Nucleosome patterns in four plant pathogenic fungi with contrasted genome structures by Clairet, Colin, Lapalu, Nicolas, Simon, Adeline, Soyer, Jessica L., Viaud, Muriel, Zehraoui, Enric, Dalmais, Berengère, Fudal, Isabelle, Ponts, Nadia

“…We further linked nucleosome repartition and gene expression. Our findings support that nucleosome positioning and occupancies are subjected to evolution, in relation with underlying genome sequence modifications. …”
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Protection of the Peritoneal Membrane by Peritoneal Dialysis Effluent-Derived Mesenchymal Stromal Cells in a Rat Model of Chronic Peritoneal Dialysis by Lan Zhou, Ming Zong, Qiunong Guan, Gerald da Roza, Hao Wang, Hualin Qi, Caigan Du

“…Apoptosis was quantitated by using flow cytometric analysis, and gene expression by using the PCR array and Western blot. …”
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Deficiency of the palmitoyl acyltransferase ZDHHC7 modulates depression-like behaviour in female mice after a mild chronic stress paradigm by Christa Hohoff, Nicole Kerkenberg, Mingyue Zhang, Weronika Palkowska, Lydia Wachsmuth, Maja Peng, Lena Stiehl, Christiane Schettler, Johannes C. S. Zang, Andreas Huge, Evgeni Ponimaskin, Cornelius Faber, Bernhard T. Baune, Weiqi Zhang

“…After C or CS, behaviours, hippocampal microstructures (via MRI-based diffusion tensor imaging) and brain gene expression profiles (via mRNA-seq transcriptomics) were investigated. …”
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Characterization of G2/M checkpoint classifier for personalized treatment in uterine corpus endometrial carcinoma by Yiming Liu, Yusi Wang, Shu Tan, Xiaochen Shi, Jinglin Wen, Dejia Chen, Yue Zhao, Wenjing Pan, Zhaoyang Jia, Chunru Lu, Ge Lou

“…The excessive activation of G2/M checkpoint genes is a crucial factor affecting malignancy prognosis and promoting treatment resistance. Methods Gene expression profiles and clinical feature data mainly came from the TCGA-UCEC cohort. …”
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Protein Kinase A Is Involved in Neuropathic Pain by Activating the p38MAPK Pathway to Mediate Spinal Cord Cell Apoptosis by Yajun Deng, Liang Yang, Qiqi Xie, Fengbiao Yang, Guoqiang Li, Guangzhi Zhang, Shaoping Li, Zuolong Wu, Jing Wang, Xuewen Kang

“…A neuropathic pain-related gene expression dataset was downloaded from Gene Expression Omnibus, and differentially expressed genes were screened using the R software. cytoHubba was used to screen for hub genes. …”
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Machine learning-driven identification of critical gene programs and key transcription factors in migraine by Lei Zhang, Yujie Li, Yunhao Xu, Wei Wang, Guangyu Guo

“…Although genetic factors have been implicated, the precise molecular mechanisms, particularly gene expression patterns in migraine-associated brain regions, remain unclear. …”
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Extracellular vesicles display distinct glycosignatures in high-grade serous ovarian carcinoma by Kristina Mae Bienes, Akira Yokoi, Masami Kitagawa, Hiroaki Kajiyama, Morten-Thaysen Andersen, Rebeca Kawahara

“…Increased α2,6-sialylation was also observed in m/lEVs from HGSOC cell lines and patient ascites by lectin blotting, which correlated with increased gene expression of ST6GAL1 and decreased gene expression of ST3GAL3/4 in HGSOC compared to normal ovary tissues. …”
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Evaluating the therapeutic effect of different forms of silymarin on liver status and expression of some genes involved in fat metabolism, antioxidants and anti‐inflammatory in old... by Samira Faryadi, Ardashir Sheikhahmadi, Ayoub Farhadi, Himan Nourbakhsh

“…There were decreases in liver dry matter and fat contents, non‐alcoholic fatty liver disease and hepatocyte ballooning, and an increase in glutathione peroxidase gene expression and a decrease in iNOS gene expression in birds fed the NSM100, NSM200, LSM100 and LSM200 diets compared to the control group. …”
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Potential Modulatory Role of Phoenixin-14 in Epithelial–Mesenchymal Transition of Endometriotic 12Z Cells by Karolina Iwona Kulinska, Magdalena Wierzbicka, Anna Dera-Szymanowska, Krzysztof Szymanowski, Mirosław Andrusiewicz, Maria Wołuń-Cholewa

“…<b>Results</b>: <i>THBS2</i> gene expression was significantly decreased, and <i>CDH1</i> remained unchanged in cells stimulated by 0.05 nM PNX-14. …”
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The significant role of IL-15, IL-22, IL-37, and caspase 9 in polycystic ovary syndrome: A case-control study in a sample of Iraqi women by Noor A. Mohammed, Ghassan M. Sulaiman, Hazima M. Alabassi, Khalil A.A. Khalil, Elsadig M. Ahmed

