Hexagonal zinc oxide nanoparticles: a novel approach to combat multidrug-resistant Enterococcus faecalis biofilms in feline urinary tract infections by Alaa H. Sewid, Alaa H. Sewid, Mohamed Sharaf, Mohamed Sharaf, Azza S. El-Demerdash, Sherif M. Ragab, Fatimah O. Al-Otibi, Mohamed Taha Yassin, Chen-Guang Liu

“…The antibacterial and antibiofilm activities of the synthesized nanoparticles were evaluated through time-kill assays, well diffusion assays, and gene expression analysis.ResultsA high prevalence of multidrug resistance was observed among the E. faecalis isolates, with significant resistance to ampicillin, vancomycin, and streptomycin. …”
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Investigation of the Mechanism Underlying Calcium Dobesilate-Mediated Improvement of Endothelial Dysfunction and Inflammation Caused by High Glucose by Yijun Zhou, Chaojun Qi, Shu Li, Xinghua Shao, Zhaohui Ni

“…Human umbilical vein endothelial cells (HUVECs) were cultured with different D-glucose concentrations to determine the effects of high glucose on HUVEC gene expression. HUVECs were also incubated with CaD (25 μM, 50 μM, and 100 μM) for 3 days to determine the effects of CaD on HUVEC viability. db/db mice were treated with CaD. 2-[(Aminocarbonyl)amino]-5-(4-fluorophenyl)-3-thiophenecarboxamide (TPCA-1) blocked the nuclear factor-κB (NF-κB) pathway in HUVECs. …”
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YPEL2 regulates the efficacy of BRD4-EZH2 dual targeting in EZH2Y641mut germinal center-derived lymphoma by Aránzazu Chamorro-Jorganes, Núria Profitós-Pelejà, Clara Recasens-Zorzo, Juan G Valero, Diana Reyes-Garau, Laura Magnano, Ray Butler, Antonio Postigo, Patricia Pérez-Galán, Marcelo Lima Ribeiro, Gaël Roué

“…We observed a specific and synergistic antiproliferative effect of these compounds in EZH2-mutated cells and mouse xenograft models, that was related to the abrogation of MYC transcriptional program and to tumor cell proliferation blockade at the G1 cell cycle phase. Gene expression profile, exploratory data analysis, and siRNA screening identified the PI3K/AKT-regulated gene and mitosis regulator, YPEL2, as a crucial factor involved in the efficacy of MYC/EZH2 dual targeting both in vitro and in vivo. …”
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Molecular profiling of bladder cancer xenografts defines relevant molecular subtypes and provides a resource for biomarker discovery. by Sharada Mokkapati, Ganiraju Manyam, Alexis R. Steinmetz, Côme Tholomier, Alberto Martini, Woonyoung Choi, Bogdon Czerniak, Byron H Lee, Colin P Dinney, David J McConkey

“…BLCAs can be categorized into luminal or basal subtypes based on their gene expression. We comprehensively characterized nine human BLCA cell lines (UC3, UC6, UC9, UC13, UC14, T24, SCaBER, RT4V6 and RT112) into molecular subtypes using orthotopic xenograft models. …”
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Rescue of in vitro models of CSF1R-related adult-onset leukodystrophy by iluzanebart: mechanisms and therapeutic implications of TREM2 agonism by Kelley C. Larson, Frederick W. Gergits, Abigail J. Renoux, Elizabeth J. Weisman, Borislav Dejanovic, Liyue Huang, Bhaumik Pandya, Donald G. McLaren, Berkley A. Lynch, Richard Fisher, Evan Thackaberry, David Gray, Francois Gaudreault, Christian Mirescu

“…Proliferation of microglia, changes in protein levels of specific chemokines identified by gene expression analysis, and increased CSF1R levels were also confirmed in vivo. …”
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Transcriptome responses to Ralstonia solanacearum infection in tetraploid potato by Zhuo Chen, Shunwei Shao, Xi Zhu, Yu Zhang, Zhendong Lan, Hui Jin

