Effect of Chromatin-Remodeling Agents in Hepatic Differentiation of Rat Bone Marrow-Derived Mesenchymal Stem Cells In Vitro and In Vivo by Danna Ye, Tong Li, Philip Heraud, Rangsun Parnpai

“…Epigenetic events, including covalent histone modifications and DNA methylation, play fundamental roles in the determination of lineage-specific gene expression and cell fates. …”
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Epigenetic Regulation of Stromal and Immune Cells and Therapeutic Targets in the Tumor Microenvironment by Kang Liu, Yue Li, Minmin Shen, Wei Xu, Shanshan Wu, Xinxin Yang, Bo Zhang, Nengming Lin

“…This review synthesizes recent research that elucidates the impact of specific epigenetic regulations—ranging from DNA methylation to histone modifications and chromatin remodeling—on stromal and immune cells within the TME. …”
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Assessment of relationships between epigenetic age acceleration and multiple sclerosis: a bidirectional mendelian randomization study by Hongwei Liu, Hanqing Zhang, Zhaoxu Yin, Miaomiao Hou

“…Abstract Background The DNA methylation-based epigenetic clocks are increasingly recognized for their precision in predicting aging and its health implications. …”
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Identification of Potential Abnormal Methylation-Modified Genes in Coronary Artery Ectasia by Xiuchun Yang, Yijun Zong, Zhentian Zhang, Yan Zhao, Xueying Gao, Jie Zhang, Qian Hou, Renyi Li, Bing Xiao

“…Peripheral venous blood samples from patients with CAE were collected for RNA sequencing to identify differentially expressed genes (DEGs), followed by functional enrichment. Then, the DNA methylation profile of CAE was downloaded from GSE87016 (HumanMethylation450 BeadChip data, involving 11 cases and 12 normal controls) to identify differentially methylated genes (DMGs). …”
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Cardiovascular Risk in Systemic Autoimmune Diseases: Epigenetic Mechanisms of Immune Regulatory Functions by Chary López-Pedrera, Carlos Pérez-Sánchez, Manuel Ramos-Casals, Monica Santos-Gonzalez, Antonio Rodriguez-Ariza, Ma José Cuadrado

“…Epigenetic regulatory mechanisms comprise DNA methylation, histone modifications, and microRNA activity, all of which act upon gene and protein expression levels. …”
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Colon Cancer Genetic and Epigenetic Changes, Etiopathogenesis, Risk Factors, Treatment: Literature Review by Gabrielė Ūbaitė, Aurelija Remeikaitė, Justas Žilinskas

“…Our findings emphasize the central role of genetic mutations (particularly in APC, TP53, KRAS and MMR) and epigenetic alterations, such as DNA methylation and histone modification, in the pathogenesis of colorectal cancer. …”
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CTSG is a prognostic marker involved in immune infiltration and inhibits tumor progression though the MAPK signaling pathway in non-small cell lung cancer by Qian Dai, Xufeng Yao, Yanke Zhang, Qian Chai, Xueyi Feng, Hongbin Zhu, Lei Zhao

“…CTSG suppresses the MAPK and EMT signaling pathways in NSCLC cells. Moreover, DNA methylation and histone deacetylation have been identified as crucial mechanisms contributing to the decreased expression of CTSG. …”
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Identifying common pathways for doxorubicin and carfilzomib-induced cardiotoxicities: transcriptomic and epigenetic profiling by Conagh Kelly, Dylan J. Kiltschewskij, Angeline J.W. Leong, Tatt Jhong Haw, Amanda J. Croft, Lohis Balachandran, Dongqing Chen, Danielle R. Bond, Heather J. Lee, Murray J. Cairns, Aaron L. Sverdlov, Doan T. M. Ngo

“…Both Doxorubicin and Carfilzomib induced a significant reduction in HCM cell viability and cell damage. DNA methylation analysis performed using MethylationEPIC array showed distinct and common changes induced by Doxorubicin and Carfilzomib (10,270 or approximately 12.9% of the DMPs for either treatment overlapped). …”
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High Expression of Ten Eleven Translocation 1 Is Associated with Poor Prognosis in Hepatocellular Carcinoma by Haopeng Wen, Tengfei Ji, Liteng Lin, Nan Cheng, Kangshun Zhu, Liangqi Cao

“…Background. DNA methylation patterns have been found to be distinct between tumor and normal patients. …”
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Epigenetic Mechanisms in Type-2 Diabetes Mellitus: A Narrative Review by Deenadhayalan Ashok, Monisha Prasad, Mohammad Fareed, Anis Ahmad Chaudhary

“…The findings suggest that β-cell malfunction, insulin resistance, and other metabolic abnormalities connected to T2DM are related to epigenetic alterations, which include histone modifications, Deoxyribonucleic Acid (DNA) methylation, and non coding Ribonucleic Acids (RNAs). …”
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Integrating multiomics analysis and machine learning to refine the molecular subtyping and prognostic analysis of stomach adenocarcinoma by Miaodong Wang, Qin He, Zeshan Chen, Yijue Qin