“…However, the potential diagnostic utility of the Caspase 9 gene expression was not confirmed in this study.…”
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A hypomorphic mutation in the mouse Csn1s1 gene generated by CRISPR/Cas9 pronuclear microinjection by A. V. Smirnov, T. A. Shnaider, A. N. Korablev, A. M. Yunusova, I. A. Serova, N. R. Battulin

“…Dozens of casein alleles have been identified for goats, cows, sheep, camels and horses, and these sequence variants are associated with altered gene expression and milk protein content. Most of the known mutations affecting casein genes’ expression are located in the promoter and 3’-untranslated regions. …”
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Integrated Bioinformatics-Based Identification of Potential Diagnostic Biomarkers Associated with Diabetic Foot Ulcer Development by Long Qian, Zhipeng Xia, Ming Zhang, Qiong Han, Die Hu, Sha Qi, Danmou Xing, Yan Chen, Xin Zhao

“…The GSE7014 and GSE29221 gene expression datasets were downloaded from the Gene Expression Omnibus (GEO) database, after which differentially expressed genes (DEGs) were identified between DFU and healthy samples. …”
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Prognostic values of intracellular cell-related genes in esophageal cancer and their regulatory mechanisms by Wei Cao, Dacheng Jin, Weirun Min, Haochi Li, Rong Wang, Jinlong Zhang, Yunjiu Gou

“…Established methodologies included morphological mapping, enrichment analysis, immune infiltration analysis, prognostic gene expression validation, molecular docking, and Reverse Transcription Polymerase Chain Reaction (RT-PCR) validation. …”
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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

“…The present review focuses on the molecular genetic mechanisms by which pathogenic genetic variants affect gene expression. At the same time, attention is concentrated on the transcriptional level of regulation as an initial step in the expression of any gene. …”
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Mesenchymal Stromal Cell-Derived Factors Promote Tissue Repair in a Small-for-Size Ischemic Liver Model but Do Not Protect against Early Effects of Ischemia and Reperfusion Injury by Suomi M. G. Fouraschen, Joshua H. Wolf, Luc J. W. van der Laan, Petra E. de Ruiter, Wayne W. Hancock, Job P. van Kooten, Monique M. A. Verstegen, Kim M. Olthoff, Jeroen de Jonge

“…Blood and liver tissue were analyzed for tissue injury, hepatocyte proliferation, and gene expression. In the IRI alone model, serum ALT and AST levels, hepatic tissue damage, and inflammatory cytokine gene expression showed no significant differences between both treatment groups. …”
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Blood Genomics Identifies Three Subtypes of Systemic Lupus Erythematosus: “IFN-High,” “NE-High,” and “Mixed” by Mintian Cui, Taotao Li, Xinwei Yan, Chao Wang, Qi Shen, Hongbiao Ren, Liangshuang Li, Ruijie Zhang

“…Based on disease activity scores and gene expression data, we defined a global SLE signature and merged three clustering algorithms to develop a single-sample subtype classifier (SSC). …”
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RNA-Seq Based Transcriptome Analysis of the Type I Interferon Host Response upon Vaccinia Virus Infection of Mouse Cells by Bruno Hernáez, Graciela Alonso, Juan Manuel Alonso-Lobo, Alberto Rastrojo, Cornelius Fischer, Sascha Sauer, Begoña Aguado, Antonio Alcamí

“…Differential gene expression analyses of cells infected with replication competent VACV identified the activation of a broad range of host genes involved in multiple cellular pathways. …”
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Identification and Immunological Characterization of Cuproptosis Related Genes in Preeclampsia Using Bioinformatics Analysis and Machine Learning by Tiantian Yu, Guiying Wang, Xia Xu, Jianying Yan

“…The GSE98224 dataset was obtained from the Gene Expression Omnibus (GEO) database and utilized as the internal training set. …”
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Utilizing bioinformatics and machine learning to identify CXCR4 gene-related therapeutic targets in diabetic foot ulcers by Hengyan Zhang, Ye Zhou, Heguo Yan, Changxing Huang, Licong Yang, Yangwen Liu

“…The CXCR4 gene is known to play a key role in cell migration, immunology response, and tissue repair, and thus may be an important target for DFU treatment.MethodsWe used the GEO database (Gene Expression Omnibus database) to obtain DFU-related gene expression data, identified differentially expressed genes (DEGs), and performed enrichment analysis to reveal the related biological pathways. …”
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Proinflammatory Effects of Diesel Exhaust Nanoparticles on Scleroderma Skin Cells by A. Mastrofrancesco, M. Alfè, E. Rosato, V. Gargiulo, C. Beatrice, G. Di Blasio, B. Zhang, D. S. Su, M. Picardo, S. Fiorito

“…DEP was shown to stimulate cytokine gene expression at a higher extent in SSc keratinocytes versus normal cells. …”
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