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  35. Maternal smoking of traditional or electronic cigarettes during pregnancy, which constitutes developmental nicotine exposure (DNE), heightens the risk of neurodevelopmental disorders including ADHD, autism, an...

    Authors: Jordan M. Buck, Heidi C. O’Neill and Jerry A. Stitzel

    Citation: Epigenetics & Chromatin 2020 13:13

    Content type: Research

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  36. A large number of in vitro experiments have confirmed that DNA molecules can form i-motif advanced structure when multiple cytosines exist in the sequence. However, whether these structures are present in vivo...

    Authors: Wenhuan Tang, Kangkang Niu, Guoxing Yu, Ying Jin, Xian Zhang, Yuling Peng, Shuna Chen, Huimin Deng, Sheng Li, Jian Wang, Qisheng Song and Qili Feng

    Citation: Epigenetics & Chromatin 2020 13:12

    Content type: Research

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  37. H1t is the major linker histone variant in pachytene spermatocytes, where it constitutes 50–60% of total H1. This linker histone variant was previously reported to localize in the nucleolar rDNA element in mou...

    Authors: Iyer Aditya Mahadevan, Sanjeev Kumar and Manchanahalli R. Satyanarayana Rao

    Citation: Epigenetics & Chromatin 2020 13:9

    Content type: Research

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  39. Maintaining a proper supply of soluble histones throughout the cell cycle is important to ensure chromatin and genome stability. Following their synthesis, histones undergo a series of maturation steps to prep...

    Authors: Francisco Saavedra, Zachary A. Gurard-Levin, Camila Rojas-Villalobos, Isabelle Vassias, Raquel Quatrini, Geneviève Almouzni and Alejandra Loyola

    Citation: Epigenetics & Chromatin 2020 13:6

    Content type: Research

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  40. Recent studies indicate that exposure to environmental chemicals may increase susceptibility to developing metabolic diseases. This susceptibility may in part be caused by changes to the epigenetic landscape w...

    Authors: Marjo J. den Broeder, Jarle Ballangby, Leonie M. Kamminga, Peter Aleström, Juliette Legler, Leif C. Lindeman and Jorke H. Kamstra

    Citation: Epigenetics & Chromatin 2020 13:5

    Content type: Research

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  42. Plant homeodomain (PHD) fingers are central “readers” of histone post-translational modifications (PTMs) with > 100 PHD finger-containing proteins encoded by the human genome. Many of the PHDs studied to date ...

    Authors: Kanishk Jain, Caroline S. Fraser, Matthew R. Marunde, Madison M. Parker, Cari Sagum, Jonathan M. Burg, Nathan Hall, Irina K. Popova, Keli L. Rodriguez, Anup Vaidya, Krzysztof Krajewski, Michael-Christopher Keogh, Mark T. Bedford and Brian D. Strahl

    Citation: Epigenetics & Chromatin 2020 13:3

    Content type: Research

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  43. Paternal allele-specific DNA methylation of the H19 imprinting control region (ICR) regulates imprinted expression of the Igf2/H19 genes. The molecular mechanism by which differential methylation of the H19 ICR i...

    Authors: Hitomi Matsuzaki, Daichi Kuramochi, Eiichi Okamura, Katsuhiko Hirakawa, Aki Ushiki and Keiji Tanimoto

    Citation: Epigenetics & Chromatin 2020 13:2

    Content type: Research

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  44. Chromatin organization is central to precise control of gene expression. In various eukaryotic species, domains of pervasive cis-chromatin interactions demarcate functional domains of the genomes. In nematode Cae...

    Authors: Alexis V. Stutzman, April S. Liang, Vera Beilinson and Kohta Ikegami

    Citation: Epigenetics & Chromatin 2020 13:1

    Content type: Research

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  45. Current array-based methods for the measurement of DNA methylation rely on the process of sodium bisulfite conversion to differentiate between methylated and unmethylated cytosine bases in DNA. In the absence ...

    Authors: Brenna A. LaBarre, Alexander Goncearenco, Hanna M. Petrykowska, Weerachai Jaratlerdsiri, M. S. Riana Bornman, Vanessa M. Hayes and Laura Elnitski

    Citation: Epigenetics & Chromatin 2019 12:79

    Content type: Methodology

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  46. While the role of Polycomb group protein-mediated “cell memory” is well established in developmental contexts, little is known about their role in adult tissues and in particular in post-mitotic cells. Emergin...

    Authors: Peng Liu, Muhammad Shuaib, Huoming Zhang, Seba Nadeef and Valerio Orlando

    Citation: Epigenetics & Chromatin 2019 12:78

    Content type: Research

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  47. Endothelial cells (ECs) make up the innermost layer throughout the entire vasculature. Their phenotypes and physiological functions are initially regulated by developmental signals and extracellular stimuli. T...

    Authors: Ryuichiro Nakato, Youichiro Wada, Ryo Nakaki, Genta Nagae, Yuki Katou, Shuichi Tsutsumi, Natsu Nakajima, Hiroshi Fukuhara, Atsushi Iguchi, Takahide Kohro, Yasuharu Kanki, Yutaka Saito, Mika Kobayashi, Akashi Izumi-Taguchi, Naoki Osato, Kenji Tatsuno…

    Citation: Epigenetics & Chromatin 2019 12:77

    Content type: Research

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  48. Neural tube defects (NTDs) are severe, common birth defects that result from failure of normal neural tube closure during early embryogenesis. Accumulating strong evidence indicates that genetic factors contri...

    Authors: Juan Yu, Lei Wang, Pei Pei, Xue Li, Jianxin Wu, Zhiyong Qiu, Juan Zhang, Ruifang Ao, Shan Wang, Ting Zhang and Jun Xie

    Citation: Epigenetics & Chromatin 2019 12:76

    Content type: Research

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  49. Nickel is an occupational and environmental toxicant associated with a number of diseases in humans including pulmonary fibrosis, bronchitis and lung and nasal cancers. Our earlier studies showed that the nick...

    Authors: Cynthia C. Jose, Zhenjia Wang, Vinay Singh Tanwar, Xiaoru Zhang, Chongzhi Zang and Suresh Cuddapah

    Citation: Epigenetics & Chromatin 2019 12:75

    Content type: Research

    Published on:

  50. The impact of aging on the sperm methylome is well understood. However, the direct, subsequent impact on offspring and the role of altered sperm DNA methylation alterations in this process remain poorly unders...

    Authors: Timothy G. Jenkins, Emma R. James, Kenneth I. Aston, Albert Salas-Huetos, Alexander W. Pastuszak, Ken R. Smith, Heidi A. Hanson, James M. Hotaling and Douglas T. Carrell

    Citation: Epigenetics & Chromatin 2019 12:74

    Content type: Research

    Published on:

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Epigenetics & Chromatin

ISSN: 1756-8935