Investigation of transcriptional and immunological disparities among patient groups with varied prognostic risk factors in cholangiocarcinoma by Baoluhe Zhang, Bao Jin, Xiang'an Wu, Jiali Xing, Xiao Liu, Xueshuai Wan, Haifeng Xu, Yiyao Xu, Yilei Mao, Qian Chen, Yating Bai, Mei Guan, Shunda Du

“…Among the 70 patients, the TP53 gene mutation frequency was the highest (53%), while FLG gene mutation occurred exclusively in the long PFS group. …”
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EGFR and MUC1 as dual-TAA drug targets for lung cancer and colorectal cancer by Huilin Cui, Qianqian Yu, Qumiao Xu, Chen Lin, Long Zhang, Wei Ye, Yifei Yang, Sijia Tian, Yilu Zhou, Runzhe Sun, Yongsheng Meng, Ningning Yao, Haizhen Wang, Feilin Cao, Meilin Liu, Jinfeng Ma, Cheng Liao, Ruifang Sun

“…Expression of MUC1 and EGFR in tumors and normal tissues was detected by immunohistochemistry (IHC), bulk transcriptomic and single-cell transcriptomic analyses. …”
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RA-PR058, a novel ramalin derivative, reduces BACE1 expression and phosphorylation of tau in Alzheimer’s disease mouse models by Yongeun Cho, Jeongmi Lee, Jun-Sik Kim, Yeji Jeon, Sukmin Han, Heewon Cho, Yeongyeong Lee, Tai Kyoung Kim, Ju-Mi Hong, Yujeong Lee, Yujung Byun, Minshik Chae, Sunyoung Park, Leon F. Palomera, Sang Yoon Park, Hyunwook Kim, Soyeong Kim, Seongeun Kang, Jun-Goo Jee, Hongchan An, Joung Han Yim, Sung Hyun Kim, Dong-Gyu Jo

“…In vitro studies used SH-SY5Y cells under oxidative stress conditions to assess BACE1 expression, while in vivo effects were studied in 3xTg-AD mice following one month of oral RA-PR058 treatment. …”
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MiR-7 inhibits progression of glioblastoma by impairing autophagy resolution, energy metabolism and ECM remodeling by Marta Torrecilla-Parra, Virginia Pardo-Marqués, Antonio C. Fuentes-Fayos, Miguel E. G-García, Mario Fernández-de Frutos, José L. López-Aceituno, Cristina Puigdueta, Carmen Zamora, Ana Pérez-García, Juan F. Aranda, Rebeca Busto, Manuel D. Gahete, Raúl M. Luque, Cristina M. Ramírez

“…Additional mechanistic approaches, including transcriptomics, bioinformatics, and histopathological analyses, indicate that miR-7 modifies the tumor phenotype by altering key genes involved in extracellular matrix (ECM) remodeling in vivo. …”
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Mechanism of Action of <i>Fusarium oxysporum</i> CCS043 Utilizing Allelochemicals for Rhizosphere Colonization and Enhanced Infection Activity in <i>Rehmannia glutinosa</i> by Feiyue Yuan, Fuxiang Qiu, Jiawei Xie, Yongxi Fan, Bao Zhang, Tingting Zhang, Zhongyi Zhang, Li Gu, Mingjie Li

“…Evolutionary analysis suggests that different <i>F. oxysporum</i> strains may adapt to the host rhizosphere microecosystem by acquiring varying numbers of specific genes while maintaining a constant number of core genes.The allelopathic effects of ferulic acid; verbascoside; and catalpol on <i>F. oxysporum</i> CCS043 were examined at the physiological and transcriptomic levels. …”
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Machine learning-based diagnostic and prognostic models for breast cancer: a new frontier on the clinical application of natural killer cell-related gene signatures in precision me... by Yutong Fang, Rongji Zheng, Yefeng Xiao, Qunchen Zhang, Junpeng Liu, Jundong Wu

