Integrative Multiomics Profiling of Mouse Hippocampus Reveals Transcriptional Upregulation of Interferon‐Stimulated Genes Through PU.1 Regulator in Microglial Activation Induced by... by Zengyu Zhang, Dewen Ru, Zhuohang Liu, Zimin Guo, Lei Zhu, Yuan Zhang, Min Chu, Yong Wang, Jing Zhao

“…Behavioral assessments revealed cognitive impairments, while neuropathological analysis confirmed hippocampal damage. …”
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Phthalates promote lenvatinib resistance in hepatocellular carcinoma through the HPX-MAPK pathway by Jinlu Han, Chen Wang, Yun Song, Hong Hu, Mengyan Chen, De Zhao, Qiong Wu, Ling Xu

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Pheromone‐binding proteins based phylogenetics and phylogeography of Maruca spp. from Asia, Africa, Oceania, and South America by Periasamy Malini, Srinivasan Ramasamy, Roland Schafleitner, Krishnan Muthukalingan

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Expression of TAD1 (Tillering & Dwarf1) Gene in Hawara Bunar and IR64 Rice Cultivars by Vita Sindiya, Miftahul Huda Fendiyanto, Hamim Hamim, Miftahudin Miftahudin

“…The results of a transcriptome meta-analysis reinforced the phylogenetic tree, which shows that the TAD1 gene was found in a group of downregulated genes based on the volcano plots. …”
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Single-cell RNAseq and longitudinal proteomic analysis of a novel semi-spontaneous urothelial cancer model reveals tumor cell heterogeneity and pretumoral urine protein alterations... by Iliana K Kerzeli, Martin Lord, Milena Doroszko, Ramy Elgendy, Aikaterini Chourlia, Ivan Stepanek, Elinor Larsson, Luuk van Hooren, Sven Nelander, Per-Uno Malmstrom, Anca Dragomir, Ulrika Segersten, Sara M Mangsbo

“…The profiling of the model was performed by histology grading, single cell transcriptomic and proteomic analysis, while the derivation of a tumorigenic cell line was validated and used to assess in vivo anti-tumor effects in response to immunotherapy. …”
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Single-cell sequencing combined with urinary multi-omics analysis reveals that the non-invasive biomarker PRDX5 regulates bladder cancer progression through ferroptosis signaling by Shun Wan, Kun-peng Li, Si-yu Chen, Chen-yang Wang, Kun Cheng, Jian-wei Yang, Li-yun Ding, Tuan-jie Che, Shan-hui Liu, Li Yang

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Genome-Wide Identification of the <i>Eceriferum</i> Gene Family and Analysis of Gene Expression Patterns Under Different Treatments in Pepper (<i>Capsicum annuum</i> L.) by Fan Yang, Kai Wei, Ying Zhang, Xiaoke Chang, Wenrui Yang, Qiuju Yao, Huaijuan Xiao

“…Hormone treatments revealed dynamic responses: <i>CalCER2-2</i> was persistently ABA-inducible, while <i>CalCER3-1</i> specifically responded to JA. …”
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Identification of <i>AP2/ERF</i> Transcription Factors and Characterization of <i>AP2/ERF</i> Genes Related to Low-Temperature Stress Response and Fruit Development in Luffa by Jianting Liu, Haifeng Zhong, Chengjuan Cao, Yuqian Wang, Qianrong Zhang, Qingfang Wen, Haisheng Zhu, Zuliang Li

“…Moreover, 11 cis-acting elements associated with response to the environment were analyzed in a 2000 bp region upstream of the <i>LcAP2/ERF</i> gene promoters. A transcriptome analysis involving RNA-seq data revealed tissue-specific <i>LcAP2/ERF</i> expression profiles and the diversity in <i>LcAP2/ERF</i> expression. …”
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Inonotus obliquus (chaga) ameliorates folic acid-induced renal fibrosis in mice: the crosstalk analysis among PT cells, macrophages and T cells based on single-cell sequencing by Yueling Peng, Yaling Zhang, Yaling Zhang, Rui Wang, Xinyu Wang, Xingwei Liu, Hui Liao, Rongshan Li

“…BackgroundRenal fibrosis, characterized by the abnormal accumulation of extracellular matrix in renal tissue and progressive loss of kidney function, is posing a significant challenge in clinical treatment. While several therapeutic options exist, effective treatments remain limited. …”
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CD79A and GADD45A as novel immune-related biomarkers for respiratory syncytial virus severity in children: an integrated machine learning analysis and clinical validation by Juan Juan Chen, Zhang Ze Lu, Yu Xin Jing, Xing Mei Nong, Yi Qin, Jin Yang Huang, Na Lin, Jie Wei

