PCSK9-antibodies fail to block PCSK9-induced inflammation in macrophages and cannot recapitulate protective effects of PCSK9-deficiency in experimental myocardial infarction by Simon Rauterberg, Simon Rauterberg, Carmen Härdtner, Jennifer Hein, Paola Schrepf, Remi Peyronnet, Christoph Koentges, Tamara A. Vico, Carolin Ehlert, Bianca Dufner, Diana Lindner, Constantin von zur Mühlen, Dennis Wolf, Dirk Westermann, Ingo Hilgendorf, Alexander von Ehr

“…Cardiac function was assessed via echocardiography and isolated working heart model experiments. Gene expression changes were evaluated using RNA sequencing, and inflammatory responses in bone marrow-derived macrophages (BMDMs) were analyzed in vitro.ResultsPCSK9 was expressed in murine heart tissue at levels comparable to the liver, despite minimal heart RNA expression. …”
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Assessing the effects of a mixed Eimeria spp. challenge on performance, intestinal integrity, and the gut microbiome of broiler chickens by Danielle Graham, Victor M. Petrone-Garcia, Xochitl Hernandez-Velasco, Makenly E. Coles, Marco A. Juarez-Estrada, Juan D. Latorre, Jianmin Chai, Stephanie Shouse, Jiangchao Zhao, Aaron J. Forga, Roberto Senas-Cuesta, Lauren Laverty, Kristen Martin, Carolina Trujillo-Peralta, Ileana Loeza, Latasha S. Gray, Billy M. Hargis, Guillermo Tellez-Isaias

“…Additionally, at d24, FITC-d was used as a biomarker to evaluate intestinal permeability and ileal tissue sections were collected for histopathology and gene expression of tight junction proteins. Ileal and cecal contents were also collected to assess the impact of challenge on the microbiome. …”
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Invited review: Improved control of Johne's disease in dairy cattle through advancements in diagnostics, testing, and management of young stock by Larissa Martins, Karin Orsel, Razieh Eshraghisamani, Jose Miguel Hernández-Agudelo, A. Caroline Pereira, Waseem Shaukat, Ad P. Koets, John P. Bannantine, Caroline Ritter, David F. Kelton, Richard J. Whittington, Maarten F. Weber, Antonio Facciuolo, Navneet K. Dhand, Karsten Donat, Susanne Eisenberg, Miguel A. Salgado, John P. Kastelic, Jeroen De Buck, Herman W. Barkema

“…New diagnostics have been developed, including phage-based tests to detect viable MAP, as well as gene expression patterns and metabolomics to detect MAP-infected young stock. …”
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CD38 deficiency leads to a defective short-lived transcriptomic response to chronic graft-versus-host disease induction, involving purinergic signaling-related genes and distinct t... by Mercedes Zubiaur, Laura C. Terrón-Camero, Fernando Gordillo-González, Eduardo Andrés-León, Alicia Barroso-del Jesús, Luz María Canet-Antequera, María M. Pérez Sánchez-Cañete, África Martínez-Blanco, Marilú Domínguez-Pantoja, María Botia-Sánchez, Sonia Pérez-Cabrera, Nerea Bello-Iglesias, Antonio Alcina, Ana-Clara Abadía-Molina, Fuencisla Matesanz, Esther Zumaquero, Ramón Merino, Jaime Sancho

“…A second purinergic receptor transcriptomic profile, which included P2rx7 and P2rx4, showed a coordinated gene expression of the components of the NLRP3 inflammasome with its potential activators. …”
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An exploratory study of INPP4B, a biomarker of gemcitabine chemoresistance in pancreatic cancer by REN Jiaqiang, WU Shuai, SU Tong, LI Jie, HAN Liang, WU Zheng

