Fecal microbiota transplantation modulates jejunal host-microbiota interface in weanling piglets by Shankumar Mooyottu, Muhammed Shafeekh Muyyarikkandy, Farnaz Yousefi, Ganwu Li, Orhan Sahin, Eric Burrough, Joy Scaria, Brett Sponseller, Alejandro Ramirez

“…Transcriptomic analyses further confirmed the regulatory effects of FMT on gene expression associated with immune, metabolic, barrier, and neuroendocrine functions. …”
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Inhibition of miR-182-5p Targets FGF9 to Alleviate Osteoarthritis by Yang Sun, Sanmao Su, Mengjun Li, Ang Deng

“…An OA knee model was performed by surgically destroying the medial meniscus. The gene expression of miR-182-5p and FGF9 was calculated. …”
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VIBE: an R-package for VIsualization of Bulk RNA Expression data for therapeutic targeting and disease stratification by Indu Khatri, Saskia D. van Asten, Leandro F. Moreno, Brandon W. Higgs, Christiaan Klijn, Christiaan Klijn, Francis Blokzijl, Iris C. R. M. Kolder

“…Here, we introduce VIBE (VIsualization of Bulk RNA Expression data), an R package which provides a thorough exploration of both individual and combined gene expression, supplemented by pathway-guided analyses. …”
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Peroxiredoxin 6 maintains mitochondrial homeostasis and promotes tumor progression through ROS/JNK/p38 MAPK signaling pathway in multiple myeloma by Dandan Gao, Yang Lv, Fei Hong, Dong Wu, Ting Wang, Gongzhizi Gao, Zujie Lin, Ruoyu Yang, Jinsong Hu, Aili He, Pengyu Zhang

“…In addition, oxidative stress decreased mitochondrial membrane potential (MMP), reduced gene expression levels of oxidative phosphorylation (OXPHOS), and increased in the density of mitochondrial crumpling, leading to mitochondrial structural abnormalities and dysfunction. …”
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Unraveling the transcriptomic effects of leucine supplementation on muscle growth and performance in basketball athletes. by Sinan Wang, Weishuai Guo, Rui Dong

“…Weighted Gene Co-expression Network Analysis (WGCNA) identified a module (turquoise) strongly associated with muscle growth, with DEGs in this module enriched in cytoskeletal pathways in muscle cells. Gene expression changes (α-tubulin, β-tubulin, CK18, CK8, vimentin, cofilin, gelsolin, profilin, MAP1, MAP2, MAP4, E-cadherin, and N-cadherin) were verified by qPCR. …”
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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 study of genetic liability to suicidal behavior is based on molecular-genetic methods including association and linkage analyses, chip gene expression arrays, and genome-wide association studies. …”
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Therapeutic Effects of GDF6-Overexpressing Mesenchymal Stem Cells through Upregulation of the GDF15/SIRT1 Axis in Age-Related Hearing Loss by Jiali Liu, Haisen Peng, Yuehui Liu, Chunhua Li, Wen Xie

“…Methods: Reverse transcription-quantitative PCR and western blotting were used to evaluate gene expression. Flow cytometry and immunofluorescence assays were performed for the detection of apoptosis and autophagy, respectively. …”
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急性肺损伤差异表达基因的生物信息学分析 by 李金河, 刘友坦, 梁青春

“…【方法】从NCBI(美国国立生物技术信息中心)公共数据平台GEO(GeneExpressionOm? nibus)下载基因芯片数据集GSE2411、GSE17355和GSE18341，使用在线分析工具GEO2R筛选出正常肺组织与急 性肺损伤组织的差异表达基因。…”
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Air-liquid interface culture alters the characteristics and functions of monolayers generated from human iPS cell‑derived enterocyte‑like cell organoids by Tatsuya Inui, Yusei Uraya, Yukiko Ueyama-Toba, Hiroyuki Mizuguchi

“…ALI culture of ELC-org-mono greatly developed goblet cells and enhanced the gene expression levels of many drug-metabolizing enzymes, drug transporters and intestinal differentiation markers. …”
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Effect of Activated Platelet-Rich Plasma on Chondrogenic Differentiation of Rabbit Bone Marrow-Derived Mesenchymal Stem Cells by Zhen Wang, Zheng Wang, Bin Zhang, Qinghua Zhao, Yubao Liu, Wei Qi

“…BMSCs (5×105 cells/well in 6-well plates) were induced in four conditions for 21 days to chondrogenic differentiation evaluation, including commercial chondrogenic medium (control), 5% PRP (HG-DMEM+5% PRP), 10% PRP (HG-DMEM+10% PRP), and 15% PRP (HG-DMEM+15% PRP). The gene expression levels of ACAN, COL2A1, and SOX9 in pellets were detected. …”
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Parental conflicts and resource sharing: Evolutionary trade-off by Ruby Dhar, Arun Kumar, Subhradip Karmakar

