Computational model for mammalian circadian oscillator: interacting with NAD+/SIRT1 pathway and age-related changes in gene expression of circadian oscillator by N. L. Podkolodnyy, N. N. Tverdokhleb, O. A. Podkolodnaya

“…The regulation of transcription for gene NAMPT by transcription factor CLOCK/BMAL1 determine the appropriate rhythm of mRNA and protein NAMPT expression. Since an enzyme product of this gene is a key in the pathway of biosynthesis and recycling of NAD+, therefore the circadian rhythm is also characteristic for the fluctuations in the level of this coenzyme and in the activity of NAD+-dependent histone deacetylase SIRT1. …”
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Factors to Improve the Management of Hepatitis C in Drug Users: An Observational Study in an Addiction Centre by Joseph Moussalli, Helene Delaquaize, Dominique Boubilley, Jean Pierre Lhomme, Jules Merleau Ponty, David Sabot, Anne Kerever, Marc Valleur, Thierry Poynard

“…The majority, 417 patients, were HCV positive and of these patients 337 were tested positive for HCV RNA. In 2002, patients were sent to the hospital. with the Starting of 2003, patients were offered standard of care HCV management in the center by a team of general practitioners, a consultant hepatologist, psychiatrists, nurses, and a health counsellor. …”
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Foxp3 Expression in Liver Correlates with the Degree but Not the Cause of Inflammation by Matthaios Speletas, Nikoletta Argentou, Georgios Germanidis, Themistoclis Vasiliadis, Konstantinos Mantzoukis, Kalliopi Patsiaoura, Pavlos Nikolaidis, Vaios Karanikas, Konstantinos Ritis, Anastasios E. Germenis

“…Liver biopsies obtained from 69 individuals (26 chronic HBV hepatitis, 14 chronic HCV hepatitis, 11 nonalcoholic fatty liver disease, 8 autoimmune diseases, 2 methotrexate-related toxicity, and 8 controls) were examined, by qRT-PCR, for the mRNA expression of Foxp3, IL-10, TGF-β1, Fas, FasL, TRAIL, caspase-3, TNF-α, IFN-γ, and IL-1β. …”
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Androgen Receptor-Target Genes in African American Prostate Cancer Disparities by Bi-Dar Wang, Qi Yang, Kristin Ceniccola, Fernando Bianco, Ramez Andrawis, Thomas Jarrett, Harold Frazier, Steven R. Patierno, Norman H. Lee

“…Moreover, functional screens revealed that androgen-stimulated AR binding and upregulation of RHOA, ITGB5, and PIK3CB genes were associated with increased invasive activity of AA PCa cells, as siRNA-mediated knockdown of each gene caused a loss of androgen-stimulated invasion. …”
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Evaluation of a flow cytometry-based surrogate assay (FlowSA) for the detection of SARS-CoV-2 in clinical samples by Vinit Upasani, Marjolein Knoester, Daniele Pantano, Lili Gard, Jolanda M. Smit, Bernardina T.F. van der Gun, Adriana Tami, Izabela A. Rodenhuis-Zybert

“…However, the presence of viral RNA in samples does not necessarily reflect the presence of an infectious virus. …”
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Molecular Mechanism of Macrophage Activation by Red Ginseng Acidic Polysaccharide from Korean Red Ginseng by Se Eun Byeon, Jaehwi Lee, Ji Hye Kim, Woo Seok Yang, Yi-Seong Kwak, Sun Young Kim, Eui Su Choung, Man Hee Rhee, Jae Youl Cho

“…RGAP-induced NO production was accompanied with enhanced mRNA levels of iNOS and increases in nuclear transcription factors such as NF-κB, AP-1, STAT-1, ATF-2, and CREB. …”
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Non-Steroidal Anti-Inflammatory Drugs Are Inhibitors of the Intestinal Proton-Coupled Amino Acid Transporter (PAT1): Ibuprofen and Diclofenac Are Non-Translocated Inhibitors by Carsten Uhd Nielsen, Sebastian Jakobsen, Maria L. Pedersen

