Supplementation of Parachlorella sp. in feed promote the gut microbiome colonization and fecal IgA response of broiler in both early and late period by Woonhak Ji, Tae-Yong Kim, Chae Won Lee, Z-Hun Kim, Ji Young Jung, Byeong Cheol Ban, Changsu Kong, Myunghoo Kim

“…A significant positive correlation was observed between IgA, Clostridiaceae and Clostridium during the early and late periods. Gene expression analysis identified 40 upregulated genes, including polymeric immunoglobulin receptor (pIgR), and 142 downregulated genes, including marginal zone B and B1 cell specific protein and immunoglobulin lambda-like polypeptide 1 that were associated with the IgA response in PA-treated broilers during the early period. …”
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Reconstruction and computational analysis of the microRNA regulation gene network in wheat drought response mechanisms by M. A. Kleshchev, A. V. Maltseva, E. A. Antropova, P. S. Demenkov, T. V. Ivanisenko, Y. L. Orlov, H. Chao, M. Chen, N. A. Kolchanov, V. A. Ivanisenko

“…Wheat adaptation to water deficit is ensured by complex molecular genetic mechanisms, including the coordinated work of multiple genes regulated by transcription factors and signaling non-coding RNAs, particularly microRNAs (miRNAs). miRNA-mediated regulation of gene expression is considered one of the main mechanisms of plant resistance to abiotic stresses. …”
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Exploring the CD3/CD56/TNF-α/Caspase3 pathway in pyrethroid-induced immune dysregulation: curcumin-loaded chitosan nanoparticle intervention by Nawal Alsubaie, Yasmina M. Abd-Elhakim, Amany Abdel-Rahman Mohamed, Tarek Khamis, Tarek Khamis, Mohamed M. M. Metwally, Mohamed M. M. Metwally, Nawal Helmi, Afnan M. Alnajeebi, Badriyah S. Alotaibi, Amirah Albaqami, Wedad Mawkili, Mai A. Samak, Mai A. Samak, Samar A. Eissa

“…However, the alterations in immune function, splenic antioxidant status, blood cell populations, and immune-related gene expression were notably restored in the FTN + CML-CNP-treated group.ConclusionThe findings of this study highlighted the immunosuppressive effects of FTN and suggested the involvement of many CD cell markers as a potential underlying mechanism. …”
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Epigenetic modifications in bladder cancer: crosstalk between DNA methylation and miRNAs by Wei Li, Wei Li, Wei Li, Peiyue Luo, Peiyue Luo, Peiyue Luo, Qi Chen, Qi Chen, Qi Chen, Le Cheng, Le Cheng, Le Cheng, Lifeng Gan, Lifeng Gan, Lifeng Gan, Fangtao Zhang, Fangtao Zhang, Fangtao Zhang, Haidong Zhong, Haidong Zhong, Haidong Zhong, Liying Zheng, Biao Qian, Biao Qian

“…These modifications not only affect gene expression but also impact critical biological behaviors of tumor cells, including proliferation, differentiation, apoptosis, invasion, and metastasis. …”
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Generation of live mice from haploid ESCs with germline-DMR deletions or switch by Yongjian Ma, Meng Yan, Zhenfei Xie, Hongling Zhang, Zhoujie Li, Yuanyuan Li, Suming Yang, Meiling Zhang, Wen Li, Jinsong Li

“…Moreover, embryos reconstructed by injection of AG-haESCs with hypomethylated H19-DMR into oocytes with H19-DMR deletion develop into live mice sustaining inverted allelic gene expression. Together, our findings indicate that restoration of monoallelic expression of 10 imprinted regions is adequate for the full-term development of all-haESC pups, and it works irrespective of their parental origins. …”
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Hypothyroidism impairs the circadian rhythmicity of clock genes and proteins involved in gut nutrient absorption in female mice by Ayla Secio-Silva, Paulo Henrique Evangelista-Silva, Felipe Emrich, Letícia Selvatici-Tolentino, Maíza Ferreira, Ana Bárbara de Paula Silva, Bruno Henrique Gomes, Tatienne Neder Figueira-Costa, André Gustavo Oliveira, Rodrigo Antonio Peliciari-Garcia, Francemilson Goulart-Silva, Paula Bargi-Souza

“…The proximal small intestine segment was collected and immediately frozen for gene expression analysis of circadian core clock components (Bmal1, Per2, Cry1, and Nr1d1) and nutrient transporters by RT-qPCR. …”
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MiR-3664-3p through suppressing ABCG2, CYP3A4, MCL1, and MLH1 increases the sensitivity of colorectal cancer cells to irinotecan by Elham Farrokhnazar, Sahar Moghbelinejad, Reza Najafipour, Ladan Teimoori-Toolabi