“…Second-generation high-throughput RNA-seq sequencing was conducted on these resistant cells, and bioinformatics analysis was employed to identify four pancreatic cancer genes from the Gene Expression Omnibus (GEO) datasets (GSE106336, GSE110580, GSE35141, and GSE140077). …”
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ERRα promotes glycolytic metabolism and targets the NLRP3/caspase-1/GSDMD pathway to regulate pyroptosis in endometrial cancer by Pingping Su, Xiaodan Mao, Jincheng Ma, Lixiang Huang, Lirui Yu, Shuting Tang, Mingzhi Zhuang, Zhonglei Lu, Kelvin Stefan Osafo, Yuan Ren, Xinrui Wang, Xite Lin, Leyi Huang, Xiaoli Huang, Elena Ioana Braicu, Jalid Sehouli, Pengming Sun

“…In addition, the expression of ERRα-related pyroptosis genes was analyzed using The Cancer Genome Atlas and Gene Expression Omnibus database. Results Triggered by a hypoxic microenvironment, highly expressed ERRα could bind to the promoter of NLRP3 and inhibit caspase-1/GSDMD signaling, which reduced inflammasome activation and increased pyroptosis resistance, thereby resulting in the resistance of cancer cells to cisplatin. …”
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Analysis of Genetic Variation in CD40 and CD40L: Relationship with mRNA Relative Expression and Soluble Proteins in Acute Coronary Syndrome by D. E. Martínez-Fernández, J. R. Padilla-Gutiérrez, F. Casillas-Muñoz, Emmanuel Valdés-Alvarado, Brenda Parra-Reyna, Maricela Aceves-Ramírez, J. F. Muñoz-Valle, U. Zalapa Flores, J. C. Chávez Herrera, Y. Valle

“…CD40 and CD40L expressions at the mRNA level were quantified using TaqMan Gene Expression Assays. Soluble protein isoforms were measured by enzyme-linked immunosorbent assay. …”
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Soluble and cell-based markers of immune checkpoint inhibitor-associated nephritis by Sandra M Herrmann, Riley Fadden, Ryan J Sullivan, Kerry L Reynolds, Harish Seethapathy, Meghan E Sise, Shruti Gupta, Alexandra-Chloe Villani, Qiyu Wang, Daiana Moreno, Destiny Harden, R Neal Smith, Ivy A Rosales, Robert B Colvin, Sarah Chute, Lynn D Cornell, Nancy J Yang, Sara Barmettler, Sophia Wells, Jocelyn Farmer

“…By peripheral blood flow cytometry analysis, lower absolute CD8+T cells, CD45RA+CD8+ T cells, memory CD27+B cells, and expansion of plasmablasts were prominent features of ICI-nephritis compared with ICI-treated controls. Gene expressions for IL2RA, IL-2 signaling, and T cell receptor signaling in the kidney tissue with ICI-nephritis were significantly higher compared with controls.Conclusion Elevated sIL-2R level and flow cytometric markers of both B and T cell dysregulation may aid the diagnosis of ICI-nephritis.…”
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Transcriptomic Profiling and Tumor Microenvironment Classification Reveal Unique and Dynamic Immune Biology in HIV-Associated Kaposi Sarcoma by Jihua Yang, Ayse Ece Cali Daylan, Aleksei Shevkoplias, Ekaterina Postovalova, Meng Wang, Andrey Tyshevich, Matthew Lee, Hiba Narvel, Ksenia Zornikova, Nara Shin, Nikita Kotlov, Luca Paoluzzi, Changcheng Zhu, Balazs Halmos, Xingxing Zang, Haiying Cheng

“…Notably, HIV-negative KS samples showed alterations in NK cell-mediated immunity and cytotoxic response pathways, whereas HIV-positive samples exhibited changes in growth regulation and protein kinase activity pathways at the time of initial diagnosis. The gene expression of immune checkpoints, including CD274 (PD-L1) and PDCD1LC2 (PD-L2), was comparable between HIV-positive and HIV-negative KS samples at diagnosis. …”
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Astaxanthin mitigates doxorubicin-induced cardiotoxicity via inhibiting ferroptosis and autophagy: a study based on bioinformatic analysis and in vivo/vitro experiments by Bowen Yin, Jingyi Ren, Xuanyi Liu, Yadong Zhang, Jinshi Zuo, Rui Wen, Huanting Pei, Miaomiao Lu, Siqi Zhu, Zhenao Zhang, Ziyi Wang, Yanyi Zhai, Yuxia Ma

