The type of diet consumed during prepuberty modulates plasma cholesterol, hepatic LXRα expression, and DNA methylation and hydroxymethylation during adulthood in male rats. by Ana Aguilar-Lozano, Berenice Palacios-González, Martha Guevara-Cruz, Armando R Tovar, Alam Palma-Guzman, Lilia G Noriega

“…Body weight and composition, metabolic rate, biochemical and hormonal plasma measurements, hepatic gene expression and methylation and hydroxymethylation levels were analyzed at ages 30, 40 and 220 days. …”
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Comparative transcriptome analysis of albino northern snakehead (Channa argus) reveals its various collagen-related DEGs in caudal fin cells. by Shixi Chen, Ning Li, Fardous Mohammad Safiul Azam, Li Ao, Na Li, Jianlan Wang, Yuanchao Zou, Rui Li, Zakaria Hossain Prodhan

“…In golden-finned albino fish, collagen-related genes were downregulated, suggesting that despite the abundance of collagen types in their caudal fin cells, gene expression was slightly limited. This work provides valuable genetic insights into collagen variation in albino C. argus, lays the foundation for research on collagen genes and is crucial for the development and utilization of fish-derived collagen as a biomaterial for tissue engineering and biomedical applications.…”
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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. The aim of this study was to determine whether the DNA methyltransferase inhibitor (DNMTi) 5-aza-2′-deoxycytidine (5-aza-dC) and the histone deacetylase inhibitor (HDACi) trichostatin A (TSA) promote the hepatic differentiation of rat bone marrow-derived mesenchymal stem cells (rBM-MSCs) and their therapeutic effect on liver damage. 1 μM TSA and 20 μM 5-aza-dC were added to standard hepatogenic medium especially at differentiation and maturation steps and their potential function on hepatic differentiation in vitro and in vivo was determined. …”
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Expression and Regulation of Hypoxia-Inducible Factor Signalling in Acute Lung Inflammation by Nikolaos S. Lotsios, Chrysi Keskinidou, Sotirios P. Karagiannis, Kostas A. Papavassiliou, Athanasios G. Papavassiliou, Anastasia Kotanidou, Ioanna Dimopoulou, Stylianos E. Orfanos, Alice G. Vassiliou

“…Hypoxia-inducible factors (HIFs) are central regulators of gene expression in response to oxygen deprivation, a common feature in critical illnesses. …”
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Identification of Potential Biomarkers for Coronary Artery Disease Based on Cuproptosis by Bohong Zhang, Mingliang He

“…To screen marker genes for CAD from CRGs, we downloaded the whole blood cell gene expression profile of CAD patients and normal samples, i.e., the GSE20680 dataset, from the GEO database. …”
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Lower urinary dysfunction as a long-term effect of childhood vincristine treatment, with potential influences by sex and dose by Nao Iguchi, Ali Teimouri, Duncan T. Wilcox, Anna P. Malykhina, Nicholas G. Cost

“…Significant changes in gene expression levels associated with neuroinflammation and nociception were observed in both the bladder and lumbosacral dorsal root ganglia (Ls-DRG) of the VCR group. …”
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The Effects of BMP-2, miR-31, miR-106a, and miR-148a on Osteogenic Differentiation of MSCs Derived from Amnion in Comparison with MSCs Derived from the Bone Marrow by Sirikul Manochantr, Kulisara Marupanthorn, Chairat Tantrawatpan, Pakpoom Kheolamai, Duangrat Tantikanlayaporn, Prakasit Sanguanjit

“…The osteogenic differentiation capacity after miRNA treatment was assessed by ALP expression, ALP activity, and osteogenic marker gene expression. The results showed that the osteogenic differentiation capacity increased after BMP-2 treatment both in AM-MSCs and BM-MSCs. …”
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Dysregulation of c-Jun (JUN) and FBJ murine osteosarcoma viral oncogene homolog B (FOSB) in obese people and their predictive values for metabolic syndrome by Chenxi Yang, Yi Chen, Guangfeng Tang, Tongtong Shen, Li Li

“…Herein, the expression profiles of c-Jun (JUN) and FBJ murine osteosarcoma viral oncogene homolog B (FOSB) in individuals with obesity and patients with MetS from the Gene Expression Omnibus database. Quantitative reverse transcription polymerase chain reaction (RT-qPCR) was used to evaluate the messenger RNA levels of JUN and FOSB in the peripheral blood of healthy volunteers (lean and obese) and patients with MetS (lean and obese), along with that in the adipose tissue and peripheral blood of obese mouse model. …”
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Molecular Networks Involved in the Immune Control of BK Polyomavirus by Eva Girmanova, Irena Brabcova, Jiri Klema, Petra Hribova, Mariana Wohlfartova, Jelena Skibova, Ondrej Viklicky

“…In this study we evaluate intrarenal molecular processes during different stages of BKV infection. The gene expression profiles of 90 target genes known to be associated with immune response were evaluated in kidney graft biopsy material using TaqMan low density array. …”
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Effects of light regimes on circadian gene co‐expression networks in Arabidopsis thaliana by Quentin Rivière, Virginie Raskin, Romário deMelo, Stéphanie Boutet, Massimiliano Corso, Matthieu Defrance, Alex A. R. Webb, Nathalie Verbruggen, Armand D. Anoman