“…When we transfected HCT116-R3 and SW480-R3 cells with pre-miR-3664-3p, there was an increase in miR-3664-3p expression and a reduction in ABCG2, CYP3A4, MCL1, and MLH1 gene expression. This led to increased sensitivity to irinotecan. …”
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SSL5-AnxA5 Fusion Protein Constructed Based on Human Atherosclerotic Plaque scRNA-Seq Data Preventing the Binding of Apoptotic Endothelial Cells, Platelets, and Inflammatory Cells by Yifei Zhao, Xingyu He, Teng Hu, Tianli Xia, Fangyang Huang, Changming Li, Yiming Li, Fei Chen, Mao Chen, Jun Ma, Yong Peng

“…<b>Methods:</b> The scRNA-seq data were extracted from the Gene Expression Omnibus (GEO) database. Single-cell transcriptome analysis results and cell–cell communication were analyzed to identify the ACS and SAP cell clusters and elucidate the intercellular communication differences. …”
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A pan-cancer analysis of homeobox family: expression characteristics and latent significance in prognosis and immune microenvironment by Yuanhui Wang, Jie Gao, Ziyi Ren, Ziyi Shen, Wei Gu, Qinyi Miao, Xiaomeng Hu, Xiaomeng Hu, Yan Wu, Yan Wu, Wei Liu, Jia Jia, Jia Jia, Yi Cai, Chunpeng (Craig) Wan, Lei Sun, Tingdong Yan, Tingdong Yan

“…Potential anti-tumor compounds for down-regulating HOX gene expression were identified, such as HDAC inhibitors and tubulin inhibitors. …”
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The transcriptional analysis of pepper shed light on a proviral role of light-harvesting chlorophyll a/b binding protein 13 during infection of pepper mild mottle virus by Weihong Lin, Shugen Zhang, Hao Zhang, Xiaomei Deng, Tong Jiang, Xifeng Chen, Laihua Dong, Qin Yan, Lianyi Zang, Yongping Xing, Zhenquan Wang, Qin Zhang, Kaitong Du, Huolin Shen, Junmin Zhang, Tao Zhou

“…Taken together, our findings highlight the distinct gene expression profiles between susceptible and resistant pepper lines in response to PMMoV infection and confirm the proviral role of CAB13. …”
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IFN-γ reprograms cardiac microvascular endothelial cells to mediate doxorubicin transport and influences the sensitivity of mice to doxorubicin-induced cardiotoxicity by Haoyu Ji, Wenya Ma, Xu Liu, Hongyang Chen, Yining Liu, Zhongyu Ren, Daohong Yin, Ao Cai, Zizhen Zhang, Xin Wang, Wei Huang, Leping Shi, Yanan Tian, Yang Yu, Xiuxiu Wang, Yang Li, Yu Liu, Benzhi Cai

“…Single-cell RNA sequencing revealed differences of gene expression in cardiac endothelial cells between DIC-insensitive and DIC-sensitive groups. …”
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Metformin blocks BIK1-mediated CPK28 phosphorylation and enhances plant immunity by Yazhou Bao, Qian Zhang, Hai Zhu, Yong Pei, Yaning Zhao, Yixin Li, Peiyun Ji, Dandan Du, Hao Peng, Guangyuan Xu, Xiaodan Wang, Zhiyuan Yin, Gan Ai, Xiangxiu Liang, Daolong Dou

“…Methods: To investigate the impact of MET on enhancing plant immune responses, we conducted assays measuring defense gene expression, reactive oxygen species (ROS) accumulation, mitogen-activated protein kinase (MAPK) phosphorylation, and pathogen infection. …”
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Single-cell immunopathology of recurrent acute generalized exanthematous pustulosis associated with vancomycin by Eric M. Mukherjee, MD, PhD, Andrew Gibson, PhD, Matthew S. Krantz, MD, Rama Gangula, MS, Amy M. Palubinsky, PhD, Alan S. Boyd, MD, Jeffrey P. Zwerner, MD, PhD, Anna K. Dewan, MD, MS, Nontaya Nakkam, PhD, Katherine C. Konvinse, MD, PhD, Yueran Li, PhD, Ramesh Ram, PhD, Abha Chopra, PhD, Elizabeth J. Phillips, MD

