Exploring Gene Expression and Alternative Splicing in Duck Embryonic Myoblasts via Full-Length Transcriptome Sequencing by Jintao Wu, Shuibing Liu, Dongcheng Jiang, Ya’nan Zhou, Hongxia Jiang, Xiaoyun Xiao, Boqian Zha, Yukai Fang, Jie Huang, Xiaolong Hu, Huirong Mao, Sanfeng Liu, Biao Chen

“…Additionally, we constructed a protein–protein interaction network that highlighted critical regulators—<i>MYOM3</i>, <i>MYL2</i>, <i>MYL1</i>, <i>TNNI2</i>, and <i>ACTN2</i>—associated with the processes of proliferation and differentiation in myoblasts. This extensive transcriptomic investigation not only sheds light on the intricate molecular mechanisms driving skeletal muscle development in ducks but also provides significant insights for future breeding strategies aimed at enhancing the efficiency of duck production. …”
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Comparative transcriptome profile analysis of granulosa cells from porcine ovarian follicles during early atresia by Jinbi Zhang, Xinxin Qin, Caixia Wang, Yuge Zhang, Yizhe Dou, Shiyong Xu, Jingge Liu, Zengxiang Pan

“…Additionally, the interaction network of DEGs (p < 0.01; FDR < 0.05) using STRING highlighted LHR, ACACB, and CXCR4 as central nodes. In summary, this transcriptome analysis enriched our knowledge of the shifted mechanisms in granulosa cells during early atresia and provided novel perspectives into the atresia initiation.…”
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Effect of different pruning operations on the plant growth, phytohormones and transcriptome profiles of the following spring tea shoots by Lu Lu, Wenwen Luo, Yanan Zheng, Jing Jin, Ruyi Liu, Yiqing Lv, Ying Ye, Jianhui Ye

“…The effects of different pruning operations on the plant growth, phytohormones and transcriptome profiles of the following spring tea shoots were studied. …”
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Integrated Transcriptome and Metabolome Analysis Reveals Candidate Genes and Regulatory Pathways Shaping Duck Meat Color by Shuaixue Jiang, Zhao Yang, Yinjuan Lu, Tao Zhang, Mengru Xu, Xu Han, Qiuyu Tao, Yuan Bai, Xinxin He, Bo Han, Junsheng Zhu, Liang Li, Anqi Huang, Lili Bai, Jiwei Hu, Hehe Liu

“…To explore the molecular mechanisms affecting duck pectoralis meat color, the phenotypic traits of Cherry Valley duck (CV, eight males and eight females) and Huai Fu duck (HF, eight males and eight females) were compared; three males and three females of each variety were later selected for transcriptomic and metabolomic analyses to reveal key molecular processes. …”
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Potential antibacterial effects and transcriptomic analysis of a novel reversible photoacid-based crystalline coordination polymer by Chenhua Zheng, Yaying Zheng, Binjie Wu, Yuyan Zheng, Shuye Yu, Rui Qiu, Wanling Chen, Xin Chen, Longze Li, Jianzhen Liao, Fen Hu

“…SEM revealed that the material disrupted cell membrane integrity, leading to cell death. Transcriptomic analysis showed that the material inhibited bacterial protein synthesis, disrupted cell membrane protein synthesis, and downregulated oxidative stress-related genes, causing ROS accumulation and inhibiting cell growth.DiscussionThese findings provide a theoretical basis for the potential clinical application of this material as a new antibacterial agent. …”
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Integrating transcriptomic data with a novel drug efficacy prediction model for TCM active compound discovery by Yingcan Li, Yu Shen, Yezi Cai, Yulin zhang, Jiahui Gao, Lei Huang, Weinuo Si, Kai Zhou, Shan Gao, Qichao Luo

“…In addition, biological experiments are directly used to demonstrate that Meta-DEP can mined active compound from traditional Chinese medicine with integrating disease transcriptomic data. Overall, the model developed in this study provides new impetus for driving the natural compound into innovative lead molecule. …”
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The Transcriptomic Signature of Donkey Ovarian Tissue Revealed by Cross-Species Comparative Analysis at Single-Cell Resolution by Yu Tian, Yilin Niu, Xinhao Zhang, Tao Wang, Zhe Tian, Xiaoyuan Zhang, Jiachen Guo, Wei Ge, Shuqin Liu, Yujiang Sun, Jianjun Li, Wei Shen, Junjie Wang, Teng Zhang

“…Collectively, these findings provide a comprehensive characterization of ovarian cell-type conservation and species-specific adaptations, offering key molecular insights into the mechanisms underlying cross-species differences in reproductive efficiency.…”
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Transcriptomics as an Early Warning of Domoic Acid Exposure in Pacific Razor Clams (<i>Siliqua patula</i>) by Lizabeth Bowen, Shannon Waters, Brenda Ballachey, Heather Coletti, Zachary Forster, Jie Li, Bradley Jenner

