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  1. Genetic data are known to harbor information about human demographics, and genotyping data are commonly used for capturing ancestry information by leveraging genome-wide differences between populations. In con...

    Authors: Elior Rahmani, Liat Shenhav, Regev Schweiger, Paul Yousefi, Karen Huen, Brenda Eskenazi, Celeste Eng, Scott Huntsman, Donglei Hu, Joshua Galanter, Sam S. Oh, Melanie Waldenberger, Konstantin Strauch, Harald Grallert, Thomas Meitinger, Christian Gieger…
    Citation: Epigenetics & Chromatin 2017 10:1
    Content type: Methodology Published on:

  2. A comprehensive assessment of the epigenetic dynamics in cancer cells is the key to understanding the molecular mechanisms underlying cancer and to improving cancer diagnostics, prognostics and treatment. By c...

    Authors: Michiel E. Adriaens, Peggy Prickaerts, Michelle Chan-Seng-Yue, Twan van den Beucken, Vivian E. H. Dahlmans, Lars M. Eijssen, Timothy Beck, Bradly G. Wouters, Jan Willem Voncken and Chris T. A. Evelo
    Citation: Epigenetics & Chromatin 2016 9:48
    Content type: Research Published on:

  3. Histone isoforms and their post-translational modifications (PTMs) play an important role in the control of many chromatin-related processes including transcription and DNA damage. Variants of histones H2A and...

    Authors: Rosalynn C Molden, Natarajan V Bhanu, Gary LeRoy, Anna M Arnaudo and Benjamin A Garcia
    Citation: Epigenetics & Chromatin 2015 8:15
    Content type: Methodology Published on:

  4. The stability of p53 is mainly controlled by ubiquitin-dependent degradation, which is triggered by the E3 ubiquitin ligase MDM2. The chromatin modifier lymphoid-specific helicase (LSH) is essential for DNA me...

    Authors: Ling Chen, Ying Shi, Na Liu, Zuli Wang, Rui Yang, Bin Yan, Xiaoli Liu, Weiwei Lai, Yating Liu, Desheng Xiao, Hu Zhou, Yan Cheng, Ya Cao, Shuang Liu, Zanxian Xia and Yongguang Tao
    Citation: Epigenetics & Chromatin 2019 12:59
    Content type: Research Published on:

  5. The silkworm, Bombyx mori, a typical representative of metamorphic insects, is of great agricultural and economic importance. The steroid hormone ecdysone (20-hydroxyecdysone, 20E) is the central regulator of ins...

    Authors: Dong Cheng, Tingcai Cheng, Xi Yang, Quan Zhang, Jianfeng Fu, Tieshan Feng, Jiao Gong and Qingyou Xia
    Citation: Epigenetics & Chromatin 2018 11:48
    Content type: Research Published on:

  6. Polycomb group (PcG) and trithorax group (trxG) proteins contribute to the specialization of cell types by maintaining differential gene expression patterns. Initially discovered as positive regulators of HOX ...

    Authors: Zain Umer, Jawad Akhtar, Muhammad Haider Farooq Khan, Najma Shaheen, Muhammad Abdul Haseeb, Khalida Mazhar, Aziz Mithani, Saima Anwar and Muhammad Tariq
    Citation: Epigenetics & Chromatin 2019 12:55
    Content type: Research Published on:

  7. Germline nuclear RNAi in C. elegans is a transgenerational gene-silencing pathway that leads to H3K9 trimethylation (H3K9me3) and transcriptional silencing at the target genes. H3K9me3 induced by either exogenous...

    Authors: Natallia Kalinava, Julie Zhouli Ni, Kimberly Peterman, Esteban Chen and Sam Guoping Gu
    Citation: Epigenetics & Chromatin 2017 10:6
    Content type: Research Published on:

  8. Heterochromatin has been reported to be a major silencing compartment during development and differentiation. Prominent heterochromatin compartments are located at the nuclear periphery and inside the nucleus ...

    Authors: K. Laurence Jost, Bianca Bertulat, Alexander Rapp, Alessandro Brero, Tanja Hardt, Petra Domaing, Claudia Gösele, Herbert Schulz, Norbert Hübner and M. Cristina Cardoso
    Citation: Epigenetics & Chromatin 2015 8:36
    Content type: Research Published on:

  9. Bidirectional promoters (BPs) are prevalent in eukaryotic genomes. However, it is poorly understood how the cell integrates different epigenomic information, such as transcription factor (TF) binding and chrom...

