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At the Interface of Genetics, Epigenetics, and Metabolism in Cancer: 2nd Edition

A special issue of Cancers (ISSN 2072-6694). This special issue belongs to the section "Cancer Pathophysiology".

Deadline for manuscript submissions: closed (31 December 2025) | Viewed by 4404

Special Issue Editors


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Guest Editor
Department of Integrative Neuroscience, Graduate School of Biomedical Sciences, Nagasaki University, Nagasaki 852-8523, Japan
Interests: cancer metabolism; epigenetics; mTOR complex; glioblastoma; molecular pathology; molecular pathology of brain tumors; neuropathology; experimental pathology
Special Issues, Collections and Topics in MDPI journals
Department of Microbiology and Immunology, Indiana University School of Medicine, Indianapolis, IN 46202, USA
Interests: cancer; therapy; signaling pathway; HER; EGF; Wnt; notch; TGF-β; mTOR; PD-1/PD-L1
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

This Special Issue is the second edition of the Special Issue “At the Interface of Genetics, Epigenetics, and Metabolism in Cancer”, available at: https://www.mdpi.com/journal/cancers/special_issues/ATIOGEAMIC.

Recent advancements in comprehending cancer genomics have culminated in a cancer diagnostic scheme classified by tissue and cell type of origin and, more importantly, by its molecular-genetic composition. The molecular aspect of cancer classification is based primarily on oncogene gains, tumor suppressor losses, and associated transcriptomic shifts. However, the phenotypes of cancer cells are represented more by profound alterations in cellular metabolism and epigenetic landscape, and it is of particular importance that oncogenic genomic aberration enables tumor cells to maximize their survival and drug resistance by taking advantage of the dynamic flow of nutrients in systemic microenvironments. Furthermore, changes in nutrient uptake and utilization directly affect chromatin structure, which is central to this dynamic behavior. This Special Issue will highlight a set of recent discoveries on metabolic and epigenetic reprogramming in cancer; in particular, it will focus on the “co-dependency” of genetics, epigenetics, and metabolism, which contributes to the aggressive phenotypes of cancer cells, suggesting that these aberrations do not constitute a one-way street to sustaining cancer cell survival on their own, but that the mutual interdependency of genetics, epigenetics, and metabolism could be a key to facilitating tumor progression, which will be, at the same time, an Achilles’ heel. These underscore the integration of genetic mutations with metabolic and epigenetic reprogramming in cancer, suggesting a new means to identify patient subsets suitable for specific precision therapeutics.

We look forward to your submissions.

Dr. Kenta Masui
Dr. Linlin Guo
Guest Editors

Manuscript Submission Information

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Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2900 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • cancer metabolism
  • epigenetic reprogramming
  • histone modification
  • DNA methylation
  • chromatin structure
  • intermediary metabolites
  • microenvironment
  • mTOR complexes
  • glioblastoma

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Published Papers (3 papers)

