The effects of Thymus capitatus essential oil topical application on milk quality: a systems biology approach by Ralph Nehme, Chiara Gini, Elise Vanbergue, Sergine Even, Filippo Biscarini, Sonia Andrés, Lucie Rault, Faustine Noel, Valerie Hardit, Said Bouhallab, David M. Pereira, Riadh Ksouri, Philippe Roussel, Secundino López, Paola Cremonesi, Bianca Castiglioni, Donatella Caruso, Fiorenza Faré, Manuela Fontana, Fabrizio Ceciliani, Latifa Abdennebi-Najar

“…This study aimed to investigate the impact of Thymus capitatus essential oil (TCEO), known for its high antibacterial and antioxidant properties, on milk microbiota using 16S rRNA sequencing, the lipidomic profile via liquid chromatography-quadrupole time-of-flight mass spectrometry, udder skin microbiota, and inflammatory biomarkers of dairy cows at the end of lactation. …”
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High-altitude hypoxia aggravated neurological deficits in mice induced by traumatic brain injury via BACH1 mediating astrocytic ferroptosis by Peng Zou, Tianjing Li, Zixuan Cao, Erwan Yang, Mingdong Bao, Haofuzi Zhang, Zhuoyuan Zhang, Dan Liu, Min Zhang, Xiangyu Gao, Junmiao Ge, Xiaofan Jiang, Zhicheng Tian, Peng Luo

“…We found that with higher altitude, TBI-induced neurological deficits were more severe and the associated histopathological changes were more significant. Single-nuclear RNA sequencing was subsequently employed to further reveal differential gene expression profiles in high-altitude TBI. …”
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Mechanistic investigation and the optimal dose based on baicalin in the treatment of ulcerative colitis–A preclinical systematic review and meta-analysis by Jinchen Chong, Zepeng Chen, Jiaze Ma, Linhai He, Yijia Zhu, Zhihua Lu, Zhengxi Qiu, Chen Chen, Yugen Chen, Feng Jiang

“…Baicalin significantly modulated various biomarkers: HCS (SMD = -3.91), DAI (MD = -2.75), spleen index (MD = -12.76), MDA (SMD = -3.88), IL-6 (SMD = -10.59), IL-1β (SMD = -3.98), TNF-α (SMD = -8.05), NF-κB (SMD = -5.46), TLR4 (MD = -0.38), RORγ (MD = -0.89), MCP-1 (MD = -153.25), MPO (SMD = -7.34), Caspase-9 (MD = -0.93), Caspase-3 (MD = -0.45), FasL (MD = -1.20)) and enhanced BWC (MD = 0.06), CL (MD = 1.39), ZO-1 (MD = 0.44), SOD (SMD = 3.04), IL-10 mRNA (MD = 3.14), and FOXP3 (MD = 0.45) levels. Baicalin’s actions may involve the PI3K/AKT, TLR4/NF-κB, IKK/IKB, Bcl-2/Bax, Th17/Treg, and TLRs/MyD88 pathways. …”
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Multi-omics reveals that ST6GAL1 promotes colorectal cancer progression through LGALS3BP sialylation by Yuanchao Shi, Zhenzhong Pan, Jingwei Duan, Zexing Wang, Yiliang Fang, Bo Tang, Quanlin Guan

“…We found that ST6GAL1 was significantly upregulated in tumor samples than in matched normal samples by analyzing fresh clinical samples from public databases (mean mRNA expression level: tumor vs. normal samples = 0.002712:0.000966, P < 0.05, n = 22). …”
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NUDT21 regulates lysyl oxidase-like 2(LOXL2) to influence ECM protein cross-linking in silica-induced pulmonary fibrosis by Lan Peng, Wenqing Sun, Demin Cheng, Xinying Jia, Wenxiu Lian, Ziwei Li, Haojie Xiong, Ting Wang, Yi Liu, Chunhui Ni

“…Furthermore, we discovered that NUDT21, the LOXL2 upstream regulatory mechanism of LOXL2, alters LOXL2's 3′UTR usage by substituting alternative polyadenylation (APA), thereby modulating LOXL2 expression. By injecting LOXL2 siRNA-loaded liposomes into the tail vein of mice in the silica dust-treated mouse pulmonary fibrosis model, the severity of lung fibrosis was significantly reduced. …”
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Free fatty acids may regulate the expression of 11β-hydroxysteroid dehydrogenase type 1 in the liver of high-fat diet golden hamsters through the ERS-CHOP-C/EBPα signaling pathway... by Dandan Liu, Peipei Tian, Yilin Hou, Tingxue Zhang, Xiaoyu Hou, Lifang Liu, Xiaolong Li, Kunjie Zheng, Chao Wang, Guangyao Song

