Endoscopic surgery affects the gut microbiota and its metabolism in breast cancer patients by Jingtai Li, Fangfang Gao, Runwei Li, Zhilin Chen, Guoping Chen, Pingming Fan, Guankui Du, Guankui Du, Guankui Du

“…The gut microbiota composition was determined using 16S rRNA sequencing, while the metabolites were analyzed through liquid chromatography-tandem mass spectrometry (LC-MS/MS). Bioinformatics and statistical analyses were employed to identify significant alterations in microbial taxa abundance and to assess intergroup differences. …”
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IL-17 triggers PD-L1 gene transcription in NSCLC cells via TRIM31-dependent MEF2C K63-linked polyubiquitination by Shuai Ying, Ningxia Wu, Yuting Ruan, Wen Ge, Pei Ma, Tongpeng Xu, Yongqian Shu, Yingwei Wang, Wen Qiu, Chenhui Zhao

“…Methods RT‒PCR, real-time PCR, and IB were used to assess the levels of PD-L1, MEF2C, and TRIM31 in NSCLC tissues as well as in IL-17–stimulated H1299 or PC9 cells. Bioinformatics analysis, luciferase assays, and ChIP were utilized to investigate the transcriptional mechanism of the PD-L1 gene. …”
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Nanopore sequencing as a novel method of characterising anorexia nervosa risk loci by Natasha Berthold, Silvana Gaudieri, Sean Hood, Monika Tschochner, Allison L. Miller, Jennifer Jordan, Laura M. Thornton, Cynthia M. Bulik, Patrick Anthony Akkari, Martin A. Kennedy

“…To test this hypothesis, we implemented a novel approach with targeted nanopore sequencing (Oxford Nanopore Technologies) for 200 kb regions centred on each of the eight AN-associated loci in 10 AN case samples. Our bioinformatics pipeline entailed base-calling and alignment with Dorado and minimap2 software, followed by variant calling with four separate tools, Sniffles2, Clair3, Straglr, and NanoVar. …”
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Unraveling metabolic signatures in SARS-CoV-2 variant infections using multiomics analysis by Sunho Lee, Sunho Lee, Jueun Lee, Kwang-Soo Lyoo, Yourim Shin, Yourim Shin, Dong-Min Shin, Jun-Won Kim, Jeong-Sun Yang, Kyung-Chang Kim, Joo-Yeon Lee, Geum-Sook Hwang, Geum-Sook Hwang

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Molecular Phylogenetic Analysis of 16S rRNA Sequences Identified Two Lineages of Helicobacter pylori Strains Detected from Different Regions in Sudan Suggestive of Differential Evo... by Abeer Babiker Idris, Hadeel Gassim Hassan, Maryam Atif Salaheldin Ali, Sulafa Mohamed Eltaher, Leena Babiker Idris, Hisham N. Altayb, Amin Mohamed Abass, Mustafa Mohammed Ahmed Ibrahim, El-Amin Mohamed Ibrahim, Mohamed A. Hassan

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Wastewater-based analysis of antimicrobial resistance at UK airports: Evaluating the potential opportunities and challenges by Margaret E. Knight, Kata Farkas, Matthew Wade, Gordon Webster, Daniel A. Pass, William Perry, Peter Kille, Andrew Singer, Davey L. Jones

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MT1G promotes iron autophagy and inhibits the function of gastric cancer cell lines by intervening in GPX4/SQSTM1 by Kaiqiang Meng, Jian Song, Fan Qi, Jiamin Li, Zhichao Fang, Liang Song

“…This study aims to explore the biological functions and regulatory mechanisms of MT1G in GC. Perform bioinformatics analysis using the TCGA database to investigate the expression of MT1G in GC. …”
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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

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Disrupting of IGF2BP3-stabilized CLDN11 mRNA by TNF-α increases intestinal permeability in obesity-related severe acute pancreatitis by Lihui Lin, Yansong Lin, Xianwen Guo, Ruoyi Zhang, Xin Ling, Zewen Zhang, Rong Lin, Zhen Ding

“…The interaction between CLDN11 mRNA and insulin-like growth factor 2 mRNA-binding protein 3 (IGF2BP3) protein was predicted through bioinformatics analysis and validated by RNA immunoprecipitation and RNA pull-down assay. …”
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Identification and Functional Analysis of PANoptosis‐Associated Genes in the Progression From Sepsis to ARDS by Zhong‐Hua Lu, Yan Tang, Hu Chen, Feng Liu, Mei Liu, Lu Fu, Xian‐Kai Wang, Ming‐Juan Li, Wei‐Li Yu, Yun Sun

“…A diagnostic prediction model was constructed based on key PRGs identified through bioinformatics analysis. Functional enrichment analyses were conducted to determine pathway involvement, and correlations with immune cells were assessed. …”
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Air Pollution and Cognitive Impairment Among the Chinese Elderly Population: An Analysis of the Chinese Longitudinal Healthy Longevity Survey (CLHLS) by Qingyang Zhu, Yuebin Lyu, Keyong Huang, Jinhui Zhou, Wenhao Wang, Kyle Steenland, Howard H. Chang, Stefanie Ebelt, Xiaoming Shi, Yang Liu

