Epigenomics最新文献

Immune cell composition is an important contributor to epigenetic age variation.

IF 3 4区医学

Epigenomics Pub Date : 2025-03-06 DOI: 10.1080/17501911.2025.2476391

Saara Marttila

引用次数: 0

Circulating non-coding RNAs as a tool for liquid biopsy in solid tumors.

IF 3 4区医学

Epigenomics Pub Date : 2025-03-05 DOI: 10.1080/17501911.2025.2467021

Beyza Karaca Dogan, Seda Salman Yilmaz, Gizem Nur Izgi, Mustafa Ozen

{"title":"Circulating non-coding RNAs as a tool for liquid biopsy in solid tumors.","authors":"Beyza Karaca Dogan, Seda Salman Yilmaz, Gizem Nur Izgi, Mustafa Ozen","doi":"10.1080/17501911.2025.2467021","DOIUrl":"https://doi.org/10.1080/17501911.2025.2467021","url":null,"abstract":"Solid tumors are significant causes of global mortality and morbidity. Recent research has primarily concentrated on finding pathology-specific molecules that can be acquired non-invasively and that can change as the disease progresses or in response to treatment. The focus of research has moved to RNA molecules that are either freely circulating in body fluids or bundled in microvesicles and exosomes because of their great stability in challenging environments, ease of accessibility, and changes in level in response to therapy. In this context, there are many non-coding RNAs that can be used for this purpose in liquid biopsies. Out of these, microRNAs have been extensively studied. However, there has been an increase of interest in studying long non-coding RNAs, piwi interacting RNAs, circular RNAs, and other small non-coding RNAs. In this article, an overview of the most researched circulating non-coding RNAs in solid tumors will be reviewed, along with a discussion of the significance of these molecules for early diagnosis, prognosis, and therapeutic targets. The publications analyzed were extracted from the PubMed database between 2008 and June 2024.","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":" ","pages":"1-24"},"PeriodicalIF":3.0,"publicationDate":"2025-03-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143556263","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

N4-acetylcytidine and other RNA modifications in epitranscriptome: insight into DNA repair and cancer development.

IF 3 4区医学

Epigenomics Pub Date : 2025-03-05 DOI: 10.1080/17501911.2025.2473308

Eva Bártová, Lenka Stixová, Alena Svobodová Kovaříková

{"title":"N4-acetylcytidine and other RNA modifications in epitranscriptome: insight into DNA repair and cancer development.","authors":"Eva Bártová, Lenka Stixová, Alena Svobodová Kovaříková","doi":"10.1080/17501911.2025.2473308","DOIUrl":"10.1080/17501911.2025.2473308","url":null,"abstract":"N4-acetylcytidine (ac4C) is a post-transcriptional RNA modification that plays a crucial role in the epitranscriptome, influencing gene expression and cellular function. This modification occurs at the cytosine base, where an acetyl group is installed to the nitrogen at the 4th position (N4). This co-transcription modification affects RNA stability, RNA structure, and translation efficiency. Recent studies have uncovered a potential link between RNA modifications and DNA repair mechanisms, suggesting that ac4C-modified or methylated RNAs may interact with factors involved in DNA repair pathways; thus, influencing the cellular response to DNA damage. Dysregulation of modified RNAs, including ac4C RNA, has been implicated in cancer development, where aberrant levels of these RNAs may contribute to oncogenic transformation by altering genome stability and the expression of key genes regulating cell proliferation, cell cycle progression, and apoptosis. Understanding the dynamics of modified RNAs offers promising insights into the role of epitranscriptome in DNA repair processes and cancer treatment.","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":" ","pages":"1-12"},"PeriodicalIF":3.0,"publicationDate":"2025-03-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143556265","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Association between imprinting disorders and assisted reproductive technologies.

IF 3 4区医学

Epigenomics Pub Date : 2025-03-03 DOI: 10.1080/17501911.2025.2471269

Masayo Kagami, Kaori Hara-Isono, Aiko Sasaki, Mitsuyoshi Amita

引用次数: 0

Epigenomic mechanisms of dietary prescriptions for obesity therapy.