“…<b>Methods</b>: The transport of substrates via hPAT1 was investigated in Caco-2 cells using radiolabeled substrate uptake and in <i>X. laevis</i> oocytes injected with <i>hPAT1 cRNA</i>, measuring induced currents using the two-electrode voltage clamp technique. …”
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THE COURSE OF ACUTE RESPIRATORY COVID-19 DISEASE, COMPLICATED BY COMMUNITY-ACQUIRED PNEUMONIA AGAINST THE BACKGROUND OF THE CARDIOVASCULAR SYSTEM PATHOLOGY by T.A. Trybrat, Yu.M Kazakov, O.O. Honcharova, S.V Shut, V.D. Sakevich

“…We conducted general clinical methods of research, determined the SARS-CoV-2 virus RNA by PCR and chest X-ray in 2 projections or computed tomography (CT) to identify the features of the lung tissue damage. …”
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Transcriptome Profile Analysis of Strawberry Leaves Reveals Flowering Regulation under Blue Light Treatment by Yuntian Ye, Yongqiang Liu, Xiaolong Li, Qing Chen, Yong Zhang, Ya Luo, Zejing Liu, Yan Wang, Yuanxiu Lin, Yunting Zhang, Xiaorong Wang, Haoru Tang

“…To detect the expression patterns of genes in response to BL, a transcriptome analysis was performed based on RNA-Seq. The results identified a total of 6875 differentially expressed genes (DEGs) that responded to BL, consisting of 3138 (45.64%) downregulated ones and 3737 (54.36%) upregulated ones. …”
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Multitarget Effects of Danqi Pill on Global Gene Expression Changes in Myocardial Ischemia by Qiyan Wang, Hui Meng, Qian Zhang, Tianjiao Shi, Xuefeng Zhang, Mingyan Shao, Linghui Lu, Jing Wang, Wei Wang, Chun Li, Yong Wang

“…The objective of this study is to systematically characterize altered gene expression pattern induced by myocardial ischemia (MI) in a rat model and to investigate the effects of DQP on global gene expression. Global mRNA expression was measured. Differentially expressed genes among the sham group, model group, and DQP group were analyzed. …”
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Differential Proliferative Characteristics of Alveolar Fibroblasts in Interstitial Lung Diseases: Regulative Role of IL-1 and PGE2 by Elizabeth Fireman, Shlomo Ben Efraim, Joel Greif, Hava Peretz, Shmuel Kivity, Marcel Topilsky, Yosef Rodrig, A. Yellin, Ron N. Apte

“…Steady levels of IL-1α and βmRNA were expressed in unstimulated and stimulated cultures. …”
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BRAF regulates circPSD3/miR-526b/RAP2A axis to hinder papillary thyroid carcinoma progression by Chuang Li, Xiaojuan Zhao, Jingge Zhao, Jing Zhao, Lemei An, Gang Wu

“…BRAFV600E mutation has become a common molecular event in PTC pathogenesis. Circular RNA PSD3 (circPSD3) is known to be highly expressed in PTC. …”
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Aging-induced immune microenvironment remodeling fosters melanoma in male mice via γδ17-Neutrophil-CD8 axis by Runping Duan, Loujing Jiang, Tianfu Wang, Zhaohuai Li, Xiaoyang Yu, Yuehan Gao, Renbing Jia, Xianqun Fan, Wenru Su

“…However, how an aging immune system contributes to the process is unclear. Here, single-cell RNA sequencing reveals that in male mice, aging shifts the lung immune microenvironment towards a premetastatic niche, characterized by an increased proportion of IL-17-expressing γδT (γδ17) and neutrophils. …”
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Persistent functional and taxonomic groups dominate an 8,000-year sedimentary sequence from Lake Cadagno, Switzerland by Paula Rodriguez, Jasmine S. Berg, Longhui Deng, Longhui Deng, Hendrik Vogel, Michal Okoniewski, Mark A. Lever, Mark A. Lever, Cara Magnabosco