“…There is a hypothetical scenario in which parents can influence gene expression in embryos directly. Similar to genomic imprinting, this may happen as a result of sexual selection in males competing with other males to gain more resources for their offspring from their mothers. …”
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Transcripts of Anthocyanidin Reductase and Leucoanthocyanidin Reductase and Measurement of Catechin and Epicatechin in Tartary Buckwheat by Yeon Bok Kim, Aye Aye Thwe, YeJi Kim, Xiaohua Li, Jin Woong Cho, Phun Bum Park, Mariadhas Valan Arasu, Naif Abdullah Al-Dhabi, Sun-Ju Kim, Tastsuro Suzuki, Kwang Hyun Jho, Sang Un Park

“…The aim of this study was to clone ANR and LAR genes involved in PAs biosynthesis and examine the expression of these two genes in different organs under different growth conditions in two tartary buckwheat cultivars, Hokkai T8 and T10. Gene expression was carried out by quantitative real-time RT-PCR, and catechin and epicatechin content was analyzed by high performance liquid chromatography. …”
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Analysis of diagnostic genes and molecular mechanisms of Crohn’s disease and colon cancer based on machine learning algorithms by Jie Xiao, Junyao Liang, Tao Zhou, Man Zhou, Dexu Zhang, Hui Feng, Chusen Tang, Qian Zhou, Weiqing Yang, Xiaoqin Tan, Wanjia Zhang, Yin Xu

“…In this study, two data series related to CD were identified from the Gene Expression Omnibus (GEO) database under specific criteria, and relevant COAD gene data were obtained from The Cancer Genome Atlas (TCGA). …”
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Analysis of the lncRNA-Associated Competing Endogenous RNA (ceRNA) Network for Tendinopathy by Bing-Zhe Huang, Yang Jing-Jing, Xiao-Ming Dong, null Zhuan Zhong, null Xiao-Ning Liu

“…We downloaded the gene profile of GSE26051 from the Gene Expression Omnibus (GEO), including 23 normal samples and 23 diseased tendons. …”
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Preserved egg white alleviates DSS-induced colitis in mice through the reduction of oxidative stress, modulation of infl ammatory cytokines, NF-κB, MAPK and gut microbiota composit... by Lingyu Li, Ning Qiu, Yaqi Meng, Chenyan Wang, Yoshinori Mine, Russell Keast, Vincent Guyonnet

“…The results showed that treatment with PEW in mice with DSS-induced colitis for 14 days effectively improved the clinical signs, inhibited the secretion and gene expression of pro-inflammatory cytokines, and reduced myeloperoxidase (MPO) activity and oxidative stress levels. …”
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Comprehensive assessment of a miRNA-mRNA regulatory network in Meretrix meretrix: Implications for metabolism and autophagy across divergent growth rates by Yuchen Wang, Zhidong Zhang, Suhua Chen, Yangping Wu, Qiujie Li, Yi Cao, Yu Zhang, Aihua Chen

“…MicroRNAs (miRNAs) are a class of non-coding RNAs that modulate gene expression at the post-transcriptional level. Characterized by their dynamic expression patterns, miRNAs play a crucial role in regulating a multitude of biological processes, including metabolism and autophagy. …”
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Improving doublet cell removal efficiency through multiple algorithm runs by Yong She, Chaoye Wang, Qi Zhao

“…Finally, compared to running the algorithm once, we found that the MRDR strategy was more beneficial for differential gene expression analysis and cell trajectory inference when using default analysis parameters. …”
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Characterization of Human Mesenchymal Stem Cells Isolated from the Testis by Letizia De Chiara, Elvira Smeralda Famulari, Sharmila Fagoonee, Saskia K. M. van Daalen, Stefano Buttiglieri, Alberto Revelli, Emanuela Tolosano, Lorenzo Silengo, Ans M. M. van Pelt, Fiorella Altruda

“…Spontaneously arising pluripotent stem cells can be obtained in culture from murine spermatogonial stem cells (SSCs), while the pluripotency of the human counterpart remains a matter of debate. Recent gene expression profiling studies have demonstrated that embryonic stem cell- (ESC-) like cells obtained from the human testis are indeed closer to mesenchymal stem cells (MSCs) than to pluripotent stem cells. …”
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Potential Virulence and Survival of Acid-Resistant Bacillus cereus KS100Bc Isolated from Foodservice Establishments in Korea by Seung Min Kim, Daekeun Hwang, Hyun Jung Kim

“…KS100Bc exhibited increased expression of genes associated with pH homeostasis, oxidative response, metabolic rearrangements, and general stress response with over twofold (P value < 0.05) relative gene expression compared with the type strain. These results suggest that identifying the characteristics of the acid-adapted isolate can broaden our understanding of therapeutic strategies and provide new directions for controlling and preventing the spread of an outbreak.…”
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Involvement of the TGF-β pathway in epithelialmesenchymal transition promoted by the pulmonary microenvironment in Mycoplasma pneumoniae pneumonia by Fan Lu, Wang Huixia, Xu Nuo, Guo Yun, Li Ling

“…Among these, the TGF-β pathway exhibited the most pronounced changes in gene expression. Further analysis confirmed that BALF from these patients induced EMT in human bronchial epithelial cells and mouse lung tissues and that TGF-β receptor kinase inhibitor (TRKI) effectively reversed this process. …”
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