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Review

18 pages, 1377 KB  
Review
The Paradox of Senescence in Glioblastoma: SASP as an Emerging Cancer Hallmark
by Wataru Tarumi, Kiyohito Murai, Yasukazu Nakahata and Kenta Masui
Cancers 2026, 18(4), 550; https://doi.org/10.3390/cancers18040550 - 8 Feb 2026
Cited by 1 | Viewed by 1135
Abstract
Cellular senescence has been traditionally viewed as a tumor-suppressive program that halts its proliferation in response to oncogenic stress or DNA damage. However, recent studies have highlighted a paradoxical role for senescence in glioblastoma (GBM), IDH-wildtype, the most aggressive primary brain tumor in [...] Read more.
Cellular senescence has been traditionally viewed as a tumor-suppressive program that halts its proliferation in response to oncogenic stress or DNA damage. However, recent studies have highlighted a paradoxical role for senescence in glioblastoma (GBM), IDH-wildtype, the most aggressive primary brain tumor in adults. Accumulating evidence indicates that senescence represents a “frequent and durable” cell fate in GBM, particularly following standard therapies such as temozolomide and radiotherapy. Senescent cells frequently persist after temozolomide or radiotherapy and acquire a senescence-associated secretory phenotype (SASP) composed of inflammatory cytokines, growth factors and matrix-remodeling enzymes. These factors not only promote tumor cell survival with stemness-induction but also reshape the pro-tumorigenic microenvironment with metabolic rewiring and immune evasion. Notably, senescence also arises in non-malignant cells—including astrocytes, endothelial cells, microglia, and infiltrating immune cells—creating a multicellular senescent niche that fuels recurrence. Here, we describe a recent advance in our understanding of senescence and SASP in the pathobiology of GBM. We further focus on a state-of-the-art, challenging exploration of the idea that single-cell and spatial profiling, capable of identifying senescence- and SASP-associated morphologic and heterogeneous states, will further refine patient selection and therapeutic timing. By reframing senescence as a modifiable determinant of GBM evolution, this review underscores its emerging significance as both a cancer hallmark and a therapeutic vulnerability. Full article
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14 pages, 3560 KB  
Review
Epigenetics and the Tumor Microenvironment in Neuroendocrine Tumors
by Alice Castenetto and Teresa Gagliano
Cancers 2026, 18(1), 69; https://doi.org/10.3390/cancers18010069 - 25 Dec 2025
Viewed by 795
Abstract
Background: Neuroendocrine neoplasms (NENs) represent a heterogeneous group of malignancies arising from neuroendocrine cells and are most commonly localized in the gastroenteropancreatic and pulmonary systems. Overall, most NENs are characterized by a low mutational burden. Consequently, increasing research attention has focused on epigenetic [...] Read more.
Background: Neuroendocrine neoplasms (NENs) represent a heterogeneous group of malignancies arising from neuroendocrine cells and are most commonly localized in the gastroenteropancreatic and pulmonary systems. Overall, most NENs are characterized by a low mutational burden. Consequently, increasing research attention has focused on epigenetic mechanisms and the tumor microenvironment, which may actively contribute to tumor pathogenesis. Moreover, epigenetic modifications represent plausible mediators of communication in the crosstalk between neuroendocrine cancer cells and components of the tumor microenvironment, as observed in other non-neuroendocrine malignancies. Objectives: The aim of this review is to summarize current knowledge on the role of epigenetic regulation and the tumor microenvironment in the pathogenesis of neuroendocrine tumors and to discuss their potential as targets for more effective therapeutic strategies. Methods: We reviewed research articles published over the past decades that investigated the involvement of epigenetic mechanisms and the tumor microenvironment in NENs. Results: Several studies highlight the pivotal role of epigenetic alterations and tumor microenvironment interactions in NEN biology, influencing tumor development, progression, and therapeutic response. Conclusions: Further studies are warranted to deepen understanding in this field, as this may lead to the development of more effective therapies and improved clinical outcomes for patients with neuroendocrine neoplasms. Full article
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34 pages, 1247 KB  
Review
Decoding the Epigenome: Comparative Analysis of Uterine Leiomyosarcoma and Leiomyoma
by Marie Pfaff, Philippos Costa, Haoyu Tang, Bethsebie Sailo, Anup Sharma and Nita Ahuja
Cancers 2025, 17(16), 2610; https://doi.org/10.3390/cancers17162610 - 9 Aug 2025
Cited by 2 | Viewed by 2004
Abstract
Uterine leiomyomas (ULM) and uterine leiomyosarcomas (ULMS) represent smooth muscle tumors with similar initial presentations but drastically different outcomes. This literature review analyzes the similarities and differences in their epigenetic profiles to identify diagnostic biomarkers and potential therapeutic targets that could improve clinical [...] Read more.
Uterine leiomyomas (ULM) and uterine leiomyosarcomas (ULMS) represent smooth muscle tumors with similar initial presentations but drastically different outcomes. This literature review analyzes the similarities and differences in their epigenetic profiles to identify diagnostic biomarkers and potential therapeutic targets that could improve clinical management. Both tumor types exhibit mostly distinct epigenetic signatures while sharing key pathway dysregulations. ULMS demonstrates global DNA hypomethylation, increased histone acetyltransferase activity, elevated Histone Deacetylase (HDAC) class I expression, and characteristic microRNA profiles. ULM displays focal methylation patterns and specific microRNA alterations that promote extracellular matrix accumulation. Despite these differences in epigenetic mechanisms, both tumors converge on dysregulation of signaling pathways including PI3K/AKT/mTOR, Wnt/β-catenin, and Transforming Growth Factor beta (TGF-β) signaling, suggesting common downstream effects from distinct epigenetic origins. Understanding the shared and distinct epigenetic landscape between ULM and ULMS will enhance our insights into tumor pathogenesis and may offer promising biomarkers and therapeutic targets. Full article
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