“…We downloaded the multiomics data of STAD patients in The Cancer Genome Atlas (TCGA)-STAD cohort, which included mRNA, microRNA, long non-coding RNA, somatic mutation, and DNA methylation data, from the sxdyc website. We synthesized the multiomics data of patients with STAD using 10 clustering methods, construct a consensus machine learning-driven signature (CMLS)-related prognostic models by combining 10 machine learning methods, and evaluated the prognosis models using the C-index. …”
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EXO1 is a key gene for lung-resident memory T cells and has diagnostic and predictive values for lung adenocarcinoma by Zhuoqi Li, Xiaoyan Lin, Yuanhui Yang, Mei Tian, Lu Zhang, Fujing Huang, Xiao Wen, Zhigang Wei, Yuan Tian

“…In this study, the RNA expression, DNA methylation, CNV, somatic mutation data of EXO1, and the corresponding patients’ clinical information from publicly available databases were analyzed using bioinformatic methods. …”
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Transcriptomic analysis of Medicago truncatula calli with MtWOX9-1 overexpression by V. E. Tvorogova, E. Y. Krasnoperova, A. A. Kudriashov, K. A. Kuznetsova, E. A. Potsenkovskaya, Y. A. Fedorova, L. A. Lutova

“…Enriched GO pathways included  several groups  related to histone  methyltransferase activity as well as DNA methylation and chromatin binding,  suggesting major epigenetic changes that  occur in call overexpressing MtWOX9-1. …”
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Quantification of Free Circulating DNA and Differential Methylation Profiling of Selected Genes as Novel Non-Invasive Biomarkers for Endometriosis Diagnosis by Moncef Benkhalifa, Pierre Alain Menoud, David Piquemal, Jack Y. Hazout, Sami Mahjoub, Mohammed Zarquaoui, Noureddine Louanjli, Rosalie Cabry, Andre Hazout

“…Endometriosis is a chronic, estrogen-dependent disorder associated with the presence of endometrial cells mainly in the pelvic cavity, causing systemic immune inflammation, infertility, epigenetic dysregulation of differential DNA methylation, coelomic metaplasia, and pain. It affects approximately 10–12% of women. …”
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Epigenetic and Neurological Impairments Associated with Early Life Exposure to Persistent Organic Pollutants by Nathalie Grova, Henri Schroeder, Jean-Luc Olivier, Jonathan D. Turner

“…The roles of those environmental factors which may affect epigenetic DNA methylation and therefore influence normal neurodevelopment are then evaluated.…”
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Diploid aposporous sunflower forms triploid BIII progeny displaying increased apospory levels and non-random genetic mutations by Silvina Pessino, Graciela Nestares, Marta B. Bianchi, Iara Katzaroff, Lucía Amato, Marika Bocchini, Gianpiero Marconi, Emidio Albertini, Ana C. Ochogavía

“…Furthermore, specific non-random genetic and DNA methylation changes were detected in the F2 triploids compared to F2 diploids and parental plants, highlighting recurrent (epi)genetic alterations occurring during triploidization. …”
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Glucocorticoid receptor gene (NR3C1) methylation, childhood maltreatment, multilevel reward responsiveness and depressive and anxiety symptoms: A neuroimaging epigenetic study by Yajing Xu, Shan Yang, Cong Cao

“…We conducted the first longitudinal study to investigate the extent to which DNA methylation of a stress-related gene—NR3C1—interacts with childhood maltreatment in association with young adult reward responsiveness (RR) and the downstream risk of depressive (anhedonia dimension in particular) and anxiety symptoms. …”
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Metabolic and epigenetic regulation of macrophage polarization in atherosclerosis: Molecular mechanisms and targeted therapies by Pinglian Yang, Xiaoling Rong, Zhechang Gao, Jiaojiao Wang, Zhiping Liu

“…With the advance of metabolomics and epigenetics, metabolites/metabolic and epigenetic modification such as DNA methylation, histone modification and noncoding RNA, play a crucial role in macrophage polarization and the progression of atherosclerosis. …”
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Quantifying human genome parameters in aging by V. P. Volobaev, S. S. Kunizheva, L. I. Uralsky, D. A. Kupriyanova, E. I. Rogaev

“…The review considers the relationship between quantitative characteristics of the mitochondrial genome and aging, longevity, and age-related neurodegenerative diseases, such as the frequency of extensive mitochondrial DNA (mtDNA) deletions, mtDNA half-life, the frequency of A>G replacements in the mtDNA heavy chain, the number of mtDNA copies; special attention is paid to the mtDNA methylation sign. A separate section of this review is devoted to the correlation of telomere length parameters with age, as well as the association of telomere length with the amount of mitochondrial DNA. …”
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Topological Characterization of Human and Mouse m5C Epitranscriptome Revealed by Bisulfite Sequencing by Zhen Wei, Subbarayalu Panneerdoss, Santosh Timilsina, Jingting Zhu, Tabrez A. Mohammad, Zhi-Liang Lu, João Pedro de Magalhães, Yidong Chen, Rong Rong, Yufei Huang, Manjeet K. Rao, Jia Meng

“…With a comparative analysis of the mRNA and DNA methylome, we demonstrate that, like DNA methylation, transcriptome m5C methylation exhibits a strong clustering effect. …”
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