“…Abstract Light/dark (LD) cycles are responsible for oscillations in gene expression, which modulate several aspects of plant physiology. …”
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Induction of translation-suppressive G3BP1+ stress granules and interferon-signaling cGAS condensates by transfected plasmid DNA by Vladimir Majerciak, Zhi-Ming Zheng

“…Inhibition of SG formation mediated by PKR KD, but not cGC KD, also led to increased expression of transgenes, indicating that PKR activation represents a major roadblock to gene expression. Together, these data indicate that plasmid DNA triggers innate immune responses in the transfected cells and causes a significant cellular perturbation that should be considered during experiment design and data interpretation.…”
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Changes in IL-16 Expression in the Ovary during Aging and Its Potential Consequences to Ovarian Pathology by Jessica Ramirez, Pincas Bitterman, Sanjib Basu, Animesh Barua

“…The expression of IL-16, frequency of macrophages (a source of IL-16) and expression of microRNA (miR) 125a-5p (a regulator of IL-16 gene) were performed by immunohistochemistry, immunoblotting, and gene expression assays. In addition, we examined changes in nuclear expression of IL-16 expression with regards to exposure to follicle-stimulating hormone (FSH) by in vitro cell culture assays with human ovarian cancer cells. …”
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Multi-locus CRISPRi targeting with a single truncated guide RNA by Molly M. Moore, Siddarth Wekhande, Robbyn Issner, Alejandro Collins, Anna J. Cruz, Yanjing V. Liu, Nauman Javed, Salvador Casaní-Galdón, Jason D. Buenrostro, Charles B. Epstein, Eugenio Mattei, John G. Doench, Bradley E. Bernstein, Noam Shoresh, Fadi J. Najm

“…Abstract A critical goal in functional genomics is evaluating which non-coding elements contribute to gene expression, cellular function, and disease. Functional characterization remains a challenge due to the abundance and complexity of candidate elements. …”
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Physical exercise improves the premature muscle aging and lifespan reduction induced by high-salt intake and muscle CG2196(salt) overexpression in Drosophila by Dengtai Wen, Yiling Chen, Xu Tian, Wenqi Hou

“…The results showed that both physical exercise and muscle dSir2 gene overexpression prevented HSI-induced and muscle salt overexpression-induced accelerated age-related decline of climbing index, climbing endurance, muscle NAD+ level, SOD activity level, dSir2 expression, and dFOXO expression, and they also prevented HSI-induced and muscle salt overexpression-induced accelerated age-related increase in muscle ROS level, MDA level, and salt gene expression. Physical exercise improved lifespan decrease induced by HSI and muscle salt overexpression. …”
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Integrated Approach for Biomarker Discovery and Mechanistic Insights into the Co-Pathogenesis of Type 2 Diabetes Mellitus and Non-Hodgkin Lymphoma by Zhu Y, Liu J, Wang B

“…This study aimed to identify potential biomarkers and elucidate the molecular mechanisms underlying the co-pathogenesis of T2DM and NHL.Methods: Microarray datasets of T2DM and NHL were downloaded from the Gene Expression Omnibus database. Subsequently, a protein-protein interaction network was constructed based on the common differentially expressed genes (DEGs) between T2DM and NHL to explore regulatory interactions. …”
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Transgenic plants as genetic models for studying functions of plant genes by A. V. Kochetov, V. K. Shumny

“…It was also found that these plants were more tolerant to various abiotic stresses (drought, NaCl, cold, toxic heavy metals), which may result from the protective proline effect early in exposure to stress, preventing the cellular gene expression machinery from damage by stress-generated free radicals.…”
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Comprehensive Analysis of N6-Methyladenosine RNA Methylation Regulators in the Diagnosis and Subtype Classification of Acute Myocardial Infarction by Xianpei Wang, Ying Wu, Ruoyao Guo, Linwei Zhao, Juanjuan Yan, Chuanyu Gao

“…The GEO database was used to get the gene expression profiles of patients with and without AMI, and bioinformatics assays of genes with differently expressed expression were performed. …”
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Effect of Bariatric Weight Loss on the Adipose Lipolytic Transcriptome in Obese Humans by Shakun Karki, Melissa G. Farb, Samantha Myers, Caroline Apovian, Donald T. Hess, Noyan Gokce

“…We sought to examine the effect of bariatric weight loss on adipose tissue lipolytic gene expression and their relationship to systemic metabolic parameters in obese subjects. …”
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Dynamics of REL, RELA and IRF1 transcription factor expression in U937 macrophages after dioxin exposure by E. V. Kashina, D. Y. Oshchepkov, E. V. Antontseva, M. Y. Shamanina, D. P. Furman, V. A. Mordvinov

“…Isolated RNA was used for the study of the TCDD-mediated alteration of gene expression levels using Real-time PCR with SYBR Green I. …”
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A multi-patch-based deep learning model with VGG19 for breast cancer classifications in the pathology images by Anitha Ponraj, Palanigurupackiam Nagaraj, Duraisamy Balakrishnan, Parvathaneni Naga Srinivasu, Jana Shafi, Wonjoon Kim, Muhammad Fazal Ijaz

“…Current techniques rely on quantifying gene expression in limited subsets. Given the complexity of breast tissues, effective detection and classification of breast cancer is crucial in medical imaging. …”
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