“…Targeting these genes in real-time PCR assays may provide an early warning system for routine monitoring of DA in clams. …”
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Temporal dynamics of the bat wing transcriptome: Insight into gene-expression changes that enable protection against pathogen by Aoqiang Li, Haixia Leng, Zhongle Li, Longru Jin, Keping Sun, Jiang Feng

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Transcriptome and Metabolome Analysis of the Leaf Colour Mutation Mechanism in a Light-Green Leaf Mutant of Maize by Dan Li, Kuangzheng Qu, Dianrong Ma, Zhenxing Zhu, Xiaochun Lu

“…Through integrated transcriptomic and metabolomic profiling, we identified differentially expressed genes (DEGs) and differentially abundant metabolites associated with the <i data-eusoft-scrollable-element="1">zmpgl</i> phenotype. …”
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Biomarkers associated with cell-in-cell structure in kidney renal clear cell carcinoma based on transcriptome sequencing by Zehua Wang, Zhongxiao Zhang

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Effects of Geraniol on Survival, Reproduction, Endophytes, and Transcriptome of Tea Green Leafhoppers (<i>Empoasca onukii</i>) by Junjie Tian, Hainuo Hong, Shiliang Mo, Shiqin Mo, Hongliang Shi, Juan Shi, Ying Zhou

“…This study enhances our understanding of the insect-resistant mechanisms of HIPVs and provides new insights into environmentally sustainable pest management strategies for tea plantations.…”
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Transcriptome Profiles Reveal that Phytohormone Signal Transduction-related miRNA Regulates Xenia in Rabbiteye Blueberry by Zhichao Xu, Qin Yang, Xingyu Lu, Zhuang Wen, Zhihong Gao

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Transcriptomic profile of the northern hard clam (Mercenaria mercenaria) in response to short-term low salinity exposure by Leslie S. Youtsey, Kimberly S. Reece, Richard A. Snyder, Jan R. McDowell

“…RNA sequencing data from either gill tissue (adults) or pooled whole-body tissue (juveniles) were used to assess the transcriptomic response of clams to short-term low salinity stress. …”
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Characterization of canine tumor-infiltrating leukocyte transcriptomic signatures reveals conserved expression patterns with human osteosarcoma by Dylan T. Ammons, R. Adam Harris, Lyndah Chow, Steven Dow

“…Through computational analysis we investigated the differences in cell type proportions and how the OS TME impacted infiltrating immune cell transcriptomic profiles relative to circulating leukocytes. …”
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Stage-Specific Transcriptomic Insights into Seed Germination and Early Development in <i>Camellia oleifera</i> Abel. by Zhen Zhang, Caixia Liu, Ying Zhang, Zhilong He, Longsheng Chen, Chengfeng Xun, Yushen Ma, Xiaokang Yuan, Yanming Xu, Rui Wang

“…In this study, we examined transcriptomic and physiological changes across five defined germination stages (G0–G4), from radicle dormancy to cotyledon emergence. …”
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Integrating transcriptome and metabolomics revealed the key metabolic pathway response of Amaranthus retroflexus L. to the resistance to fomesafen. by Weifeng Song, Qinghui Wei, Zhenghao Shi, Yaqing Pan, Zhiyong Li, Fangyuan Wang

“…Therefore, comprehensive analysis of transcriptome and metabolome is needed to determine the key metabolic pathways and key genes of Amaranthus retroflexus L.…”
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Integrative Single-Cell Transcriptomics and Network Modeling Reveal Modular Regulators of Sheep Zygotic Genome Activation by Xiaopeng Li, Peng Niu, Kai Hu, Xueyan Wang, Fei Huang, Pengyan Song, Qinghua Gao, Di Fang

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Analysis of immune infiltration in basal cell carcinoma based on transcriptome sequencing and experimental validation of diagnostic biomarkers by Pengfei Fan, Yun Liu, Tengxiao Ma, Qiaoxing Wang, Lei Li

“…Methods Differentially expressed genes (DEGs) were identified from the transcriptome data of 30 BCC patients and 16 controls from the GSE7553, GSE103439, and GSE42109 datasets. …”
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Identification of druggable targets in acute kidney injury by proteome- and transcriptome-wide Mendelian randomization and bioinformatics analysis by Jiachen Liu, Dianjie Zeng, Yinhuai Wang, Fei Deng, Shuiqing Wu, Zebin Deng

“…Expression patterns of these targets were examined using bulk transcriptome and single-cell transcriptome data. In addition, drug repurposing analyses were conducted to explore the potential of existing medications. …”
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