Integrated multi-omics analysis and functional validation uncovers RPL26 roles in regulating growth traits of Asian water buffaloes (Bubalus bubalis) by Yangyang Shen, Zhenjiang An, Linna Gao, Mingfa Gu, Shuwen Xia, Qiang Ding, Yinxia Li, Shaoxian Cao, Jianbin Li, Jinming Huang, Jifeng Zhong, Kunlin Chen, Xiao Wang, Huili Wang

“…Abstract Background Asian water buffaloes (Bubalus bubalis) in the Yangtze River Basin of China are the important meat provider for local residents because of its outstanding body size. …”
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Metabolic state uncovers prognosis insights of esophageal squamous cell carcinoma patients by Tingze Feng, Pengfei Li, Siyi Li, Yuhan Wang, Jing Lv, Tian Xia, Hoy-Jong Lee, Hai-Long Piao, Di Chen, Yegang Ma

“…This study is the first to comprehensively map the metabolic landscape of the ESCC microenvironment by integrating an MPI network with multi-scale transcriptomics data. Methods First, we characterized the metabolic states of cells in ESCC using single-cell transcriptome profiles of key metabolite-interacting proteins. …”
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SETDB1 knockdown boosts recombinant protein in CHO cells via epigenetic transcriptional silencing by Jiang-Tao Lu, Miao Zhang, Yan-Ping Gao, Lu-Lu Yang, Zhao-Ming Cui, Ming-Ming Han, Xi Zhang, Hong-Yan Xu, Xiao-Yin Wang, Le-Le Qiu, Zi-Chun Hua, Tian-Yun Wang, Yan-Long Jia

“…These findings elucidate SETDB1's regulatory role in CHO cells and provide actionable insights for the optimisation of recombinant protein production through cell engineering strategies.…”
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Vortioxetine exhibits anti-glioblastoma activity via the PI3K-Akt signaling pathway by Huan-Qi Zhang, Dao-Ming Zhang, Zhi-Zhen Huang, Jing Cheng, Chong Zhang, Neng-Ming Lin, Yang-Ling Li

“…RNA sequencing uses the capabilities of high-throughput sequencing methods to provide insight into the transcriptome of cells.Results: Vortioxetine significantly inhibited the proliferation of GBM cells by inducing G1/G0 phase cell cycle arrest. …”
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Cysteine-Mediated Root Growth Promotion in Strawberry (<i>Fragaria × ananassa</i>) Induced by <i>TgSWO</i>-Overexpressing <i>Trichoderma</i> by Xiaohui Meng, Yuanhua Wang, Xu Zhang, Hongjun Yang, Yilei Lu, Ye Xu, Xiong Zhang, Zhiming Yan

“…This study highlights the potential of genetically enhanced <i>Trichoderma</i> for improving strawberry growth and provides new insights into root–microbe interactions and metabolite-mediated plant development.…”
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Genome-wide identification and expression pattern analysis of auxin response factor (ARF) genes in Chionanthus retusus and functional characterization of CrARF37 in terms of its ef... by Jinnan Wang, Liyang Guo, Ying Li, Yuzhu Wu, Mengmeng Wang, Shicong Zhao, Xu Xu, Jihong Li

“…Conclusion Based on gene family analysis, transcriptome gene co-expression network, and transgenic functional validation, we identified three ARF genes that may be associated with differences in C. retutus flower morphology. …”
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Genome-wide identification of the P4ATPase gene family and its response to biotic and abiotic stress in soybean (Glycine max L.) by Jingjing Wei, Gaoyang Zhang, Huanhuan Lv, Saidi Wang, Xingyu Liu, Yanli Qi, Zhongke Sun, Chengwei Li

“…Conclusion In summary, genome-wide identification and evolutionary and expression analyses of the GmALAs gene family in soybean were conducted. Our work provides an important theoretical basis for further understanding GmALAs in biological functional studies.…”
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FLL2 modulates Arabidopsis development and stress tolerance via polyadenylation and CPSF73 interaction by Saiqi Hao, Danhui Zhao, Congting Ye, Haidong Qu, Xiangming Zhou, Qingshun Q. Li

“…Using poly(A) tag sequencing (PAT-seq) to compile poly(A) sites at the transcriptome level, we discovered 2.2%–12.8% of significant differentially expressed alternative polyadenylation (APA) events were changed in sof78, upon AN3661 or oxidative treatment. …”
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Aluminum Stress of Oriental Melon (<i>Cucumis melo</i> L.) Is Linked to the Dehydrin <i>CmDHN3</i> by Chong Zhang, Qiang Chen, Xinqi Guo, Hongbo Pang, Ying Zhang

“…These results clarify the pathway by which dehydrin genes are involved in the transcriptional-level response of melon to aluminum stress and provide a theoretical basis to comprehensively analyze the functions of this gene family in <i>cucurbit</i> crops.…”
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Unraveling anoikis in glioblastoma: insights from single-cell sequencing and prognostic modeling by Qikai Tang, Chenfeng Ma, Jiaheng Xie, Qixiang Zhang, Bingtao Zhang, Weiqi Bian, Qingyu Lu, Zeyu Wan, Wei Wu