“…Here, we reconstruct the microbial functional and taxonomic composition of an 8,000-year Holocene sedimentary succession from meromictic Lake Cadagno (Switzerland) using shotgun metagenomics and 16S rRNA gene amplicon sequencing. While younger sediments (&lt;1,000 years) are dominated by typical anaerobic surface sedimentary bacterial taxa (Deltaproteobacteria, Acidobacteria, and Firmicutes), older layers with lower organic matter concentrations and reduced terminal electron acceptor availability are dominated by taxa previously identified as “persistent populations” within deep anoxic marine sediments (Candidatus Bathyarchaeia, Chloroflexi, and Atribacteria). …”
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Intratumor microbiome-derived butyrate promotes chemo-resistance in colorectal cancer by Linsheng Xu, Linsheng Xu, Bingde Hu, Jingli He, Xin Fu, Na Liu

“…This study aimed to explore the relationship between intratumor butyrate and chemoresistance in CRC.MethodsWe performed a comprehensive analysis of the microbiome composition in CRC patients with varying resistance-free survival (RFS) durations, utilizing 16S rRNA sequencing. Furthermore, we assessed the prognostic significance of circulating microbiome DNA (cmDNA) and examined the effects of exogenous butyrate supplementation on the chemosensitivity of CRC cell lines.ResultsOur 16S sequencing analysis revealed a reduction in microbial diversity within tumor samples of patients with resistance, as indicated by metrics such as observed taxonomic units, Shannon, and Simpson indices. …”
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Highly Effective Ex Vivo Gene Manipulation to Study Kidney Development Using Self-Complementary Adenoassociated Viruses by Tie-Lin Chen, Hong-Lian Wang, Yun-Hong Liu, Yin Fang, Rui-Zhi Tan, Pu-Hui Zhou, Qin Zhou, Xiao-Yan Lv

“…Repressing WT1 in cultured kidney using shRNA impairs tubule formation. We for the first time employed and validated scAAV as a gene delivery tool in cultured kidney. …”
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Optimizing the production and efficacy of antimicrobial bioactive compounds from Streptomyces kanamyceticus in combating multi-drug-resistant pathogens by Zifang Shang, Vipasha Sharma, Liu Pai, Tarun Kumar, Sandip Patil, Sandip Patil

“…This study aimed to isolate Streptomyces kanamyceticus from local soil samples and evaluate its antimicrobial properties, along with optimizing the production of bioactive compounds.MethodsSoil samples were collected from local regions, processed, and analysed for Streptomyces strains isolation using morphological characteristics and molecular identification through 16S rRNA gene PCR assay. Antimicrobial activity was assessed against Escherichia coli, Staphylococcus aureus, Bacillus subtilis, and Candida albicans using the double-layer method, while Minimum Inhibitory Concentration (MIC) values were determined. …”
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Effects of IQW and IRW on Inflammation and Gut Microbiota in ETEC-Induced Diarrhea by Naiyuan Liu, Lingsi Zhou, Jun Fang, Hongmei Jiang, Gang Liu

“…The microbiota in the colon was sequenced using 16S ribosomal RNA. Results. The villus length decreased, the crypt depth decreased, and the expression of inflammatory cytokines (i.e., TNF-α, IL-1β, IL-6, and IL-10) increased due to ETEC. …”
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Clinical performance of real-time nanopore metagenomic sequencing for rapid identification of bacterial pathogens in cerebrospinal fluid: a pilot study by Yoon Hyun Sung, Yong Kuk Ju, Hak Jun Lee, Seung Min Park, Jin Woong Suh, Jeong Yeon Kim, Jang Wook Sohn, Young Kyung Yoon

“…Abstract This study aimed to evaluate the usefulness of amplicon-based real-time metagenomic sequencing applied to cerebrospinal fluid (CSF) for identifying the causative agents of bacterial meningitis. We conducted a 16S rRNA amplicon sequencing using a nanopore-based platform, alongside routine polymerase chain reaction (PCR) testing or bacterial culture, to compare its clinical performance in pathogen detection on CSF samples. …”
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Evidence for Decreased Nucleolar PARP-1 as an Early Marker of Cognitive Impairment by Matthew Regier, Jiancong Liang, Alexander Choi, Kavita Verma, Jenny Libien, A. Iván Hernández

“…We proposed that the displacement of PARP-1 from the nucleolus results in downregulation of new rRNA expression and ribosome biogenesis, leading to cognitive impairment. …”
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