    Authors: Fatemeh Behjati Ardakani, Kathrin Kattler, Karl Nordström, Nina Gasparoni, Gilles Gasparoni, Sarah Fuchs, Anupam Sinha, Matthias Barann, Peter Ebert, Jonas Fischer, Barbara Hutter, Gideon Zipprich, Charles D. Imbusch, Bärbel Felder, Jürgen Eils, Benedikt Brors…
    Citation: Epigenetics & Chromatin 2018 11:66
    Content type: Research Published on:

  10. In multicellular organisms, epigenome dynamics are associated with transitions in the cell cycle, development, germline specification, gametogenesis and inheritance. Evolutionarily, regulatory space has increa...

    Authors: Pavla Navratilova, Gemma Barbara Danks, Abby Long, Stephen Butcher, John Robert Manak and Eric M. Thompson
    Citation: Epigenetics & Chromatin 2017 10:3
    Content type: Research Published on:

  11. 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 Published on:

  12. Genomic imprinting, resulting in parent-of-origin specific gene expression, plays a critical role in mammalian development. Here, we apply allele-specific RNA-seq on isogenic B6D2F1 mice to assay imprinted gen...

    Authors: René A. M. Dirks, Guido van Mierlo, Hindrik H. D. Kerstens, Andreia S. Bernardo, Julianna Kobolák, István Bock, Julien Maruotti, Roger A. Pedersen, András Dinnyés, Martijn A. Huynen, Alice Jouneau and Hendrik Marks
    Citation: Epigenetics & Chromatin 2019 12:14
    Content type: Research Published on:

  13. Gametogenesis in mammals entails profound re-patterning of the epigenome. In the female germline, DNA methylation is acquired late in oogenesis from an essentially unmethylated baseline and is established larg...

    Authors: Lenka Gahurova, Shin-ichi Tomizawa, Sébastien A. Smallwood, Kathleen R. Stewart-Morgan, Heba Saadeh, Jeesun Kim, Simon R. Andrews, Taiping Chen and Gavin Kelsey
    Citation: Epigenetics & Chromatin 2017 10:25
    Content type: Research Published on:

  14. In female mice, while the presence of two-active X-chromosomes characterises pluripotency, it is not tolerated in most other cellular contexts. In particular, in the trophoblastic lineage, impairment of patern...

    Authors: Julie Prudhomme, Agnès Dubois, Pablo Navarro, Danielle Arnaud, Philip Avner and Céline Morey
    Citation: Epigenetics & Chromatin 2015 8:52
    Content type: Research Published on:

  15. Eukaryotic genome duplication starts at discrete sequences (replication origins) that coordinate cell cycle progression, ensure genomic stability and modulate gene expression. Origins share some sequence featu...

    Authors: Owen K. Smith, RyanGuk Kim, Haiqing Fu, Melvenia M. Martin, Chii Mei Lin, Koichi Utani, Ya Zhang, Anna B. Marks, Marc Lalande, Stormy Chamberlain, Maxwell W. Libbrecht, Eric E. Bouhassira, Michael C. Ryan, William S. Noble and Mirit I. Aladjem
    Citation: Epigenetics & Chromatin 2016 9:18
    Content type: Research Published on:

  16. While aberrant DNA methylation is a characteristic feature of tumor cells, our knowledge of how these DNA methylation patterns are established and maintained is limited. DNA methyltransferases and ten-eleven t...

    Authors: Candace J. Poole, Atul Lodh, Jeong-Hyeon Choi and Jan van Riggelen
    Citation: Epigenetics & Chromatin 2019 12:41
    Content type: Research Published on:

  17. Gene promoters in vertebrate genomes show distinct chromatin features such as stably positioned nucleosome array and DNA hypomethylation. The nucleosomes are known to have certain sequence preferences, and the...

    Authors: Ryohei Nakamura, Ayako Uno, Masahiko Kumagai, Shinichi Morishita and Hiroyuki Takeda
    Citation: Epigenetics & Chromatin 2017 10:44
    Content type: Research Published on:

  18. In epigenetic research, both the increasing ease of high-throughput sequencing and a greater interest in genome-wide studies have resulted in an exponential flooding of epigenetic-related data in public domai...

    Authors: SriGanesh Jammula and Diego Pasini
    Citation: Epigenetics & Chromatin 2016 9:42
    Content type: Methodology Published on:

  19. Protein posttranslational modifications (PTMs) occur broadly in the human proteome, and their biological outcome is often mediated indirectly by reader proteins that specifically bind to modified proteins and ...