“…With the advent of machine learning (ML) techniques, predictive modeling based on NRGs may offer a new avenue for precision oncology.MethodsWe collected transcriptomic and clinical data from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) databases. …”
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Constructing a tumor immune microenvironment-driven prognostic model in acute myeloid leukemia using bioinformatics and validation data by Amir Abbas Navidinia, Ali Keshavarz, Bentol Hoda Kuhestani Dehaghi, Reza Khayami, Najibe Karami, Vahid Amiri, Mehdi Allahbakhshian Farsani

“…RT-qPCR confirmed elevated CD163 in AML (p < 0.001), while MRC1 showed no differential expression. This study establishes a TIME-centric prognostic model with clinical utility for risk stratification and therapeutic targeting in AML. …”
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An alteration in the expression of cell wall structural proteins increases cell surface exposure of adhesins to promote virulence in Candida glabrata by Yaling Zhang, Shengwei Gong, Kang Xiong, Xiangtai Yu, Xinreng Mo, Chang Su, Yang Lu

“…Here, we applied RNA sequencing and an in vivo invasive infection model to elucidate the prompt response of C. glabrata during infection. Fungal transcriptomes show a dramatic alteration in the expression of Srp1/Tip1-family cell wall structural proteins during systemic infection. …”
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Royal Jelly Enhances the Social Status of Submissive Rats by Restoring Balance to the Disturbed Gut–Brain Communication by Feng Zhu, Jinchun Xu, Tian Wang, Ruili Yang, Biao He, Hui-Li Wang, Yi Xu

“…Furthermore, the infection trials of <i>Escherichia</i> significantly degraded the social ranks of the RJ-remedied rats in tube tests, while a series of cerebral genes like <i>Grpr</i> and <i>Grpel1</i>, as well as prefrontal spine density, were concordantly altered, underscoring the critical role of the gut–brain link in deciding the outcomes of the dyadic contests. …”
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The functional and clinical significance of nucleoporin NUP153 across human cancers: a systematic study based on multi-omics analysis and bench work validation by Youfu He, Youfu He, Qing Wang, Zhaorui Wang, Menghui Duan, Yu Zhou, Jing Huang, Qiang Wu, Feichang Wu, Chen Li

“…The relationship between NUP153 expression and immune cell infiltration was evaluated using the TIMER database, while drug sensitivity data were obtained from the GDSC and CTRP databases. …”
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Exploring the Role of Bifenthrin in Recurrent Implantation Failure and Pregnancy Loss Through Network Toxicology and Molecular Docking by Shengyuan Jiang, Yixiao Wang, Haiyan Chen, Yuanyuan Teng, Qiaoying Zhu, Kaipeng Xie

“…The diagnostic model based on these genes exhibited good predictive performance in the RIF cohort and was successfully validated in the RPL cohort. Single-cell transcriptomic analysis revealed a significant increase in the proportion of myeloid cells in RPL patients, while immune infiltration analysis showed a consistent downregulation of M2 macrophages in both RIF and RPL. …”
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The Development and Assessment of a Unique Disulfidptosis-Associated lncRNA Profile for Immune Microenvironment Prediction and Personalized Therapy in Gastric Adenocarcinoma by Jiyue Zhu, Xiang Zhu, Tingting Su, Huiqing Zhou, Shouhua Wang, Weibin Shi

“…<b>Methods:</b> Clinical records and transcriptomic datasets from individuals with GC were acquired from The Cancer Genome Atlas (TCGA) repository. …”
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Genome-wide identification, characterization, and expression analysis of the MADS-box gene family in grass pea (Lathyrus sativus) under salt stress conditions by Mohamed Abdelsattar, Ahmed E. Nassar, Khaled H. Mousa, Ahmed Hussein, Manal M. S. El-Baghdady, Khaled H. Radwan, Manar S. Ibrahim, Achraf El Allali, Aladdin Hamwieh, Alsamman M. Alsamman, Zakaria Kehel