“…Methods Utilizing single-cell sequencing and bulk-transcriptome sequencing data from TCGA, GEO, and CGGA databases, we performed comprehensive bioinformatics analyses. …”
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Chromosome‐level genome assembly of Iodes seguinii and its metabonomic implications for rheumatoid arthritis treatment by Xun Gong, Hantao Zhang, Yinluo Guo, Shaoshuai Yu, Min Tang

“…The discovery of luteolin, in particular, underscores its potential therapeutic role. These findings provide a valuable genomic resource and a scientific basis for the development and application of I. seguinii, addressing the genomic gap in the genus Iodes and the order Icacinales and underscoring the need for further research in genomics, transcriptomics, and metabolomics to fully explore its potential.…”
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Histological morphology and gene expression in the digestive system of Procambarus clarkii by Zonglin Yang, Jingjing Hao, Yufei Liu, Xugan Wu, Xiaowu Chen

“…To unravel the intricate morphological structure and functional aspects of the digestive system in Procambarus clarkii, this study employed histology and transcriptome sequencing techniques for a comprehensive analysis of its digestive system. …”
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Therapeutic Target Discovery for Multiple Myeloma: Identifying Druggable Genes via Mendelian Randomization by Shijun Jiang, Fengjuan Fan, Qun Li, Liping Zuo, Aoshuang Xu, Chunyan Sun

“…Causal candidates were further validated using a single-tissue transcriptome-wide association study (TWAS), and colocalization analysis was conducted to assess shared genetic signals between gene expression and disease risk. …”
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Identification and Expression Pattern Analysis of Odorant Receptor Family Genes of Tuta absoluta by Zhonglin ZHOU, Gang LIAO, Tingting XIANG, Zhongxiang SUN

“…【Objective】To identify the number and evolutionary relationships of odorant receptor (OR) family genes in the olfactory system of Tuta absoluta, analyze their expression patterns across different developmental stages, and provide insights for pest control strategies.【Method】OR family genes were identified at the genomic level using TBtools and BITACORA software, leveraging the genome sequence of T. absoluta. …”
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Genome-wide identification of pyrabactin resistance 1-like (PYL) gene family under phytohormones and drought stresses in alfalfa (Medicago sativa) by Kun Wang, Jiao Cheng, Jing-Ru Chen, Yan-Yan Luo, Yu-Heng Yao, Li-Li Nan

“…MsPYL genes contains cis-acting elements that has functions in plant growth and development, hormone regulation, and stress response. Furthermore, transcriptome data showed that drought stress affected the MsPYL genes’ expression levels in alfalfa. …”
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The induction effect of hydroxyurea and metformin on fetal globin in the K562 cell line by Mohammad Eini, Hossain Safarpour, Ebrahim Miri-Moghddam

“…Leveraging this information, we aimed to predict the transcriptome network and elucidate the mechanism of action of HU and Metformin (Met) on this network comprehensively. …”
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Multi-omics profiling reveals single-seed mutants of Ephedra saxatilis as dominant variants in high-altitude Xizang by Mengnan Lu, Shiyan Wang, Yonghong Zhou, Xiaona Wang, Hao Su, Yanbing Gong, Ji De

“…Co-expression network analysis integrating transcriptome and hormone data predicted 23 key genes regulating seed germination adaptation. …”
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Development of an alkaliptosis-related lncRNA risk model and immunotherapy target analysis in lung adenocarcinoma by Xiang Xiong, Wen Liu, Chuan Yao

“…In this study, we constructed a model related to alkaliptosis-associated long non-coding RNAs (lncRNAs) and developed a prognosis-related framework, followed by the identification of potential therapeutic drugs.MethodsThe TCGA database was utilized to obtain RNA-seq-based transcriptome profiling data, clinical information, and mutation data. …”
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Leptin receptor signaling mediates the distinct tendon–bone interface reconstruction in rotator cuff tears and osteoporosis-comorbid rotator cuff tears by Dongxu Zhu, Xinrui Zhu, Yingze Zhang, Xiaohong Huang

“…And, grip strength, transcriptome, ELISA, histochemistry, and qPCR were performed to reveal the distinct functional recovery between RC and OVX + RC rats, as well as pathophysiologic exhibition in the TBI at 2-week and 8-week. …”
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Genome-wide cataloging and orthology analysis of long noncoding RNA expression in three species of Anopheles mosquito by Waseem Akram Malla, Kuldeep Singh, Niha Ayman, Chandini Boro, Naorem Chaoba Devi, Priyanka Mech, Nida Siddiqui, Anupkumar R. Anvikar, Praveen Kumar Bharti

“…Methodology We performed de novo transcriptome assembly of Anopheles minimus, Anopheles albimanus, and Anopheles arabiensis utilising publicly available RNA-Seq datasets of male reproductive tissues, male carcasses, female reproductive tissues, and female carcasses. …”
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