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Microbial assisted alleviation of nickel toxicity in plants: A review by Xinyu Mao, Bilal Ahmad, Sabir Hussain, Farrukh Azeem, Muhammad Waseem, Yousef Alhaj Hamoud, Hiba Shaghaleh, Amany H.A. Abeed, Muhammad Rizwan, Jean Wan Hong Yong

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The dual anti-inflammatory and anticoagulant effects of Jianpi Huashi Tongluo prescription on Rheumatoid Arthritis through inhibiting the activation of the PI3K/AKT signaling pathw... by Fanfan Wang, Fanfan Wang, Jian Liu

“…Secondly, an adjuvant-induced arthritis rat model was established to directly observe the anti-inflammatory and anticoagulant effects of XFC in vivo. Furthermore, bioinformatics and network pharmacology techniques were applied to decipher the major active components and their targets of XFC. …”
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Mutation in the COL2A1 gene is associated with acetabular dysplasia by Miaomiao Xin, Xin Guan, Xin Guan, Jiangfei Yang, Yi Li, Zhentao Man, Hongsheng Sun, Min Fu

“…NGS and Sanger sequencing identified a heterozygous missense mutation in the COL2A1 gene (ex13, c.823C > T; p.Arg275Cys) in both the proband and his father, while this mutation was absent in the mother. Bioinformatic analysis indicated that the c.823C > T (p.Arg275Cys) variant is pathogenic, and structural modeling demonstrated that the substitution of arginine with cysteine at residue 275 altered the protein structure.ConclusionOur findings highlight the diagnostic utility of NGS in identifying precise genetic causes of DDH. …”
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Investigation of the physicochemical factors affecting the in vitro digestion and glycemic indices of indigenous indica rice cultivars by Indira Govindaraju, Anusha R. Das, Ishita Chakraborty, Sib Sankar Mal, Bhaswati Sarmah, Vishwa Jyoti Baruah, Nirmal Mazumder

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Biological sex, microglial signaling pathways, and radiation exposure shape cortical proteomic profiles and behavior in mice by Alexandra O. Strohm, Sadie Oldfield, Eric Hernady, Carl J. Johnston, Brian Marples, M. Kerry O'Banion, Ania K. Majewska

“…We performed a comprehensive analysis of the cortical proteomes from irradiated and control C57BL/6J, P2Y12−/−, and CX3CR1−/− mice of both sexes using multiple bioinformatics methods. We identified distinct proteins and biological processes, as well as behavioral profiles, regulated by sex, genotype, radiation exposure, and their interactions. …”
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Arctiin Protects Chondrocytes from Interleukin-1β-Induced Inflammation and Apoptosis by RNA Sequence In vivo and In vitro by Yong-Jia Song, Jia-Min Bao, Zeng-Qiao Zhang, Yun-Xiang Hai, Hao-Nan Wen, Tian-Jun Zhai, Wei Feng, Min Song

“…ARC exhibited a dose-dependent effect on chondrocytes by reducing IL-1β-induced matrix metalloproteinase-3 (MMP-3) and a disintegrin and metalloproteinase with thrombospondin motifs-5 levels while increasing Aggrecan levels. RNA-seq and bioinformatics analysis revealed that ARC’s therapeutic effects involve apoptotic signaling pathways through the downregulation of Bcl-2-associated X protein (Bax) and caspase-3 expression and the upregulation of B-cell lymphoma-2 (Bcl-2) expression in IL-1β-induced chondrocytes. …”
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Better understanding the phenotypic effects of drugs through shared targets in genetic disease networks by Elena Díaz-Santiago, Aurelio A. Moya-García, Jesús Pérez-García, Raquel Yahyaoui, Raquel Yahyaoui, Christine Orengo, Florencio Pazos, James R. Perkins, James R. Perkins, James R. Perkins, Juan A. G. Ranea, Juan A. G. Ranea, Juan A. G. Ranea, Juan A. G. Ranea

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Nicotine promotes M2 macrophage polarization through α5-nAChR/SOX2/CSF-1 axis in lung adenocarcinoma by Guiyu Kang, Hui Song, Lei Bo, Qi Liu, Qiang Li, Jingtan Li, Pan Pan, Jingting Wang, Yanfei Jia, Haiji Sun, Xiaoli Ma

“…However, it is not comprehensively understood that how the α5-nAChR affects LUAD. Through diverse bioinformatics analyses and immunohistochemistry, the expressions of α5-nAChR and SOX2 as well as their relations were dissected. α5-nAChR regulated the differentiation of monocytes into M2 macrophages by targeting the STAT3/SOX2/CSF-1 signaling in the coculture system by western blotting and ChIP. α5-nAChR-mediated macrophage-mediated LUAD cell migration via SOX2/CSF-1 signaling in the cocultured medium. …”
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Inhibition of anti-tumour reactivity of immune cells in the salivary gland cancer: A proteomic approach by Rajdeep Chakraborty, Charbel Darido, Aidan Tay, Thiri Zaw, Shoba Ranganathan, Fei Liu, Giuseppe Palmisano

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