    Authors: Agnieszka Anna Rawłuszko-Wieczorek, Franziska Knodel, Raluca Tamas, Arunkumar Dhayalan and Albert Jeltsch
    Citation: Epigenetics & Chromatin 2018 11:4
    Content type: Methodology Published on:

  20. The assay for transposase-accessible chromatin (ATAC-seq) is a powerful method to examine chromatin accessibility. While many studies have reported a positive correlation between gene expression and promoter a...

    Authors: Rebekah R. Starks, Anilisa Biswas, Ashish Jain and Geetu Tuteja
    Citation: Epigenetics & Chromatin 2019 12:16
    Content type: Research Published on:

  21. Trimethylation at histone H3 lysine 4 (H3K4me3) and lysine 27 (H3K27me3) controls gene activity during development and differentiation. Whether H3K4me3 and H3K27me3 changes dynamically in response to altered m...

    Authors: Peggy Prickaerts, Michiel E. Adriaens, Twan van den Beucken, Elizabeth Koch, Ludwig Dubois, Vivian E. H. Dahlmans, Caroline Gits, Chris T. A. Evelo, Michelle Chan-Seng-Yue, Bradly G. Wouters and Jan Willem Voncken
    Citation: Epigenetics & Chromatin 2016 9:46
    Content type: Research Published on:

  22. The MAPK/ERK signaling pathway is an essential regulator of numerous cell processes that are crucial for normal development as well as cancer progression. While much is known regarding MAPK/ERK signal conveyan...

    Authors: Temesgen D. Fufa, Laura L. Baxter, Julia C. Wedel, Derek E. Gildea, Stacie K. Loftus and William J. Pavan
    Citation: Epigenetics & Chromatin 2019 12:50
    Content type: Research Published on:

  23. Comprehensive genome-wide DNA methylation profiling is critical to gain insights into epigenetic reprogramming during development and disease processes. Among the different genome-wide DNA methylation technolo...

    Authors: Shalima S. Nair, Phuc-Loi Luu, Wenjia Qu, Madhavi Maddugoda, Lily Huschtscha, Roger Reddel, Georgia Chenevix-Trench, Martina Toso, James G. Kench, Lisa G. Horvath, Vanessa M. Hayes, Phillip D. Stricker, Timothy P. Hughes, Deborah L. White, John E. J. Rasko, Justin J.-L. Wong…
    Citation: Epigenetics & Chromatin 2018 11:24
    Content type: Methodology Published on:

  26. Our understanding of the nuclear chromatin structure has increased hugely during the last years mainly as a consequence of the advances in chromatin conformation capture methods like Hi-C. The unprecedented re...

    Authors: Enrique M. Muro, Jonas Ibn-Salem and Miguel A. Andrade-Navarro
    Citation: Epigenetics & Chromatin 2019 12:72
    Content type: Research Published on:

  27. Signaling via B cell receptor (BCR) and Toll-like receptors (TLRs) results in activation of B cells with distinct physiological outcomes, but transcriptional regulatory mechanisms that drive activation and dis...

    Authors: Trent Fowler, Alexander S Garruss, Amalendu Ghosh, Supriyo De, Kevin G Becker, William H Wood, Matthew T Weirauch, Stephen T Smale, Bruce Aronow, Ranjan Sen and Ananda L Roy
    Citation: Epigenetics & Chromatin 2015 8:20
    Content type: Research Published on:

  28. There are multiple copies of mitochondrial DNA (mtDNA) present in each cell type, and they are strictly regulated in a cell-specific manner by a group of nuclear-encoded mtDNA-specific replication factors. Thi...

    Authors: Xin Sun and Justin C. St John
    Citation: Epigenetics & Chromatin 2018 11:53
    Content type: Research Published on:

  29. The regulation of specific target genes by transcription factors is central to our understanding of gene network control in developmental and physiological processes yet how target specificity is achieved is s...

    Authors: Ching Yew Beh, Sherif El-Sharnouby, Aikaterini Chatzipli, Steven Russell, Siew Woh Choo and Robert White
    Citation: Epigenetics & Chromatin 2016 9:1
    Content type: Research Published on:

  30. The compaction of DNA in chromatin in eukaryotes allowed the expansion of genome size and coincided with significant evolutionary diversification. However, chromatin generally represses DNA function, and mecha...

    Authors: Johannes Petrus Maree, Megan Lindsay Povelones, David Johannes Clark, Gloria Rudenko and Hugh-George Patterton
    Citation: Epigenetics & Chromatin 2017 10:14
    Content type: Research Published on:

  31. Macrophages are sentinel cells essential for tissue homeostasis and host defence. Owing to their plasticity, macrophages acquire a range of functional phenotypes in response to microenvironmental stimuli, of w...