IF 3 4区医学

Epigenomics Pub Date : 2025-03-02 DOI: 10.1080/17501911.2025.2473309

Omar Ramos-Lopez

{"title":"Epigenomic mechanisms of dietary prescriptions for obesity therapy.","authors":"Omar Ramos-Lopez","doi":"10.1080/17501911.2025.2473309","DOIUrl":"https://doi.org/10.1080/17501911.2025.2473309","url":null,"abstract":"Dietary modification is a cornerstone and a primary goal for weight loss, whose effects may be related to epigenetic phenomena. In this literature review, a comprehensive search without time restriction was performed in PubMed/Medline, Cochrane, SciELO, and Scopus databases to identify epigenetic signatures related to obesity outcomes upon dietary advice. In this context, experimental studies and clinical trials have identified certain DNA methylation marks, miRNA expression profiles and histone modifications putatively associated with adiposity outcomes after different nutritional interventions. These include traditional dietary patterns, diets with different macronutrient compositions, and supplementation with fatty acids, amino acids and derivatives, methyl donors, vitamins and minerals, probiotics and prebiotics, and bioactive food compounds. Some of these epigenetic signatures have been mapped to genes involved in food intake control, adipogenesis, lipolysis, fatty acid oxidation, body fat deposition, and gut microbiota modulation. However, additional studies are still required to address dosage and follow-up variability, validation of epigenetic marks, genome-wide approaches, and appropriate statistical settings. Although more investigation is required, these insights may contribute to the characterization of epigenetic biomarkers of body weight regulation toward the prescription of tailored dietary strategies targeting the epigenome for a more precise obesity management and control.","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":" ","pages":"1-12"},"PeriodicalIF":3.0,"publicationDate":"2025-03-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143536914","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

DNA methylation at birth and IgE trajectories from birth to adolescence, different patterns between White and Asian. 出生时的DNA甲基化和从出生到青春期的IgE轨迹，白人和亚洲人之间的模式不同。

IF 3 4区医学

Epigenomics Pub Date : 2025-03-01 Epub Date: 2025-01-18 DOI: 10.1080/17501911.2025.2453412

Hongmei Zhang, Jiasong Duan, Luhang Han, Naznin Alam, Meredith Ray, Fen Yang, Yu Jiang, Susan Ewart, John W Holloway, Wilfried Karmaus, Shu-Li Wang, S Hasan Arshad

{"title":"DNA methylation at birth and IgE trajectories from birth to adolescence, different patterns between White and Asian.","authors":"Hongmei Zhang, Jiasong Duan, Luhang Han, Naznin Alam, Meredith Ray, Fen Yang, Yu Jiang, Susan Ewart, John W Holloway, Wilfried Karmaus, Shu-Li Wang, S Hasan Arshad","doi":"10.1080/17501911.2025.2453412","DOIUrl":"10.1080/17501911.2025.2453412","url":null,"abstract":"Aim: We aim to assess association of DNA methylation (DNAm) at birth with total immunoglobulin E (IgE) trajectories from birth to late adolescence and whether such association is ethnicity-specific.Methods: We examined the association of total IgE trajectories from birth to late adolescence with DNAm at birth in two independent birth cohorts, the Isle of wight birth cohort (IOWBC) in UK (n = 796; White) and the maternal and infant cohort study (MICS) in Taiwan (n = 60; Asian). Biological pathways and methylation quantitative trait loci (methQTL) for associated Cytosine-phosphate-Guanine sites were studied.Results: Two total IgE trajectories, high vs. low, were inferred from each of the two cohorts. Associations of DNAm at 103 CpGs with IgE trajectories in IOWBC and at 476 CpGs in MICS were identified. Between the two cohorts, of the identified CpGs, one was in common, methQTL site cg16711274 (mapped to gene MINAR1), and 17 pathways were common with at least four linked to airway diseases.Conclusion: The findings suggest at-birth epigenetics may explain ethnicity differences in total IgE trajectories later in life.","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":" ","pages":"213-222"},"PeriodicalIF":3.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11853557/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143002520","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Detection of an intestinal cell DNA methylation signature in blood samples from neonates with necrotizing enterocolitis.