“…Single-cell analysis of affected skin showed polyclonal TH17-like cells with gene expression signatures similar to T-cell response during prevalent infectious diseases. …”
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Regulatory signatures involved in the cell cycle pathway contribute to egg production heterosis in chicken by Jingwei Yuan, Yuanmei Wang, Yanyan Sun, Yunlei Li, Aixin Ni, Qin Li, Hanhan Yang, Xinying Xu, Yunhe Zong, Hui Ma, Jilan Chen

“…Conclusion Our study characterized the dynamic profile of genome-wide gene expression in ovary and highlighted the role of dominant expression of cell cycle pathway genes in heterosis. …”
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Integrating pharmacogenomics and cheminformatics with diverse disease phenotypes for cell type-guided drug discovery by Arda Halu, Sarvesh Chelvanambi, Julius L. Decano, Joan T. Matamalas, Mary Whelan, Takaharu Asano, Namitra Kalicharran, Sasha A. Singh, Joseph Loscalzo, Masanori Aikawa

“…We benchmark our approach by calculating area under the receiver operating characteristic curves (AUROC) for 73 gene sets from the Molecular Signatures Database (MSigDB) using target gene expression profiles from the Comparative Toxicogenomics Database (CTD). …”
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In Vitro Screening and Transfection Concentration Optimization of Cynomolgus Monkey IκBα-siRNA by Zhaoxing Ou, Rui Zeng, Yifan Lin, Si Zhang, Mohammad Alzogool, Peng Zeng, Yuqing Lan

“…To seek for a small interfering RNA (siRNA) sequence targeting a cynomolgus monkey inhibitor of nuclear factor kappa B α (IκBα) that can specifically and effectively suppress IκBα gene expression of cynomolgus monkey ciliary muscle (CM) cells and trabecular meshwork (TM) cells in vitro and screen for optimal siRNA transfection concentration. …”
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miR124a-3p inhibitor alleviates AFB1-induced hepatoxicity via targeting chicken glucocorticoid receptor mRNA by Mindie Zhao, Liang Chen, Yulan Zhao, Jie Liu, Huimin Chen, Ruqian Zhao

“…We found that transfection of LMH cells with miR124a-3p inhibitor alleviated the changes in GR and metabolic detoxification enzyme gene expression induced by AFB1. Additionally, AFB1-induced reductions in cell viability, increased apoptosis, inhibited proliferation, oxidative stress, and DNA damage were also alleviated. …”
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Multiomics unravels the complexity of male obesity: a prospective observational study by Georgios E. Papadakis, Lucie Favre, Yassine Zouaghi, Nathalie Vionnet, Nicolas J. Niederländer, Michela Adamo, James S. Acierno, Dassine Berdous, Alexia Boizot, Jenny Meylan, Julijana Ivanisevic, Emmanuelle Paccou, Hector Gallart-Ayala, Tim Reyns, Elise Van Caeneghem, Bruno Lapauw, Jérôme Pasquier, Yasser Aleman, Styliani Mantziari, Olivier Salamin, Raul Nicoli, Tiia Kuuranne, Tom Fiers, Patric Hagmann, Federico Santoni, Andrea Messina, Nelly Pitteloud

“…The upregulated genes were involved mainly in inflammation, mitochondrial function, and protein translation. Integration of gene expression and clinical data revealed high FGF21 and low cortisol levels as the top markers correlated with the transcriptomic signature of metabolic risk. …”
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Caesalpinia sappan L. ethyl acetate extract regulated angiogenesis in atherosclerosis by modulating the miR-126/VEGF signalling pathway by Yue He, Chao Huang, Jingjing Chen, Weizeng Shen

“…Materials and methods: Our study first screened for differentially expressed microRNAs (miRNAs) associated with AS using the Gene Expression Omnibus (GEO) public database at the National Center for Biotechnology Information (NCBI) and R language software. …”
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Lignin Metabolism Is Crucial in the Plant Responses to <i>Tambocerus elongatus</i> (Shen) in <i>Camellia sinensis</i> L. by Wenli Wang, Xiaogui Zhou, Qiang Hu, Qiuhong Wang, Yanjun Zhou, Jingbo Yu, Shibei Ge, Lan Zhang, Huawei Guo, Meijun Tang, Xin Li

“…Furthermore, the gene expression analysis revealed that transcripts of genes involved in flavonoid biosynthesis, such as <i>CsCHI</i>, <i>CsF3H</i>, <i>CsF3′H</i>, <i>CsFNS</i>, <i>CsFLS</i>, and <i>CsUFGT</i>, were down-regulated, while genes involved in the lignin pathway were up-regulated by insect infestation, suggesting that lignin probably plays a pivotal role in tea plant response to <i>T. elongatus</i> infestation. …”
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