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Epigenomes, Volume 9, Issue 3

September 2025 - 14 articles

Cover Story: Cellular metabolism influences the epigenome via crucial cofactors, including folate, vitamins B12/B6, and metabolic intermediates such as acetyl-CoA, α-ketoglutarate, and related molecules, which are instrumental in regulating diverse epigenetic processes. Concurrently, bioactive compounds such as polyphenols possess the capacity to modulate a broad spectrum of chromatin-modifying enzymes. In this context, well-balanced nutrition emerges as an essential requisite for the maintenance of not only metabolic integrity but also epigenetic homeostasis, and diet stands as one of the most important primary external factors influencing the epigenetic landscape and transcriptional gene regulation. View this paper
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Articles (14)

  • Review
  • Open Access
845 Views
14 Pages

m6A RNA Methylation in Psychiatric Disorders: An Emerging Epitranscriptomic Axis

  • Ambrose Loc Ngo,
  • Linda Nguyen,
  • Niki Gharavi Alkhansari and
  • Huiping Zhang

19 September 2025

N6-methyladenosine (m6A) is the most prevalent internal modification in eukaryotic messenger RNA (mRNA) and plays a vital role in post-transcriptional gene regulation. In recent years, m6A has emerged as a pivotal epitranscriptomic signal involved in...

  • Article
  • Open Access
536 Views
14 Pages

18 September 2025

Background/Objectives: The DNA methylome allows environmental signals to be converted into stable and adaptive changes in gene expression. While 5-methylcytosine (5mC) has been extensively studied, alternative epigenetic marks such as N6-methyladenin...

  • Article
  • Open Access
846 Views
19 Pages

Deciphering the Heterogeneity of Pancreatic Cancer: DNA Methylation-Based Cell Type Deconvolution Unveils Distinct Subgroups and Immune Landscapes

  • Barbara Mitsuyasu Barbosa,
  • Alexandre Todorovic Fabro,
  • Roberto da Silva Gomes and
  • Claudia Aparecida Rainho

5 September 2025

Background: Pancreatic ductal adenocarcinoma (PDAC) is a highly heterogeneous malignancy, characterized by low tumor cellularity, a dense stromal response, and intricate cellular and molecular interactions within the tumor microenvironment (TME). Alt...

  • Systematic Review
  • Open Access
904 Views
23 Pages

An Epigenomic Meta-Analysis of Differentially Methylated Sites in Pre- and Post-Metabolic/Bariatric Surgery Adult Female Patients

  • Agnieszka Lovett,
  • Graham A. Hitman,
  • Georgios K. Dimitriadis,
  • Alice M. Murphy,
  • Gyanendra Tripathi and
  • Aparna Duggirala

Background/Objectives: Metabolic/bariatric surgery is currently the most successful treatment for patients with obesity; however, a fifth of patients undergoing surgery may not lose enough weight to be considered successful. Recent studies have shown...

  • Review
  • Open Access
1 Citations
1,708 Views
35 Pages

Epigenetic regulation, particularly DNA methylation, plays a crucial role in plant adaptation to environmental stresses by modulating gene expression without altering the underlying DNA sequence. In response to major abiotic stresses such as salinity...

  • Review
  • Open Access
1,003 Views
18 Pages

Epigenetic Mechanisms in Neurofibromatosis Types 1 and 2

  • Christina Stylianides,
  • Gavriel Hadjigavriel,
  • Paschalis Theotokis,
  • Efstratios Vakirlis,
  • Soultana Meditskou,
  • Maria Eleni Manthou and
  • Iasonas Dermitzakis

Neurocutaneous syndromes, known as phakomatoses, encompass a diverse group of congenital conditions affecting the nervous system and skin, with neurofibromatosis type 1 (NF1) and neurofibromatosis type 2 (NF2) among the most clinically significant. B...

  • Review
  • Open Access
1,217 Views
28 Pages

Role of Ionizing Radiation in Shaping the Complex Multi-Layered Epigenome

  • Claudia E. Rübe,
  • Mutaz A. Abd Al-razaq,
  • Carola Meier,
  • Markus Hecht and
  • Christian Rübe

The impact of ionizing radiation (IR) with induction of various DNA damage is based not only on genetic but also on epigenetic effects. Epigenetic modifications determine the chromatin structure and DNA accessibility, thereby regulating cellular func...

  • Article
  • Open Access
796 Views
20 Pages

DNA Methylation Status of Regulatory Regions of Apoptosis-Associated Genes in Dystropy «Huntington’s Disease—Non-Small Cell Lung Cancer»

  • Nadezhda P. Babushkina,
  • Elena Yu. Bragina,
  • Densema E. Gomboeva,
  • Iuliia A. Koroleva,
  • Sergey N. Illarioshkin,
  • Sergey A. Klyushnikov,
  • Nataliya Yu. Abramycheva,
  • Maria A. Nikitina,
  • Valentina M. Alifirova and
  • Nikolai V. Litviakov
  • + 11 authors

Background. Studies of comorbid (syntropic) and inversely comorbid (rarely occurring together, i.e., dystropic) diseases have focused on the search for molecular causes of this phenomenon. Materials. We investigated DNA methylation levels in regulato...

  • Article
  • Open Access
973 Views
21 Pages

Targeting the Kynureninase–HDAC6–Complement Axis as a Novel Therapeutic Strategy in Glioblastoma

  • Arif Ul Hasan,
  • Sachiko Sato,
  • Mami Obara,
  • Yukiko Kondo and
  • Eiichi Taira

Background/Objectives: Glioblastoma (GBM) is an aggressive brain tumor known for its profound heterogeneity and treatment resistance. Dysregulated complement signaling and epigenetic alterations have been implicated in GBM progression. This study ide...

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Epigenomes - ISSN 2075-4655