“…This has substantial practical significance for the clinical application of DOX.MethodsBioinformatic analyses were conducted using transcriptomic data from the gene expression omnibus (GEO) database to identify key mechanisms underlying DIC. …”
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Transcriptomic profiles of monocyte-derived macrophages exposed to SARS-CoV-2 VOCs reveal immune-evasion escape driven by delta by Alessia Gallo, Josè Camilla Sammartino, Roberta Vazzana, Roberto Giambruno, Claudia Carcione, Nicola Cuscino, Salvatore Castelbuono, Vitale Miceli, Matteo Bulati, Daniele Lilleri, Irene Cassaniti, Pier Giulio Conaldi, Fausto Baldanti

“…Methods We analysed the gene expression profiles of monocyte-derived macrophages (MDM) isolated from whole blood of healthy participants exposed to the 5 different SARS-CoV-2 VOC: D614G, Alpha (B.1.1.7), Gamma (P1), Delta (B.1.617.2), and Omicron BA.1 (B.1.1.529), and to the HCoV-OC43 strain, a coronavirus already present in the population before the SARS-CoV-2 pandemic. …”
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An anoikis-related signature predicts prognosis and immunotherapy response in gastrointestinal cancers by Ruyi Liu, Ruyi Liu, Ruyi Liu, Ruyi Liu, Ruyi Liu, Yuchen Liu, Yuchen Liu, Yuchen Liu, Yuchen Liu, Yuchen Liu, Weicheng Huang, Weicheng Huang, Weicheng Huang, Weicheng Huang, Weicheng Huang, Pengxiang Chen, Pengxiang Chen, Pengxiang Chen, Pengxiang Chen, Pengxiang Chen, Yufeng Cheng, Yufeng Cheng, Yufeng Cheng, Yufeng Cheng, Yufeng Cheng

“…We aimed to explore the roles of anoikis-related genes (ARGs) in the GI cancer prognosis.MethodsWe extracted RNA sequencing and clinical data from The Cancer Genome Atlas and Gene Expression Omnibu databases for patients with esophageal cancer, gastric cancer, colon cancer and rectal cancer and identified ARGs from GeneCards and Harmonizome. …”
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Age-related calcium signaling disturbance restricted cAMP metabolism and induced ovarian oxidation stress in laying ducks by Cheng-long Jin, Sheng-lin Wang, Shuang Wang, Ya-nan Zhang, Wei-guang Xia, Chang Zhang, Xue-bing Huang, Kai-chao Li, Chun-tian Zheng, Wei Chen

“…Then, according to RNA-Seq analysis, we detected those aged ducks displayed lower Ca concentration in the ovary, while Ca channel related gene expression was increased in GCs to maintain homeostasis. …”
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Genome-Wide Analysis, Characterization, and Expression Profile of the Basic Leucine Zipper Transcription Factor Family in Pineapple by Yanhui Liu, Mengnan Chai, Man Zhang, Qing He, Zhenxia Su, S. V. G. N. Priyadarshani, Liping Liu, Guanxi Dong, Yuan Qin

“…The study also analyzed the pineapple gene expression of bZIP genes in different tissues, organs, and developmental stages, as well as in abiotic stress responses. …”
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gga-miR-6634-5p Affects the proliferation and steroid hormone secretion of chicken (Gallus Gallus) granulosa cells by targeting MMP16 by Yixiang Tian, Xing Wu, Zihao Zhang, Yijie Li, Meng Hou, Ruirui Jiang, Donghua Li, Yanhua Zhang, Yulong Guo, Guoxi Li, Xiaojun Liu, Xiangtao Kang, Yadong Tian, Wenting Li, Yuetao Li