“…By demonstrating the importance of enzymes and differential gene expression in Huashu No. 12 resistance to R. solanacearum infection, the breeding of disease-resistant potato becomes increasingly feasible.…”
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Molecular-genetic pathways of hepatitis C virus regulation of the expression of cellular factors PREB and PLA2G4C, which play an important role in virus replication by E. L. Mishchenko, A. A. Makarova, E. A. Antropova, A. S. Venzel, T. V. Ivanisenko, P. S. Demenkov, V. A. Ivanisenko

“…Analysis of the gene networks and data on differential gene expression in HCV-infected cells allowed us to hypothesize further how HCV could regulate the expression of TFs, the binding sites of which are localized within PREB and PLA2G4C gene regions. …”
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Heightened expression of type I interferon signaling genes in CD4+ T cells from acutely HIV-1–infected women is associated with lower viral loads by Elina El-Badry, Luxiao Chen, Khader Ghneim, Ziyi Li, Kelsie Brooks, Jake Rhodes, Rafick Sekaly, William Kilembe, Susan Allen, Susan Allen, Susan Allen, Hao Wu, Eric Hunter, Eric Hunter

“…We have performed bulk RNA-seq experiments comparing gene expression between CD4+ T cells from acutely HIV-1–infected men and women in Zambia, because we observe lower viral load (VL) despite higher CD4+ T-cell activation in these women during acute/early infection. …”
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Predicting Treatment Outcomes in Patients with Low Back Pain Using Gene Signature-Based Machine Learning Models by Youzhi Lian, Yinyu Shi, Haibin Shang, Hongsheng Zhan

“…The final model performance was reported as the mean and standard deviation across all five folds, providing a more reliable estimate of the models' ability to predict LBP treatment outcomes using gene expression data from peripheral immune cells. Results A total of 61 DEGs were identified between patients with resolved and persistent pain. …”
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Ascorbate-glutathione cycle in wheat and rice seedlings under anoxia and subsequent reaeration by V. V. Yemelyanov, E. G. Prikaziuk, V. V. Lastochkin, O. M. Aresheva, T. V. Chirkova

“…In rice, anoxia led to the maintenance of the activity of AGC enzymes, and reaeration stimulated it, including at the level of gene expression, which ensured the effective operation of AGC.…”
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Genome-Wide Scans for Selection Signatures in Haimen Goats Reveal Candidate Genes Associated with Growth Traits by Zhen Zhang, Jiafeng Lu, Yifei Wang, Zhipeng Liu, Dongxu Li, Kaiping Deng, Guomin Zhang, Bingru Zhao, Peihua You, Yixuan Fan, Feng Wang, Ziyu Wang

“…Further analysis revealed that a 26 bp Indel in PNLIPRP1 increased its gene expression, suggesting that this Indel could serve as a molecular marker for early marker-assisted selection, potentially enhancing early growth in goats. …”
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Immune infiltration landscape and potential drug-targeted implications for hepatocellular carcinoma with ‘progression/hyper-progression’ recurrence by Jing-Xuan Xu, Yue-Xiang Su, Yuan-Yuan Chen, Yi-Yue Huang, Zu-Shun Chen, Yu-Chong Peng, Lu-Nan Qi

“…Therefore, this study aimed to describe the immune landscape of resectable HCC, especially postoperative type III–IV recurrent HCC, and explore potential immune-targeted anti-relapse strategies for treated populations.Methods The differences in gene expression in patients with recurrent HCC (type I–II (solitary or multi-intrahepatic oligo recurrence) vs. type III–IV) were investigated using bulk sequencing. …”
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Identification of Anoikis-Related Genes in Chronic Kidney Disease Based on Bioinformatics Analysis Combined with Experimental Validation by Liu H, Mei M, Zhong H, Lin S, Luo J, Huang S, Zhou J

“…We aimed to establish the Anoikis-related gene signature in CKD by bioinformatics analysis.Methods: We retrieved 3 datasets from the Gene Expression Omnibus (GEO) database to obtain differentially expressed genes (DEGs), followed by Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis, Gene Set Enrichment Analysis (GSEA) and Gene Set Variation Analysis (GSVA) of them, which were intersected with Anoikis-related genes (ARGs) to derive Anoikis-related differentially expressed genes (ARDEGs). …”
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DPANN symbiont of Haloferax volcanii accelerates xylan degradation by the non-host haloarchaeon Halorhabdus sp. by Oleg N. Reva, Violetta La Cono, Laura Marturano, Francesca Crisafi, Francesco Smedile, Manasi Mudaliyar, Debnath Ghosal, Elena A. Selivanova, Marina E. Ignatenko, Manuel Ferrer, Laura Fernandez-Lopez, Mart Krupovic, Michail M. Yakimov