“…Western blot and RT-PCR results indicated higher GRP78, CHOP, C/EBPα, and 11β-HSD1 protein and mRNA expression in the HF group compared to the Con group (Ps < 0.05). …”
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Identification of Potential Diagnostic Biomarkers of Carotid Atherosclerosis in Obese Populations by Wu X, Pan J, Pan X, Kang J, Ren J, Huang Y, Gong L, Li Y

“…In vivo experiments showed that MMP9, PLA2G7, CD52, SPP1, FYB, and PLCB2 mRNA levels were up-regulated in adipose, aortic tissues and serum of OB and AS model mice, CLEC5A was up-regulated in aorta and serum, and PRKCB was up-regulated in adipose and serum.Conclusion: MMP9, PLA2G7, CD52, CLEC5A, SPP1, and FYB may serve as potential diagnostic biomarkers for CAS in obese populations. …”
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A new signature associated with anoikis predicts the outcome and immune infiltration in nasopharyngeal carcinoma by Yonglin Luo, Wenyang Wei, Yaxuan Huang, Jun Li, Weiling Qin, Quanxiang Hao, Jiemei Ye, Zhe Zhang, Yushan Liang, Xue Xiao, Yonglin Cai

“…Moreover, the expression of RBL2, E2F1, and CDC25C were significantly correlated with the expression of caspase family genes. Finally, the lower mRNA and protein expression of RBL2 were validated in NPC cell lines and tissues. …”
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Targeting sphingosine 1-phosphate receptor 3 inhibits T-cell exhaustion and regulates recruitment of proinflammatory macrophages to improve antitumor efficacy of CAR-T cells agains... by Weiting Liao, Ge Gao, Xia He, Pei Shu, Qizhi Ma, Benxia Zhang, Diyuan Qin, Yongsheng Wang

“…However, the functional significance of S1PR3 in T-cell-based immunotherapies and the molecular mechanisms have not been fully understood.Methods Here, we studied the combination of EpCAM-specific CAR T-cell therapy with pharmacological blockade of S1PR3 against solid tumor. We have applied RNA sequencing, flow cytometry, ELISA, cellular/molecular immunological technology, and mouse models of solid cancers.Results Our study provided evidence that S1PR3 high expression is positively associated with resistance to programmed cell death protein-1 (PD-1)-based immunotherapy and increased T-cell exhaustion. …”
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FNDC5/irisin mitigates the cardiotoxic impacts of cancer chemotherapeutics by modulating ROS-dependent and -independent mechanisms by Manish Kumar, Abhishek Singh Sengar, Anushree Lye, Pranesh Kumar, Sukhes Mukherjee, Dinesh Kumar, Priyadip Das, Suvro Chatterjee, Adele Stewart, Biswanath Maity

“…Whereas FNDC5 overexpression in murine heart was cardioprotective, introduction of FNDC5-targeted shRNA into the myocardium was sufficient to trigger Bax up-regulation, ATR/Chk1 activation, oxidative stress, cardiac fibrosis, loss of ventricular function, and compromised animal survival. …”
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Development of delayed pulmonary toxicities and transcriptional changes in pre-existing interstitial lung disease mice after partial thoracic irradiation by Jiamei Fu, Xinglong Liu, Yuchuan Zhou, Shengnan Zhao, Liang Zeng, Yan Pan, Jianghong Zhang, Kevin M. Prise, Chunlin Shao, Yaping Xu

“…Changes in lung function were measured. RNA extracted from mouse lung tissues was sequenced on the Illumina Novaseq platform. …”
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Transcriptomic and behavioral studies reveal that glutamate receptors are involved in depressive-like behavior in adult olive flounder Paralichthys olivaceus by Liangfang Liu, Tangsong Feng, Mengmeng Shi, Huafeng Zou, Weiqun Lu

“…In this study, using adult group (AG) and juvenile group (JG) flounder as a model, we compared the locomotor activity of AG and JG flounder, and analyzed the transcriptomic expression profiles in the spinal cord by RNA-seq methods. The behavioral experiment showed that AG flounder displayed lower locomotor activity. …”
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CD276 regulates the immune escape of esophageal squamous cell carcinoma through CXCL1–CXCR2 induced NETs by Yu Liang, Shuang Chen, Zhi Chen, Fang Peng, Qianwen Liu, Gan Xiong, Caihua Zhang, Maosheng Cheng, Rongsong Ling, Demeng Chen, Qimin Zhou

“…In addition, we conducted single-cell RNA sequencing analysis to examine the alterations in tumor microenvironment following CD276 depletion.Results In this study, we elucidate that CD276 is markedly upregulated in ESCC, correlating with poor prognosis. …”
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Effects of pesticide dichlorvos on liver injury in rats and related toxicity mechanisms by Pengcheng Zhang, Zixian Zhou, Jiaqi Yao, Yuhong Jiang, Hang Lei, Zhijun Xie, Juan Li, Xianlin Zhao, Lv Zhu, Meihua Wan, Ling Liu, Wenfu Tang