“…Furthermore, we found that MMP16 protein and gene expression can be down-regulated by gga-miR-6634-5p and demonstrated that MMP16 is a target gene of gga-miR-6634-5p by dual luciferase reporter assay (P < 0.05). …”
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BPZ inhibits early mouse embryonic development by disrupting maternal-to-zygotic transition and mitochondrial function by Zhiming Ding, Huilei Chen, Huiru Cheng, Caiyun Wu, Hongzhen Ruan, Bingjing Zhu, Ping Zhou, Zuying Xu, Huifen Xiang

“…RNA sequencing analysis has identified 593 differentially expressed genes as a result of BPZ exposure, highlighting considerable changes in early embryonic gene expression. Mechanistically, BPZ exposure inhibits the activation of the zygotic genome and impedes maternal mRNA degradation, thereby interfering with maternal-to-zygotic transition (MZT). …”
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Effects of pyrazosulfuron-ethyl on caudal fin regeneration in zebrafish larvae by Chenkai Ge, Zhijun Ye, Weitao Hu, Jingrong Tang, Huimin Li, Fasheng Liu, Xinjun Liao, Jianjun Chen, Shouhua Zhang, Zigang Cao

“…Pyrazosulfuron-ethyl exposure resulted in the decreased number of neutrophils and macrophages, and the downregulation of immune related gene expression levels during caudal fin. Using LPS to activate inflammation can effectively rescue the fin regeneration defects induced by pyrazosulfuron-ethyl. …”
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Comparative functional analysis of a new CDR1-like ABC transporter gene in multidrug resistance and virulence between Magnaporthe oryzae and Trichophyton mentagrophytes by Jing Wang, Chenwen Xiao, Shuang Liang, Muhammad Noman, Yingying Cai, Zhen Zhang, Xueming Zhu, Rongyao Chai, Haiping Qiu, Zhongna Hao, Yanli Wang, Jiaoyu Wang, Guolian Bao, Guochang Sun, Fucheng Lin

“…MoCdr1 and TmCdr1 are conserved in structures and functions, and both involved in drug resistance and pathogenicity by analogously regulating gene expression levels related to transporter activity, MAPK signaling pathway, and metabolic processes. …”
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Identification of biomarkers for the diagnosis of type 2 diabetes mellitus with metabolic associated fatty liver disease by bioinformatics analysis and experimental validation by Guiling Wu, Guiling Wu, Sihui Wu, Sihui Wu, Tian Xiong, Tian Xiong, Tian Xiong, You Yao, You Yao, Yu Qiu, Yu Qiu, Yu Qiu, Liheng Meng, Cuihong Chen, Xi Yang, Xi Yang, Xi Yang, Xinghuan Liang, Yingfen Qin

“…Therefore, we aimed to identify potential biomarkers for diagnosing both conditions.MethodsWe performed differential expression analysis and weighted gene correlation network analysis (WGCNA) on publicly available data on the two diseases in the Gene Expression Omnibus database to find genes related to both conditions. …”
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Outer retina micro-inflammation is driven by T cell responses prior to retinal degeneration in early age-related macular degeneration by Lucas Stürzbecher, Lucas Stürzbecher, Lucas Stürzbecher, Lucas Stürzbecher, Hendrik Bartolomaeus, Hendrik Bartolomaeus, Hendrik Bartolomaeus, Hendrik Bartolomaeus, Theda U. P. Bartolomaeus, Theda U. P. Bartolomaeus, Theda U. P. Bartolomaeus, Theda U. P. Bartolomaeus, Sylvia Bolz, Andjela Sekulic, Marius Ueffing, Marius Ueffing, Simon J. Clark, Simon J. Clark, Simon J. Clark, Nadine Reichhart, Sergio Crespo-Garcia, Nicola Wilck, Nicola Wilck, Nicola Wilck, Nicola Wilck, Olaf Strauß

“…Furthermore, flow cytometry and gene expression analysis were used on ocular and splenic tissues of Cx3cr1GFP/GFP and C57BL/6J mice at 8 and 12 months of age to characterize the dynamics of local and systemic T cell populations.ResultsWe show the presence of memory T cells such as CD45RO+ cells in the choroid and retina of patients with AMD with a peak of abundance in early stages of AMD. …”
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