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DNA methylation analysis of multiple genes in thymic epithelial tumors. 胸腺上皮肿瘤多个基因的DNA甲基化分析
IF 3 4区 医学
Epigenomics Pub Date : 2024-11-08 DOI: 10.1080/17501911.2024.2419362
Vanessa Nicolì, Marianna Giangreco, Eleonora Pardini, Iacopo Petrini, Diana Bacchin, Vittorio Aprile, Franca Melfi, Marco Lucchi, Melania Guida, Roberta Ricciardi, Michelangelo Maestri, Martina Lari, Lucia Migliore, Andrea Stoccoro, Fabio Coppedè
{"title":"DNA methylation analysis of multiple genes in thymic epithelial tumors.","authors":"Vanessa Nicolì, Marianna Giangreco, Eleonora Pardini, Iacopo Petrini, Diana Bacchin, Vittorio Aprile, Franca Melfi, Marco Lucchi, Melania Guida, Roberta Ricciardi, Michelangelo Maestri, Martina Lari, Lucia Migliore, Andrea Stoccoro, Fabio Coppedè","doi":"10.1080/17501911.2024.2419362","DOIUrl":"https://doi.org/10.1080/17501911.2024.2419362","url":null,"abstract":"<p><p><b>Aim:</b> To investigate DNA methylation levels of a panel of genes in thymic epithelial tumors (TETs).<b>Materials & methods:</b> We selected 15 genes among the most promising epigenetic biomarkers of TETs and evaluated their methylation levels in 71 TET samples.<b>Results:</b> thymic carcinomas (TCs) showed hypermethylation of <i>GHSR</i> and <i>ELF3</i> genes and reduced <i>IL1RN</i> methylation levels compared with thymomas (TMs) and healthy thymic tissues. <i>RAG1</i> was hypomethylated in TMs compared with healthy thymic tissues. No difference in the methylation levels of the investigated genes was seen among TM stages and subtypes. No changes in blood methylation levels of the investigated genes were seen among TET subtypes.<b>Conclusion:</b> The present study confirms <i>GHSR, ELF3, IL1RN</i> and <i>RAG1</i> as TET epigenetic biomarkers.</p>","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":null,"pages":null},"PeriodicalIF":3.0,"publicationDate":"2024-11-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142603177","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
The Two Faces of HDAC3: Neuroinflammation in Disease and Neuroprotection in Recovery. HDAC3 的两面性：疾病中的神经炎症和康复中的神经保护。
IF 3 4区 医学
Epigenomics Pub Date : 2024-11-08 DOI: 10.1080/17501911.2024.2419357
Cal Rosete, Annie Vogel Ciernia
{"title":"The Two Faces of HDAC3: Neuroinflammation in Disease and Neuroprotection in Recovery.","authors":"Cal Rosete, Annie Vogel Ciernia","doi":"10.1080/17501911.2024.2419357","DOIUrl":"https://doi.org/10.1080/17501911.2024.2419357","url":null,"abstract":"<p><p>Histone deacetylase 3 (HDAC3) is a critical regulator of gene expression, influencing a variety of cellular processes in the central nervous system. As such, dysfunction of this enzyme may serve as a key driver in the pathophysiology of various neuropsychiatric disorders and neurodegenerative diseases. HDAC3 plays a crucial role in regulating neuroinflammation, and is now widely recognized as a major contributor to neurological conditions, as well as in promoting neuroprotective recovery following brain injury, hemorrhage and stroke. Emerging evidence suggests that pharmacological inhibition of HDAC3 can mitigate behavioral and neuroimmune deficits in various brain diseases and disorders, offering a promising therapeutic strategy. Understanding HDAC3 in the healthy brain lays the necessary foundation to define and resolve its dysfunction in a disease state. This review explores the mechanisms of HDAC3 in various cell types and its involvement in disease pathology, emphasizing the potential of HDAC3 inhibition to address neuroimmune, gene expression and behavioral deficits in a range of neurodegenerative and neuropsychiatric conditions.</p>","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":null,"pages":null},"PeriodicalIF":3.0,"publicationDate":"2024-11-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142603219","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
Gastric microbiome composition accompanied with the Helicobacter pylori related DNA methylation anomaly. 胃微生物组的组成与幽门螺旋杆菌相关的 DNA 甲基化异常有关。
IF 3 4区 医学
Epigenomics Pub Date : 2024-11-04 DOI: 10.1080/17501911.2024.2418803
Takuya Shijimaya, Tomomitsu Tahara, Tsubasa Shimogama, Jumpei Yamazaki, Sanshiro Kobayashi, Naohiro Nakamura, Yu Takahashi, Takashi Tomiyama, Toshiro Fukui, Makoto Naganuma
