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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Unveiling fine-scale spatial structures and amplifying gene expression signals in ultra-large ST slices with HERGAST by Yuqiao Gong, Xin Yuan, Qiong Jiao, Zhangsheng Yu

“…Abstract We propose HERGAST, a system for spatial structure identification and signal amplification in ultra-large-scale and ultra-high-resolution spatial transcriptomics data. To handle ultra-large spatial transcriptomics (ST) data, we consider the divide and conquer strategy and devise a Divide-Iterate-Conquer framework especially for spatial transcriptomics data analysis, which can also be adopted by other computational methods for extending to ultra-large-scale ST data analysis. …”
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CXCR4/CXCL12 axis promotes lymphatic metastasis in tongue squamous cell carcinoma via PI3K/AKT signaling pathway by Huiquan Lou, Yichao Xia, Shengjie Shao, Xiang Liu, Zengzheng Li, Hongbin Yu, Yongsheng Li

“…In vivo, CXCR4 overexpression accelerated tumor growth and lymphatic metastasis, while CXCR4 inhibition showed opposite effects. Transcriptomic analysis revealed comprehensive molecular alterations regulated by CXCR4/CXCL12 signaling. …”
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Selective JAK2 pathway inhibition enhances anti-leukemic functionality in CD19 CAR-T cells by Kohei Mitsuno, Masaya Suematsu, Yuki Naito, Azusa Mayumi, Hideki Yoshida, Shinya Osone, Toshihiko Imamura, Yozo Nakazawa, Shigeki Yagyu, Tomoko Iehara

“…CD19 CAR-T + DMSO: 32 days vs. 26 days, p = 0.0303). Transcriptomic analyses suggest that CHZ868 impedes CAR-T cell differentiation while preserving their proliferative capacity, a crucial factor in maintaining CAR-T cell functionality. …”
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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

“…Drug sensitivity analysis leveraged GDSC/CTRP/PRISM databases, while immune microenvironment assessment utilized ESTIMATE/TIMER algorithms. …”
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Time, the final frontier by Gautier Follain, Michal Dibus, Omkar Joshi, Guillaume Jacquemet

“…Cancer's notorious heterogeneity poses significant challenges, as each tumor comprises a unique ecosystem. While single‐cell and spatial transcriptomics advancements have transformed our understanding of spatial diversity within tumors, the temporal dimension remains underexplored. …”
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Gut microbiota regulates innate anxiety through neural activity of medial prefrontal cortex in male mice by Jing Ren, Xiao-Ying Lian, Wan-Qian Ye, You-Lu Wen, Cheng-Lin Lu, Xiong Cao

“…Clinical evidence and animal studies indicate that elevated innate anxiety significantly increases susceptibility to psychiatric disorders. While the gut microbiota has been increasingly recognized as a critical modulator of neuropsychiatric health, its specific contribution to innate anxiety has yet to be fully elucidated.MethodsWe investigated gut microbiota contributions to innate anxiety in mice using stratified behavioral phenotyping in the elevated plus maze (EPM), antibiotic (ABX)-mediated microbiota depletion, fecal microbiota transplantation (FMT), c-FOS staining, transcriptomic profiling, and vivo fiber photometry.ResultsWe found that innate high-anxiety (HA) and low-anxiety (LA) mice exhibited distinct gut microbial compositions. …”
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Anthocyanin Degradation Drives Heat-Induced Petal Fading in <i>Chrysanthemum morifolium</i> at Full Bloom: A Multi-Omics Analysis by Ge Zhao, Yanan Li, Jialin Peng, Xiuge Li, Wenhao Xia, Yuhe Tian, Yukun Li, Lijie Zhou

“…<i>Chrysanthemum morifolium</i>, a major cut flower worldwide, undergoes petal fading under heat stress due to reduced anthocyanin accumulation, significantly compromising its ornamental value. While previous studies have focused on heat-induced inhibition of anthocyanin biosynthesis, the mechanisms governing anthocyanin degradation remain unclear. …”
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Global Grin2a loss causes divergent impairments to PV+ and SST+ interneurons and alters gamma oscillations in prefrontal cortex by Hassan Hosseini, Sky Evans-Martin, Kevin S. Jones

“…PV+ dysfunction aligns with gamma synchrony impairments linked to SCZ cognitive flexibility, while SST+ alterations may contribute to impaired feedback inhibition and sensory deficits. …”
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Screening and regulatory mechanism exploration of M1 macrophage polarization and efferocytosis-related biomarkers in coronary heart disease by Hong Gao, Junhua Li, Jianxin Huang, Xiaojie Jiang

“…Immune infiltration analysis indicated IL13RA1 all had a positive correlation with M0 macrophage, while had a negative correlation with. NK cells activated. …”
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Identification of therapeutic targets in lung adenocarcinoma using Mendelian randomization and multi-omics by Yue Li, Keru Ma, Hao Wang, Zongying Liu, Zhuying Li