    Authors: Elena Denisenko, Reto Guler, Musa M. Mhlanga, Harukazu Suzuki, Frank Brombacher and Sebastian Schmeier
    Citation: Epigenetics & Chromatin 2017 10:50
    Content type: Research Published on:

  32. Epigenome editing is expected to manipulate transcription and cell fates and to elucidate the gene expression mechanisms in various cell types. For functional epigenome editing, assessing the chromatin context...

    Authors: Masahiro Okada, Mitsuhiro Kanamori, Kazue Someya, Hiroko Nakatsukasa and Akihiko Yoshimura
    Citation: Epigenetics & Chromatin 2017 10:24
    Content type: Research Published on:

  33. Maternal consumption of alcohol during pregnancy is associated with a range of physical, cognitive and behavioural outcomes in the offspring which are collectively called foetal alcohol spectrum disorders. We ...

    Authors: Christine R. Zhang, Mei-Fong Ho, Michelle C. Sanchez Vega, Thomas H. J. Burne and Suyinn Chong
    Citation: Epigenetics & Chromatin 2015 8:40
    Content type: Research Published on:

  34. Our understanding of eukaryotic gene regulation is limited by the complexity of protein–DNA interactions that comprise the chromatin landscape and by inefficient methods for characterizing these interactions. ...

    Authors: Derek H. Janssens, Steven J. Wu, Jay F. Sarthy, Michael P. Meers, Carrie H. Myers, James M. Olson, Kami Ahmad and Steven Henikoff
    Citation: Epigenetics & Chromatin 2018 11:74
    Content type: Methodology Published on:

  35. Linker histones establish and maintain higher-order chromatin structure. Eleven linker histone subtypes have been reported in mammals. HILS1 is a spermatid-specific linker histone, and its expression overlaps ...

    Authors: Laxmi Narayan Mishra, Vasantha Shalini, Nikhil Gupta, Krittika Ghosh, Neeraj Suthar, Utsa Bhaduri and M. R. Satyanarayana Rao
    Citation: Epigenetics & Chromatin 2018 11:43
    Content type: Research Published on:

  36. Global epigenetic reprogramming is considered to be essential during embryo development to establish totipotency. In the classic model first described in the mouse, the genome-wide DNA demethylation is asymmet...

    Authors: Sonia Heras, Katrien Smits, Catharina De Schauwer and Ann Van Soom
    Citation: Epigenetics & Chromatin 2017 10:13
    Content type: Research Published on:

  37. We have previously reported a novel O-GlcNAc modification at serine 40 (S40) of H2A (H2AS40Gc). S40-type H2A isoforms susceptible to O-GlcNAcylation are evolutionarily new and restricted to the viviparous animals...

    Authors: Koji Hayakawa, Mitsuko Hirosawa, Ruiko Tani, Chikako Yoneda, Satoshi Tanaka and Kunio Shiota
    Citation: Epigenetics & Chromatin 2017 10:51
    Content type: Research Published on:

  38. DNA methylation is one way to encode epigenetic information and plays a crucial role in regulating gene expression during embryonic development. DNA methylation marks are established by the DNA methyltransfera...

    Authors: Yun Liu, William Duong, Claudia Krawczyk, Nancy Bretschneider, Gábor Borbély, Mukesh Varshney, Christian Zinser, Primo Schär and Joëlle Rüegg
    Citation: Epigenetics & Chromatin 2016 9:7
    Content type: Research Published on:

  39. Positioning of nucleosomes along DNA is an integral regulator of chromatin accessibility and gene expression in diverse cell types. However, the precise nature of how histone demethylases including the histone...

    Authors: Jiji T. Kurup, Ion J. Campeanu and Benjamin L. Kidder
    Citation: Epigenetics & Chromatin 2019 12:20
    Content type: Research Published on:

  40. Chromatin insulators shield promoters and chromatin domains from neighboring enhancers or chromatin regions with opposing activities. Insulator-binding proteins and their cofactors mediate the boundary functio...

    Authors: Theresa Jox, Melanie K. Buxa, Dorte Bohla, Ikram Ullah, Igor Mačinković, Alexander Brehm, Marek Bartkuhn and Rainer Renkawitz
    Citation: Epigenetics & Chromatin 2017 10:32
    Content type: Research Published on:

  41. Stem cell differentiation involves major chromatin reorganisation, heterochromatin formation and genomic relocalisation of structural proteins, including heterochromatin protein 1 gamma (HP1γ). As the principa...