{"title":"Gastric microbiome composition accompanied with the <i>Helicobacter pylori</i> related DNA methylation anomaly.","authors":"Takuya Shijimaya, Tomomitsu Tahara, Tsubasa Shimogama, Jumpei Yamazaki, Sanshiro Kobayashi, Naohiro Nakamura, Yu Takahashi, Takashi Tomiyama, Toshiro Fukui, Makoto Naganuma","doi":"10.1080/17501911.2024.2418803","DOIUrl":"https://doi.org/10.1080/17501911.2024.2418803","url":null,"abstract":"<p><p><b>Aim:</b> DNA methylation is associated with gastric cancer and <i>Helicobacter pylori</i> (<i>H. pylori</i>) infection, while increasing evidence indicated involvement of other microbes reside in gastric mucosa during gastric tumorigenesis. We investigated bacterial communities in the gastric mucosa accompanied with <i>H. pylori</i> related methylation anomaly.<b>Materials & methods:</b> Gastric mucosa samples from antrum were obtained from 182 cancer-free patients. Bacterial communities were evaluated using 16S rRNA sequencing. The result was correlated with <i>H. pylori</i> related promoter CpG island (CGI) methylation of five genes (<i>IGF2, SLC16A12, SOX11, P2RX7 and MYOD1</i>), LINE1 hypomethylation and telomere length.<b>Results & conclusion:</b> We showed correlation between lower bacterial alpha diversity and higher CGI methylation. Multivariate analysis demonstrated older age (t = 3.46, <i>p</i> = 0.0007), <i>H. pylori</i> infection (t = 9.99, <i>p</i> < 0.0001) and lower bacterial alfa diversity (Shannon index: t = -2.34, <i>p</i> = 0.02) were significantly associated with CGI hypermethylation. In genus or family levels, increased abundance of <i>Helicobacter</i> was associated with hyper CGI methylation with strongest correlation, while decreased abundance of four bacteria (<i>Intrasporangiaceae family, Macellibacteroides</i>, <i>Peptostreptococcus</i> and <i>Dietziaceae family</i>) was also associated with hyper CGI methylation. Our findings suggest the potential correlation between CGI methylation induction and lower bacterial alpha diversity in the gastric mucosa accompanied by <i>H. pylori</i> infection.</p>","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":null,"pages":null},"PeriodicalIF":3.0,"publicationDate":"2024-11-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142567844","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
The mystique of epigenetic regulation: the remarkable case of a human noncoding RNA, nc886. 表观遗传调控的神秘性：人类非编码 RNA nc886 的非凡案例。
IF 3 4区 医学
Epigenomics Pub Date : 2024-10-28 DOI: 10.1080/17501911.2024.2415278
Yeon-Su Lee, Yong Sun Lee
{"title":"The mystique of epigenetic regulation: the remarkable case of a human noncoding RNA, nc886.","authors":"Yeon-Su Lee, Yong Sun Lee","doi":"10.1080/17501911.2024.2415278","DOIUrl":"https://doi.org/10.1080/17501911.2024.2415278","url":null,"abstract":"<p><p>nc886 is a regulatory noncoding RNA that is transcribed by RNA polymerase III (Pol III), is variably expressed in different biological contexts, and plays roles in inflammation and cancer. Epigenetic mechanisms play an intriguing role in regulating nc886 expression. As a maternally imprinted gene and metastable epiallele, nc866 exhibits polymorphic imprinting, with a methylation status that is influenced by environmental and biological factors. Consequently, the promoter DNA methylation status and the different resulting RNA expression levels of nc886 are associated with physiological and pathological conditions. In this review, we summarize the literature and explore the significance in relation to diverse roles of nc886.</p>","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":null,"pages":null},"PeriodicalIF":3.0,"publicationDate":"2024-10-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142497486","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
High methylation of the same promoter of lncRNA ZNF582-AS1 / ZNF582 promotes malignant progression of esophageal cancer lncRNA ZNF582-AS1 / ZNF582 同一启动子的高甲基化促进食管癌的恶性进展
IF 3.8 4区 医学
Epigenomics Pub Date : 2024-06-04 DOI: 10.1080/17501911.2024.2342229
Zhupeng Li, Hefang Yan, Bin Wang, Haiyong Wang, Aixia Chen, Ting Zhu, Jianjiang Liu, Guangmao Yu, Mingqiang Kang
{"title":"High methylation of the same promoter of lncRNA\u0000 ZNF582-AS1\u0000 /\u0000 ZNF582\u0000 promotes malignant progression of esophageal cancer","authors":"Zhupeng Li, Hefang Yan, Bin Wang, Haiyong Wang, Aixia Chen, Ting Zhu, Jianjiang Liu, Guangmao Yu, Mingqiang Kang","doi":"10.1080/17501911.2024.2342229","DOIUrl":"https://doi.org/10.1080/17501911.2024.2342229","url":null,"abstract":"","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":null,"pages":null},"PeriodicalIF":3.8,"publicationDate":"2024-06-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141267073","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