“…The findings demonstrated that DPANN symbionts can interact directly with other members of microbial communities, which are not their primary hosts, influencing their gene expression. However, DPANN proliferation requires their primary host presence. …”
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Retinoic Acid Signal Negatively Regulates Osteo/Odontogenic Differentiation of Dental Pulp Stem Cells by Jiangyi Wang, Guoqing Li, Lei Hu, Fei Yan, Bin Zhao, Xiaoshan Wu, Chunmei Zhang, Jinsong Wang, Juan Du, Songlin Wang

“…Alkaline phosphatase (ALP) activity assays, alizarin red staining, quantitative calcium analysis, CCK8 assay, osteogenesis-related gene expression, and in vivo transplantation were conducted to determine the osteo/odontogenic differentiation potential and proliferation potential of DPSCs. …”
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D-mannose promotes diabetic wound healing through inhibiting advanced glycation end products formation in keratinocytes by Jialiang Luo, Tianxing Wu, Jing Zhang, Zhicheng Liang, Weijie Shao, Di Wang, Lei Li, Daming Zuo, Jia Zhou

“…Inflammatory cytokines and cellular differential gene expression levels were measured by real-time PCR. …”
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E3 ubiquitin ligase SYVN1 as a promising therapeutic target for diverse human diseases by Li Zhu, Yong-Ping Liu, Yuan-Wang, Bo-Xuan Sun, Yu-Ting Huang, Ji-Kai Zhao, Jian-Feng Liu, Li-Ming Yu, Hui-Shan Wang

“…SYVN1, an E3 ubiquitin ligase, is characterized by its significant functions in regulating various biological processes, including molecular mechanisms related to gene expression, signaling pathways, and cell death, among others. …”
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Establishment of a prognostic signature and immune infiltration characteristics for uterine corpus endometrial carcinoma based on a disulfidptosis/ferroptosis-associated signature by Yong Huang, Huibin Li, Zhifu Wei, Wanshan He, Bin Chen, Shuang Cheng, Zhifang Zhao, Lv Deng, Lv Deng, Xiaohua Chen, Yu Lin, Yu Lin, Xiaoshan Hong, Xiaoshan Hong

“…Finally, we validated the prognostic gene expression profile in clinical samples.ResultsWe identified five optimal DFRGs that were differentially expressed and associated with the prognosis of uterine corpus endometrial carcinoma (UCEC). …”
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NKAPL facilitates transcription pause-release and bridges elongation to initiation during meiosis exit by Zhenlong Kang, Chen Xu, Shuai Lu, Jie Gong, Ruoyu Yan, Gan Luo, Yuanyuan Wang, Qing He, Yifei Wu, Yitong Yan, Baomei Qian, Shenglin Han, Zhiwen Bu, Jinwen Zhang, Xian Xia, Liang Chen, Zhibin Hu, Mingyan Lin, Zheng Sun, Yayun Gu, Lan Ye

“…Abstract Transcription elongation, especially RNA polymerase II (Pol II) pause-release, is less studied than transcription initiation in regulating gene expression during meiosis. It is also unclear how transcription elongation interplays with transcription initiation. …”
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Nicotinic α7 receptors on cholinergic neurons in the striatum mediate cocaine-reinforcement, but not food reward by Michael Fritz, Michael Fritz, Michael Fritz, Priscila Batista Rosa, Daniel Wilhelms, Daniel Wilhelms, Maarit Jaarola, Johan Ruud, David Engblom, Anna M. Klawonn, Anna M. Klawonn, Anna M. Klawonn, Anna M. Klawonn

“…Cocaine induction of striatal immediate early gene expression of cFos, FosB, Arc and EGR2 was blocked in α7 nAChR-ChATCre mice, demonstrating the importance of α7 nAChRs on cholinergic neurons for striatal neuronal activity changes. …”
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