    Authors: Meike Wiese, Andrew J. Bannister, Srinjan Basu, Wayne Boucher, Kai Wohlfahrt, Maria A. Christophorou, Michael L. Nielsen, David Klenerman, Ernest D. Laue and Tony Kouzarides
    Citation: Epigenetics & Chromatin 2019 12:21
    Content type: Research Published on:

  42. Prenatal alcohol exposure is the leading preventable cause of behavioral and cognitive deficits, which may affect between 2 and 5 % of children in North America. While the underlying mechanisms of alcohol’s ef...

    Authors: Elodie Portales-Casamar, Alexandre A. Lussier, Meaghan J. Jones, Julia L. MacIsaac, Rachel D. Edgar, Sarah M. Mah, Amina Barhdadi, Sylvie Provost, Louis-Philippe Lemieux-Perreault, Max S. Cynader, Albert E. Chudley, Marie-Pierre Dubé, James N. Reynolds, Paul Pavlidis and Michael S. Kobor
    Citation: Epigenetics & Chromatin 2016 9:25
    Content type: Research Published on:

  43. In animals, H3K4me2 and H3K4me3 are enriched at the transcription start site (TSS) and function as epigenetic marks that regulate gene transcription, but their functions in plants have not been fully character...

    Authors: Yuhao Liu, Kunpeng Liu, Liufan Yin, Yu Yu, Ji Qi, Wen-Hui Shen, Jun Zhu, Yijing Zhang and Aiwu Dong
    Citation: Epigenetics & Chromatin 2019 12:40
    Content type: Research Published on:

  44. DNA methylation plays a vital role in the cell, but loss-of-function mutations of the maintenance methyltransferase DNMT1 in normal human cells are lethal, precluding target identification, and existing hypomorph...

    Authors: Karla M. O’Neill, Rachelle E. Irwin, Sarah-Jayne Mackin, Sara-Jayne Thursby, Avinash Thakur, Ciske Bertens, Laura Masala, Jayne E. P. Loughery, Darragh G. McArt and Colum P. Walsh
    Citation: Epigenetics & Chromatin 2018 11:12
    Content type: Research Published on:

  45. Genome organization into subchromosomal topologically associating domains (TADs) is linked to cell-type-specific gene expression programs. However, dynamic properties of such domains remain elusive, and it is ...

    Authors: Malte Wachsmuth, Tobias A. Knoch and Karsten Rippe
    Citation: Epigenetics & Chromatin 2016 9:57
    Content type: Research Published on:

  46. Regulated gene expression controls organismal development, and variation in regulatory patterns has been implicated in complex traits. Thus accurate prediction of enhancers is important for further understandi...

    Authors: Nergiz Dogan, Weisheng Wu, Christapher S Morrissey, Kuan-Bei Chen, Aaron Stonestrom, Maria Long, Cheryl A Keller, Yong Cheng, Deepti Jain, Axel Visel, Len A Pennacchio, Mitchell J Weiss, Gerd A Blobel and Ross C Hardison
    Citation: Epigenetics & Chromatin 2015 8:16
    Content type: Research Published on:

  47. CGGBP1 is a repeat-binding protein with diverse functions in the regulation of gene expression, cytosine methylation, repeat silencing and genomic integrity. CGGBP1 has also been identified as a cooperator of ...

    Authors: Divyesh Patel, Manthan Patel, Subhamoy Datta and Umashankar Singh
    Citation: Epigenetics & Chromatin 2019 12:57
    Content type: Research Published on:

  48. Histone posttranslational modifications (PTMs) function to regulate chromatin structure and function in part through the recruitment of effector proteins that harbor specialized “reader” domains. Despite effor...

    Authors: Erin K. Shanle, Stephen A. Shinsky, Joseph B. Bridgers, Narkhyun Bae, Cari Sagum, Krzysztof Krajewski, Scott B. Rothbart, Mark T. Bedford and Brian D. Strahl
    Citation: Epigenetics & Chromatin 2017 10:12
    Content type: Research Published on:

  49. Accurate regulation of tissue- and stage-specific expression of genes is prerequisite for normal development in organisms. DNA methylation plays an important role in modulating gene expression in mammals and p...

    Authors: Guanfeng Xu, Jie Zhang, Hao Lyu, Qisheng Song, Qili Feng, Hui Xiang and Sichun Zheng
    Citation: Epigenetics & Chromatin 2018 11:32
    Content type: Research Published on:

  50. Unraveling transcriptional regulatory networks is a central problem in molecular biology and, in this quest, chromatin immunoprecipitation and sequencing (ChIP-seq) technology has given us the unprecedented ab...

    Authors: Parameswaran Ramachandran, Gareth A. Palidwor and Theodore J. Perkins
    Citation: Epigenetics & Chromatin 2015 8:33
    Content type: Research Published on:
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ISSN: 1756-8935