Novel epigenetic roles of lactylation in osteogenesis 乳化作用在成骨过程中的新型表观遗传作用
IF 3.8 4区 医学
Epigenomics Pub Date : 2024-06-03 DOI: 10.1080/17501911.2024.2355861
K. Sasa, Tadashi Kato, Atsushi Yamada
{"title":"Novel epigenetic roles of lactylation in osteogenesis","authors":"K. Sasa, Tadashi Kato, Atsushi Yamada","doi":"10.1080/17501911.2024.2355861","DOIUrl":"https://doi.org/10.1080/17501911.2024.2355861","url":null,"abstract":"","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":null,"pages":null},"PeriodicalIF":3.8,"publicationDate":"2024-06-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141269731","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
Immunomethylomic profiles of long-term head and neck squamous cell carcinoma survivors on immune checkpoint inhibitors 使用免疫检查点抑制剂的头颈部鳞状细胞癌长期存活者的免疫基因组图谱
IF 3.8 4区 医学
Epigenomics Pub Date : 2024-05-21 DOI: 10.1080/17501911.2024.2343274
Min Kyung Lee, Ze Zhang, Kartik Sehgal, R. Butler, H. Stolrow, G. Ramush, K. Shirai, D. Koestler, L. A. Salas, J. Wiencke, Robert Haddad, K. Kelsey, B. Christensen
{"title":"Immunomethylomic profiles of long-term head and neck squamous cell carcinoma survivors on immune checkpoint inhibitors","authors":"Min Kyung Lee, Ze Zhang, Kartik Sehgal, R. Butler, H. Stolrow, G. Ramush, K. Shirai, D. Koestler, L. A. Salas, J. Wiencke, Robert Haddad, K. Kelsey, B. Christensen","doi":"10.1080/17501911.2024.2343274","DOIUrl":"https://doi.org/10.1080/17501911.2024.2343274","url":null,"abstract":"","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":null,"pages":null},"PeriodicalIF":3.8,"publicationDate":"2024-05-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141117872","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
Cell-free DNA methylation patterns in aging and their association with inflamm-aging 衰老过程中的无细胞 DNA 甲基化模式及其与炎症衰老的关系
IF 3.8 4区 医学
Epigenomics Pub Date : 2024-05-15 DOI: 10.1080/17501911.2024.2340958
Si-Jia Li, Xin Gao, Zi-Hui Wang, Jin Li, Lv-Tao Zeng, Ya-min Dang, Ya-Qing Ma, Li-Qun Zhang, Qing-Yu Wang, Ying-Min Zhang, Hong-Lei Liu, Ruo-Mei Qi, Jian-Ping Cai
{"title":"Cell-free DNA methylation patterns in aging and their association with inflamm-aging","authors":"Si-Jia Li, Xin Gao, Zi-Hui Wang, Jin Li, Lv-Tao Zeng, Ya-min Dang, Ya-Qing Ma, Li-Qun Zhang, Qing-Yu Wang, Ying-Min Zhang, Hong-Lei Liu, Ruo-Mei Qi, Jian-Ping Cai","doi":"10.1080/17501911.2024.2340958","DOIUrl":"https://doi.org/10.1080/17501911.2024.2340958","url":null,"abstract":"","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":null,"pages":null},"PeriodicalIF":3.8,"publicationDate":"2024-05-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140977219","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
Histone methylation in Epstein–Barr virus-associated diseases Epstein-Barr 病毒相关疾病中的组蛋白甲基化
IF 3.8 4区 医学
Epigenomics Pub Date : 2024-05-13 DOI: 10.1080/17501911.2024.2345040
Guanglian Chen, Linlin Zhang, Ran Wang, Zhengde Xie
{"title":"Histone methylation in Epstein–Barr virus-associated diseases","authors":"Guanglian Chen, Linlin Zhang, Ran Wang, Zhengde Xie","doi":"10.1080/17501911.2024.2345040","DOIUrl":"https://doi.org/10.1080/17501911.2024.2345040","url":null,"abstract":"","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":null,"pages":null},"PeriodicalIF":3.8,"publicationDate":"2024-05-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140983457","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
Environmental aging: through the prism of DNA methylation 环境老化：从 DNA 甲基化的角度看问题
IF 3.8 4区 医学
Epigenomics Pub Date : 2024-05-13 DOI: 10.1080/17501911.2024.2345042
Xu Gao
{"title":"Environmental aging: through the prism of DNA methylation","authors":"Xu Gao","doi":"10.1080/17501911.2024.2345042","DOIUrl":"https://doi.org/10.1080/17501911.2024.2345042","url":null,"abstract":"","PeriodicalId":11959,"journal":{"name":"Epigenomics","volume":null,"pages":null},"PeriodicalIF":3.8,"publicationDate":"2024-05-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140985534","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
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