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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Deregulation mechanisms and therapeutic opportunities of p53-responsive microRNAs in diffuse large B-cell lymphoma by Elena N. Voropaeva, Yuriy L. Orlov, Anastasia B. Loginova, Olga B. Seregina, Vladimir N. Maksimov, Tatiana I. Pospelova

“…We analyze various molecular mechanisms leading to this dysregulation, including mutations in the TP53 gene, DNA methylation, changes in host-genes expression or microRNA gene copy number, mutations in microRNA and microRNA biogenesis genes.…”
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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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Silencing of STEAP3 suppresses cervical cancer cell proliferation and migration via JAK/STAT3 signaling pathway by Zouyu Zhao, Panpan Yu, Yan Wang, Hong Li, Hui Qiao, Chongfeng Sun, Lina Zhu, Ping Yang

“…The Reduced Representation Bisulfite Sequencing (RRBS) was used to detect global gene DNA methylation in CC tissues and paracancerous tissues. …”
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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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Environmental maternal exposures and the risk of premature birth and intrauterine growth restriction: The Generation Gemelli study protocol of newborn exposome. by Leonardo Villani, Angelo Maria Pezzullo, Roberta Pastorino, Alessandra Maio, Francesca Stollagli, Chiara Tirone, Marta Barba, Angela Maria Cozzolino, Denise Pires Marafon, Martina Porcelli, Annamaria Sbordone, Maria Letizia Patti, Anthea Bottoni, Angela Paladini, Simona Fattore, Domenico Marco Romeo, Ornella Parolini, Wanda Lattanzi, Guido Rindi, Luca Tamagnone, Marco Marazza, Maurizio Genuardi, Elisabetta Tabolacci, Eugenio Maria Mercuri, Antonio Chiaretti, Tina Pasciuto, Maurizio Sanguinetti, Vincenzo Valentini, Giovanni Scambia, Walter Ricciardi, Giovanni Vento, Antonio Lanzone, Stefania Boccia

“…We will perform laboratory examinations including dosage of heavy metals and essential elements, investigation of placental distress and fetal brain damage of biomarkers, analysis of microbiota and of DNA methylation profile. We will conduct clinical follow-up assessments in both cases and controls at months 12 and 24 and we will collect anthropometric data, feeding types with particular reference to breastfeeding and its duration, pediatric emergency room visits, hospitalizations, medication usage, known allergies, and neuropsychological development.…”
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Disease-associated genetic variants in the regulatory regions of human genes: mechanisms of action on transcription and genomic resources for dissecting these mechanisms by E. V. Ignatieva, E. A. Matrosova

“…A triggering event mediating the effect of a pathogenic genetic variant on the level of gene expression can be, for example, a change in the functional activity of transcription factor binding sites (TFBSs) or DNA methylation change, which, in turn, affects the functional activity of promoters or enhancers. …”
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Role of Sex Hormones in the Development and Progression of Hepatitis B Virus-Associated Hepatocellular Carcinoma by Maurizio Montella, Giovanni D’Arena, Anna Crispo, Mario Capunzo, Flavia Nocerino, Maria Grimaldi, Antonio Barbieri, Anna Maria D’Ursi, Mario Felice Tecce, Alfonso Amore, Massimiliano Galdiero, Gennaro Ciliberto, Aldo Giudice

“…Additionally, sex hormones can also affect HBV-related hepatocarcinogenesis by inducing epigenetic changes such as the regulation of mRNA levels by microRNAs (miRNAs), DNA methylation, and histone modification in liver tissue. …”
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Epigenetics of suicidal behavior by R. N. Mustafin, A. V. Kazantseva, R. F. Enikeeva, Yu. D. Davydova, S. B. Malykh, V. V. Viktorov, E. K. Khusnutdinova

“…The analysis of a brain obtained from suicide victims, representing a unique tool for the analysis of modified genomic processes, revealed a wide range of reprogramming patterns of DNA methylation in promoters of the genes of polyamine (OAZ1, OAZ2, AMD1, ARG2, SKA2), serotonergic (SLC6A4) and GABAergic (GABRA1) systems, HPA-axis (GR, NR3C1), tyrosine kinase (TrkB) receptors, brain-derived neurotrophic factor (BDNF). …”
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Preliminary Evidence of a Horizontal Transfer of Paramutation Phenomenon at the <i>pl1</i> Gene in Maize (<i>Zea mays</i> L.) by Roberto Pilu, Martina Ghidoli, Alessia Follador, Alessandro Passera, Paola Casati, Ervane Laure Cheyep Dinzeu, Elena Cassani, Michela Landoni

“…Despite extensive research, the molecular mechanisms underlying paramutation are still not fully understood, although numerous studies suggest the involvement of RNA-mediated changes in DNA methylation and in the chromatin structure of silenced genes. …”
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IL-13 Augments Histone Demethylase JMJD2B/KDM4B Expression Levels, Activity, and Nuclear Translocation in Airway Fibroblasts in Asthma by Khuloud Bajbouj, Mahmood Y. Hachim, Rakhee K. Ramakrishnan, Huwaida Fazel, Jumana Mustafa, Shahed Alzaghari, Mahmoud Eladl, Jasmin Shafarin, Ronald Olivenstein, Qutayba Hamid

“…Epigenetic alterations, including DNA methylation and histone modifications, have been reported to contribute to asthma pathogenesis. …”
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Differential Regulation of Methylation-Regulating Enzymes by Senescent Stromal Cells Drives Colorectal Cancer Cell Response to DNA-Demethylating Epi-Drugs by Khushboo Agrawal, Viswanath Das, Natálie Táborská, Ján Gurský, Petr Džubák, Marián Hajdúch

“…Our data show that fibroblasts accelerate cell proliferation and differentially regulate the expression of DNA methylation-regulating enzymes, enhancing DAC-induced demethylation in CRC cells. …”
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