IF 3 4区医学

Epigenomics Pub Date : 2025-03-01 Epub Date: 2025-02-02 DOI: 10.1080/17501911.2025.2459552

Lauren Frazer, Tianjiao Chu, Patricia Shaw, Camille Boufford, Lucas Tavares Naief, Michaela Ednie, Laken Ritzert, Caitlin P Green, Misty Good, David Peters

{"title":"Detection of an intestinal cell DNA methylation signature in blood samples from neonates with necrotizing enterocolitis.","authors":"Lauren Frazer, Tianjiao Chu, Patricia Shaw, Camille Boufford, Lucas Tavares Naief, Michaela Ednie, Laken Ritzert, Caitlin P Green, Misty Good, David Peters","doi":"10.1080/17501911.2025.2459552","DOIUrl":"10.1080/17501911.2025.2459552","url":null,"abstract":"Background: Necrotizing enterocolitis (NEC) is an often fatal intestinal injury that primarily affects preterm infants for which screening tools are lacking. We performed a pilot analysis of DNA methylation in peripheral blood samples from preterm infants with and without NEC to identify potential NEC biomarkers.Methods: Peripheral blood samples were collected from infants at NEC diagnosis (n = 15) or from preterm controls (n = 13). Targeted genome-wide analysis was performed to identify DNA methylation differences between cases and controls.Results: Broad differences between NEC cases and controls were identified in distinct genomic elements. Differences between surgical NEC cases and controls were frequently associated with inflammation. Deconvolution analysis to identify cell type-specific DNA signatures revealed increases in ileal, vascular endothelial, and cardiomyocyte cell type proportions and decreases in colonic and neuronal cell type proportions in blood from NEC cases relative to controls.Conclusions: We identified marked differences in DNA methylation of peripheral blood samples from preterm infants with and without NEC. Increased ileal cell-specific methylation signatures in the blood of infants with NEC relative to controls, with a marked increase seen in surgical cases, provides rationale for further analysis of intestinal DNA methylation signatures as biomarkers of NEC.","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":" ","pages":"235-245"},"PeriodicalIF":3.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11853613/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143079135","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A narrative review of epigenetic marker in H3K27ac and its emerging potential as a therapeutic target in cancer.

IF 3 4区医学

Epigenomics Pub Date : 2025-03-01 Epub Date: 2025-02-21 DOI: 10.1080/17501911.2025.2460900

Meizi Zhu, Xuejin Lu, Danhong Wang, Jinhu Ma, Yi Wang, Rui Wang, Hongye Wang, Wenhui Cheng, Yaling Zhu

{"title":"A narrative review of epigenetic marker in H3K27ac and its emerging potential as a therapeutic target in cancer.","authors":"Meizi Zhu, Xuejin Lu, Danhong Wang, Jinhu Ma, Yi Wang, Rui Wang, Hongye Wang, Wenhui Cheng, Yaling Zhu","doi":"10.1080/17501911.2025.2460900","DOIUrl":"10.1080/17501911.2025.2460900","url":null,"abstract":"Histone acetylation, particularly H3 K27 acetylation (H3K27ac), is a critical post-translational modification that regulates chromatin structure and gene expression, which plays a significant role in various cancers, including breast, colon, lung, hepatocellular, and prostate cancer. However, the mechanisms of H3K27ac in tumorigenesis are not yet comprehensive, especially its epigenetic mechanisms. This review endeavors to discuss findings on the involvement of H3K27ac in carcinogenesis within the past 5 years through a literature search using academic databases such as Web of Science. Firstly, we provide an overview of the diverse landscape of histone modifications, emphasizing the distinctive characteristics and critical significance of H3K27ac. Secondly, we summarize and compare advanced high-throughput sequencing technologies that have been utilized in the construction of the H3K27ac epigenetic map. Thirdly, we elucidate the role of H3K27ac in mediating gene transcription. Fourthly, we venture into the potential molecular mechanism of H3K27ac in cancer development. Finally, we engage in discussing future therapeutic approaches in oncology, with a spotlight on strategies that harness the potential of H3K27 modifications. In conclusion, this review comprehensively summarizes the characteristics of H3K27ac and underscores its pivotal role in cancer, providing valuable insights into its potential as a therapeutic target for cancer intervention.","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":" ","pages":"263-279"},"PeriodicalIF":3.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11853624/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143467430","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The eighth annual US DOHAD meeting: promising approaches in epigenetics research of early life exposures.