“…The prognostic relevance of the identified candidate targets was assessed using transcriptomic data. Functional interactions were explored via protein–protein interaction network analysis, while single-cell analyses were employed to determine cell-specific expression patterns and differentiation trajectories. …”
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Narciclasine enhances cisplatin-induced apoptotic cell death by inducing unfolded protein response-mediated regulation of NOXA and MCL1 by Ji Hae Lee, Seung Hee Seo, Jaegal Shim, Yong-Nyun Kim, Kyungsil Yoon

“…This treatment dramatically increased NOXA while downregulating anti-apoptotic MCL1 levels. …”
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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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Matrix Metalloproteinase-2 Knockout and Heterozygote Mice Are Protected from Hydronephrosis and Kidney Fibrosis after Unilateral Ureteral Obstruction. by Maria K Tveitarås, Trude Skogstrand, Sabine Leh, Frank Helle, Bjarne M Iversen, Christos Chatziantoniou, Rolf K Reed, Michael Hultström

“…Damage was most severe in Mmp2+/+ mice, while both Mmp2-/- and Mmp2+/- groups showed considerably milder hydronephrosis, no tubular necrosis, and less tubular dilation. …”
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Skin Barrier in Normal and Allergic Horses: What Do We Know? by Rosanna Marsella

“…Skin dysbiosis and predominance of staphylococcus have been described in horses with pastern dermatitis. Transcriptomic studies of the epidermis of normal and allergic horses have found that lesional allergic skin has substantial transcriptomic differences when compared with healthy skin, namely downregulation of genes of tight junctions, keratins, and upregulation of serine proteases and IL-13. …”
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Hepatocyte FoxO1 depletion exacerbates hepatic inflammation in MASH by targeting cystathionine γ-lyase by Hui-Ting Chen, Chen Huang, Jia-Wei Chen, Si-Qi Yang, Jie-Min Cheng, Yong-Qiang Li, Han-Qing Chen, Yong-Jian Zhou

“…Using hepatocyte-specific FoxO1-knockout (KO) mice fed a methionine-choline-deficient diet and LPS-treated FoxO1-KO cells, we demonstrated that FoxO1 depletion exacerbates hepatic inflammation, ballooning degeneration, and upregulates TNF-α, CXCL8, and CXCL2 in vivo and in vitro. Transcriptomic analysis revealed that FoxO1 deficiency upregulated pro-inflammatory pathways while suppressing cysteine/methionine metabolism, with a notable reduction in cystathionine γ-lyase (CTH) expression. …”
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Bovine colostrum-derived extracellular vesicles protect against non-alcoholic steatohepatitis by modulating gut microbiota and enhancing gut barrier function by Daye Mun, Sangdon Ryu, Daniel Junpyo Lee, Min-Jin Kwak, Hyejin Choi, An Na Kang, Dong-Hyun Lim, Sangnam Oh, Younghoon Kim

“…To investigate the potential protective effects of BCEVs against NASH, 8-wk-old mice were fed a NASH-inducing diet for 3 wks while concurrently receiving oral BCEV administration. …”
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Integrative network pharmacology and multi-omics reveal anisodamine hydrobromide’s multi-target mechanisms in sepsis by Ying Chen, Danlei Weng, Wei Shi, Shuxing Wei, Wenqing Ji, Xiya Wang, Yali Xu, Xiaoman Wang, Xue Mei, Shubin Guo

“…Ani HBr inhibited ELANE-driven NET formation (HR = 1.176), associated with immunosuppression and endothelial damage, while enhancing CCL5-related cytotoxic T-cell recruitment (HR = 0.810). …”
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TCF1-positive and TCF1-negative TRM CD8 T cell subsets and cDC1s orchestrate melanoma protection and immunotherapy response by Saraí G De León-Rodríguez, Cristina Aguilar-Flores, Julián A Gajón, Ángel Juárez-Flores, Alejandra Mantilla, Raquel Gerson-Cwilich, José Fabián Martínez-Herrera, Diana Alejandra Villegas-Osorno, Claudia T Gutiérrez-Quiroz, Sergio Buenaventura-Cisneros, Mario Alberto Sánchez-Prieto, Edmundo Castelán-Maldonado, Samuel Rivera Rivera, Ezequiel M Fuentes-Pananá, Laura C Bonifaz

“…TCF1+TRM cells show heightened expression of IFN-γ and Ki67 while TCF1− TRM cells exhibit increased expression of cytotoxic molecules. …”
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High-fat stimulation induces atrial structural remodeling via the TPM1/P53/SHISA5 Axis by Yansong Cui, Shuting Bai, Zhenlin Liu, Haifeng Ding, Kuan Li, Zhan Li, Yinglong Hou

“…Cell proliferation was assessed using EdU incorporation and flow cytometry, while transmission electron microscopy (TEM) was used to observe autophagy. …”
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