“…Protein-protein interaction analysis revealed extensive interactions among type II MADS-box genes, while enrichment analysis showed their involvement in various aspects of plant life, particularly floral organ development. …”
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Proteomic Analysis Reveals That Dietary Supplementation with Fish Oil Enhances Lipid Metabolism and Improves Antioxidant Capacity in the Liver of Female <i>Scatophagus argus</i> by Jingwei He, He Ma, Dongneng Jiang, Tuo Wang, Zhiyuan Li, Gang Shi, Yucong Hong, Chunhua Zhu, Guangli Li

“…These proteomic findings align with prior transcriptomic data, indicating that dietary fish oil enhances hepatic lipid metabolism, mitigates oxidative stress, and strengthens antioxidant capacity. …”
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Transcriptional regulatory network analysis of microglia in multiple sclerosis by CAI Qiangwei, SUN Feng, WU Wenyu, SHAO Fuming, GAO Zhengliang, JIN Shengkai

“…The results of GO and KEGG pathway analysis showed that in gray matter microglia, functions such as endocytosis, ion homeostasis, and lipid localization were downregulated during disease progression, while in white matter microglia, functions such as protein folding, cytoplasmic translation, and response to thermal stimuli were upregulated. …”
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Identification and Validation of Ferritinophagy-Related Biomarkers in Periodontitis by Yi-Ming Li, Chen‑Xi Li, Reyila Jureti, Gulinuer Awuti

“…ABSTRACT: Objective: While ferritinophagy is believed to play a significant role in the development of periodontitis, the exact mechanisms remain unclear. …”
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Regulation of cortical neurogenesis by MED13L via transcriptional priming and its implications for MED13L syndrome by Jia Li, Yu-zhu Hao, Jia Cui, Xiao-xiao Cao, Nan Wu, Ji Ma, Shuang-yi Xie, Yi-Hsuan Pan, Xue-lian He, Yu-lan Zhao, Xiao-Bing Yuan

“…To address this gap, we generated a gene knockout mouse model of MED13L syndrome. While homozygous Med13l knockout exhibit neonatal lethality accompanied by reduced brain volume and cortical thickness, heterozygous mice are viable and display hallmarks of MED13L syndrome, including impaired learning and memory, reduced motor coordination, and heightened anxiety. …”
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Single-cell sequencing and machine learning reveal the role of dioxin-interacting genes in HCC prognosis and immune microenvironment by Senyan Wang, Qi Liu, Xiaoyan Sun, Minghui Hou, Wenjuan Wei, Hao Song, Jing Xu, Danyang Lu, Jing Fu, Xiaofang Zhao, Hongyang Wang

“…High-risk patients exhibited increased cell proliferation and aggressive tumor traits, while low-risk patients showed better metabolic stability and immune surveillance. …”
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Bisphenol S interrupted axonogenesis on a human embryonic stem cells derived neural differentiation model: Conserved axon guidance and WNT signaling pathway involved by Wanqing Guo, Wei Xiong, Liang Wang, Xiaoya Wang, Yongru Zhou, Yili Chen, Xiaomeng Li, Lishi Zhang, Mengmei Ni, Jinyao Chen

“…Overall, our findings indicated the non-monotonic neurodevelopmental toxicity of BPS exposure, and the inhibition of axonogenesis was possibly mediated by conserved axon guidance and WNT signaling pathway, while neuro-immune related pathway should be further investigated.…”
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STS2 deficiency revives CD8+T cells from exhaustion and augments checkpoint blockade efficacy in cancer immunotherapy by Chunxiao Li, Fei Ma, Ying Zhang, Ting Wang, Hongnan Mo, Ning Zhong, Dongkui Xu, Fangzhou Sun, Yantong Zhou, Jianbin Guo, Zhenguo Zhao, Xiaoqi Yang, Haili Qian

“…CD8+ tumor-infiltrating lymphocytes (TILs) were characterized through flow cytometry, mass cytometry, and single-cell transcriptomics. Mechanistic studies included co-immunoprecipitation, protein degradation assays, and endocytosis measurements to elucidate the interplay between STS2 and PD-1.Results STS2 expression progressively increased with T-cell exhaustion. …”
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