IF 3 4区医学

Epigenomics Pub Date : 2025-03-01 Epub Date: 2025-01-28 DOI: 10.1080/17501911.2025.2459550

Amy L Non

{"title":"The eighth annual US DOHAD meeting: promising approaches in epigenetics research of early life exposures.","authors":"Amy L Non","doi":"10.1080/17501911.2025.2459550","DOIUrl":"10.1080/17501911.2025.2459550","url":null,"abstract":"The U.S. Developmental Origins of Health and Disease (DOHaD) meeting is an annual conference of primarily U.S. scientists who study early life programming of health and disease. The eighth annual symposium, entitled \"Exploring Translational DOHaD Science: From Cells to Communities\" was held at the Rizzo Conference Center in Chapel Hill, North Carolina, from October 14 to 16, 2024. The meeting was organized by US-DOHaD President Danielle Christifano and Vice President Kaela Varberg, and other Society Council Members. This year's meeting had record attendance, with 158 attendees from diverse disciplines, and featured 10 keynote speakers, 11 platform talks, and 84 poster presentations. Four major topics were covered: 1) Early nutrition and developmental outcomes, 2) Prenatal origins of child health, 3) Developmental impacts of toxicant exposures, and 4) Metabolic origins of health. Overall, the presented research highlighted the value of studying epigenetic effects of dietary and toxic exposures early in life. Various strategies emerged to address challenges facing the field, such as harnessing the power of nationwide longitudinal birth cohorts, new methods to integrate epigenetic and environmental data across various levels, and the emerging potential of organoids to identify the causal impact of early life exposures.","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":" ","pages":"209-211"},"PeriodicalIF":3.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11853541/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143051972","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Epigenetics and suicidal behavior in adolescents: a critical review. 青少年的表观遗传学和自杀行为：一个重要的回顾。

IF 3 4区医学

Epigenomics Pub Date : 2025-03-01 Epub Date: 2025-01-17 DOI: 10.1080/17501911.2025.2453415

Yu Funahashi, Yogesh Dwivedi

{"title":"Epigenetics and suicidal behavior in adolescents: a critical review.","authors":"Yu Funahashi, Yogesh Dwivedi","doi":"10.1080/17501911.2025.2453415","DOIUrl":"10.1080/17501911.2025.2453415","url":null,"abstract":"Suicide continues to be a significant public health issue globally, claiming over 700,000 lives annually. It is, therefore, important to assess the suicide risk properly and provide intervention in a timely fashion. While the heritability of suicidal behavior is around 50%, it does not explain the factors involved in causality. Recent evidence suggests that gene x environment interaction plays a vital role in suicidal behavior. In this paper, we critically evaluate the association between adolescent suicidal behavior and epigenetic modifications, including DNA methylation, histone modification, and non-coding RNAs, as well as epigenetic-based treatment options. It was noted that the prevalence of suicidal behavior in adolescents varied by age and sex and the presence of psychiatric disorders. Childhood adversity was closely associated with suicidal behavior. Studies show that alterations in epigenetic modifications may increase the risk of suicidal behavior independent of mental illnesses. Because epigenetic factors are reversible, environmental enrichment or the use of pharmacological agents that can target specific epigenetic modulation may be able to reduce suicidal behavior in this population.","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":" ","pages":"247-262"},"PeriodicalIF":3.0,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11853622/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143001705","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0