“…CD79A was significantly downregulated in severe cases, correlating with impaired B-cell responses and cytotoxic immunity, while GADD45A, upregulated in severe infections, linked to oxidative stress and neutrophil-driven inflammation. …”
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Migrasome Marker Epidermal Growth Factor Domain-Specific <i>O</i>-GlcNAc Transferase: Pan-Cancer Angiogenesis Biomarker and the Potential Role of circ_0058189/miR-130a-3p/EOGT Axis... by Zhe Yu, Jing Luo, Wen An, Herui Wei, Mengqi Li, Lingling He, Fan Xiao, Hongshan Wei

“…<b>Methods</b>: Multi-omics analysis integrated TCGA/GTEx data from 33 cancer types with spatial/single-cell transcriptomics and 10 HCC cohorts. …”
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Advances in tumor subclone formation and mechanisms of growth and invasion by Yuhong Zhang, Weidong Wang

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Single-cell RNA sequencing using split-pool barcoding reveals transcriptional heterogeneity in Porphyromonas gingivalis with implications for periodontal pathogenesis by Eun-Young Jang, Seok Bin Yang, Jeewan Chun, Kyu Hwan Kwack, Sang-Wook Kang, Jae-Hyung Lee, Ji-Hoi Moon

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Genome-resolved metatranscriptomics unveils distinct microbial functionalities across aggregate sizes in aerobic granular sludge by A.Y.A. Mohamed, Laurence Gill, Alejandro Monleon, Mario Pronk, Mark van Loosdrecht, Pascal E. Saikaly, Muhammad Ali

“…In this study, genome-resolved metatranscriptomics was used to investigate microbial activity patterns within differently sized aggregates in a full-scale AGS plant. Our analysis revealed a weak correlation between the relative abundance of metagenome-assembled genomes (MAGs) and their transcriptomic activity, indicating that microbial abundance does not directly correspond to metabolic activity within the system. …”
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Comparative analysis of WC1.1+ and WC1.2+ γδ T cell subset responses from cattle naturally infected with Mycobacterium bovis to repeat stimulation with mycobacterial antigens. by Alia Parveen, Sajad A Bhat, Mahmoud Elnaggar, Kieran G Meade

“…Transcriptomic analysis revealed 111 differentially expressed genes (DEGs) common to both WC1.1+ and WC1.2+ γδ T cell compartments, including upregulation of IL1A, IL1B, IL6, IL17A, IL17F, and IFNG genes (FDR-Padj. < 0.1). …”
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Comparison of human-induced pluripotent stem cell-derived macrophages with peripheral blood-derived macrophages using single-cell genomics by ZHANG Yutong, HOU Guojun, SHEN Nan

“…KEGG pathway enrichment indicated that the DEGs between IPSDMs and PBDMs might be related to various intracellular pathogen infections.Conclusion·Human IPSDMs and PBDMs exhibit certain similarities and heterogeneity at the single-cell transcriptional level. Transcriptomic analysis indicates that IPSDMs display more characteristics of tissue-resident macrophages. …”
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Mazdutide, a dual agonist targeting GLP-1R and GCGR, mitigates diabetes-associated cognitive dysfunction: mechanistic insights from multi-omics analysisResearch in context by Wanqing Dong, Jie Bai, Qibin Yuan, Yingyu Zhang, Yongjiang Zhang, Ziyue Zhang, Maoxing Yang, Hanxiao Li, Ziyue Zhao, Hongwei Jiang

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Multi-omics identify ribosome related causal genes methylation, splicing, and expression in prostate cancer by Chengcheng Wei, Jingke He, Yunfan Li, Yu Luo, Liangdong Song, Kun Han, Jindong Zhang, Shuai Su, Delin Wang

“…In-depth single-cell analysis showed that NSUN4 highly expresses in epithelial cells, while MPHOSPH6 highly expresses in myeloid cells. …”
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Role of the USP7/FOXO3A axis in environmentally relevant doses of arsenic-induced lung carcinogenesis: Insights from bioinformatics analysis and model of human epithelial cell mali... by Xiaoyu Chen, Yuqing Wang, Ziqi Liu, Yujie He, Huan Gao, Xinchao Guan, Liping Chen, Shen Chen, Xiumei Xing, Wen Chen, Daochuan Li, Qing Wang

“…Among them, USP7 was upregulated, while ATM, S1PR1, and PLK2 were downregulated in cancer tissues. …”
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Identification of key genes and immune infiltration mechanisms in limb ischemia-reperfusion injury: a bioinformatics and experimental study by Qiyun Shi, Taotao Tian, Yanfeng Li

“…Our cross-tissue bioinformatic approach, reinforced by pharmacological and histological evidence, provides a novel framework for IRI analysis when direct patient data are unavailable. …”
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