“…Our findings indicate that DDVP impairs hepatocyte autophagy and increases ROS activity. RNA sequencing and metabolomic analyses revealed that the pathways affected by DDVP exposure in hepatocytes include ABC transporters and amino acid biosynthesis processes. …”
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Fucosylated haptoglobin promotes inflammation via Mincle in sepsis: an observational study by Taylor Roh, Sungeun Ju, So Young Park, Yeonghwan Ahn, Jiyun Chung, Miyako Nakano, Gyoungah Ryu, Young Jae Kim, Geumseo Kim, Hyewon Choi, Sung-Gwon Lee, In Soo Kim, Song-I Lee, Chaeuk Chung, Takashi Shimizu, Eiji Miyoshi, Sung-Soo Jung, Chungoo Park, Sho Yamasaki, Seung-Yeol Park, Eun-Kyeong Jo

“…Fucosylated (Fu)-Hp purified from SPs upregulates inflammatory cytokines and chemokines, along with NLRP3 inflammasome activation. Single-cell RNA sequencing identifies a distinct macrophage-like cell population with increased expressions of inflammatory mediators and FUT4 in response to Fu-Hp. …”
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uN2CpolyG-mediated p65 nuclear sequestration suppresses the NF-κB-NLRP3 pathway in neuronal intranuclear inclusion disease by Yu Shen, Kaiyan Jiang, Dandan Tan, Min Zhu, Yusen Qiu, Pencheng Huang, Wenquan Zou, Jianwen Deng, Zhaoxia Wang, Ying Xiong, Daojun Hong

“…This study aimed to elucidate the molecular interaction between uN2CpolyG and the NF-κB-NLRP3 pathway. Methods Single-cell RNA sequencing was conducted on the skin tissues of NIID patients to assess changes in the expression of genes involved in inflammatory pathways. …”
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Comparative analysis of dominant gut microbiota in Inflammatory Bowel Disease patients and healthy individuals: A case-control study by Alireza Ahmadi, Ebrahim Kouhsari, Shabnam Razavi, Nima Mohamadzadeh, Sima Besharat, Mohammad Ali Vakili, Taghi Amiriani

“…Real-time qPCR analysis using bacterial 16S rRNA gene quantified the abundance of six key bacterial groups (Firmicutes, Lactobacillus spp., Bifidobacterium spp., Fusobacterium spp., Bacteroides fragilis, and Faecalibacterium prausnitzii) in faecal samples from 30 IBD patients (13 Crohn's disease, 17 ulcerative colitis) and 30 healthy controls. …”
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Enhanced therapeutic effects of hypoxia-preconditioned mesenchymal stromal cell-derived extracellular vesicles in renal ischemic injury by Fei Yuan, Jie Liu, Liang Zhong, Pengtao Liu, Ting Li, Kexin Yang, Wei Gao, Guangyuan Zhang, Jie Sun, Xiangyu Zou

“…Proliferation and related pathways were measured, and RNA sequencing was used to detect changes in the transcriptional profile. …”
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Hesperidoside abolishes dichlorvos-mediated neurotoxicity in rats by suppressing oxidative stress, acetylcholinesterase inhibition, and NF-κB-p65/p53/caspase-3-mediated apoptosis by Adio J. Akamo, Adetutu O. Ojelabi, Oluwatobi T. Somade, Iyabode A. Kehinde, Adewale M. Taiwo, Boluwatife A. Olagunju, Mushafau A. Akinsanya, Adedayo A. Adebisi, Tobi S. Adekunbi, Abiola F. Adenowo, Florence Anifowose, Olufemi M. Ajagun-Ogunleye, Ofem E. Eteng, Jacob K. Akintunde, Regina N. Ugbaja

“…Results: HESP intervention remarkably (p < 0.05) mitigated DDVP-potentiated augmentations in cerebral concentrations of H₂O₂, NO, and malondialdehyde; impaired DDVP-induced decrease in cerebral GSH, GST, SOD, catalase, glutathione peroxidase, and acetylcholinesterase; significantly (p < 0.05) suppressed DDVP-invoked upregulation of mRNA expression of NF-κB-p65, p53, BAX, caspase-3, and TNF-α; and significantly (p < 0.05) revoked DDVP-incited downregulation of interleukin-10. …”
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Exploring biomarkers and molecular mechanisms of Type 2 diabetes mellitus promotes colorectal cancer progression based on transcriptomics by Simin Luo, Yuhong Zhu, Zhanli Guo, Chuan Zheng, Xi Fu, Fengming You, Xueke Li

“…External datasets confirmed from both mRNA and protein expression levels that low COX11 expression was significantly associated with poor CRC prognosis. …”
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