Varied cellular abnormalities in thin vs. normal endometrium in recurrent implantation failure by single-cell transcriptomics by Xiaoying Fu, Xiaoyan Guo, Han Xu, Yini Li, Bihui Jin, Xirong Zhang, Chongyi Shu, Yuhang Fan, Yiqi Yu, Yuqing Tian, Jiao Tian, Jing Shu

“…Scanning and transmission electron microscopy were employed to visualize ultrastructural details of the endometrial tissue, while hematoxylin and eosin staining facilitated the examination of tissue morphology and cellular composition. …”
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Integrating genome‐ and transcriptome‐wide association studies to uncover the host–microbiome interactions in bovine rumen methanogenesis by Wei Wang, Zhenyu Wei, Zhuohui Li, Jianrong Ren, Yanliang Song, Jingyi Xu, Anguo Liu, Xinmei Li, Manman Li, Huimei Fan, Liangliang Jin, Zhannur Niyazbekova, Wen Wang, Yuanpeng Gao, Yu Jiang, Junhu Yao, Fuyong Li, Shengru Wu, Yu Wang

“…Here, we uncover the host genetic basis of rumen microorganisms by genome‐ and transcriptome‐wide association studies with matched genome, rumen transcriptome, and microbiome data from a cohort of 574 Holstein cattle. …”
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Spatially resolved transcriptomic signatures of hippocampal subregions and Arc-expressing ensembles in active place avoidance memory by Isaac Vingan, Shwetha Phatarpekar, Victoria Sook Keng Tung, Alejandro Iván Hernández, Alejandro Iván Hernández, Alejandro Iván Hernández, Oleg V. Evgrafov, Oleg V. Evgrafov, Oleg V. Evgrafov, Oleg V. Evgrafov, Juan Marcos Alarcon, Juan Marcos Alarcon, Juan Marcos Alarcon

“…Within samples from both trained and untrained mice, the subpopulations of spatial transcriptomic spots marked by these IEGs were transcriptomically and spatially distinct from one another. …”
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Transcriptome sequencing and Mendelian randomization analysis identified biomarkers related to neutrophil extracellular traps in diabetic retinopathy by Linlin Hao, Songhong Wang, Lian Zhang, Lian Zhang, Jie Huang, Yue Zhang, Xuejiao Qin

“…Among them, CLIC3, GBP2, and P2RY12 were identified as risk factors for DR, while HOXA1 and PSAP were protective. These key genes demonstrated strong diagnostic performance for DR. …”
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Transcriptome analysis of insecticide resistance mechanisms in field populations of the bean flower thrips, Megalurothrips usitatus (Bagnall) by Hongyi Cao, Jiangjiang Yuan, Yanran Wan, Yingxi Tang, Xiaobin Zheng, Jing Wang, Kanghua Qian, Jiuming Feng, Sirui Chen, Youjun Zhang, Qingjun Wu

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Integration of GWAS and transcriptomic analyses reveal candidate genes for duck gonadal development during puberty onset by Mengru Xu, Qian Tang, Jingjing Qi, Xu Han, Qiuyu Tao, Yinjuan Lu, Yuan Bai, Shenqiang Hu, Liang Li, Lili Bai, Jiwei Hu, Jiwen Wang, Hehe Liu

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Single-Cell RNA Transcriptomics and Multi-omics Analyses Reveal the Clinical Effects of Acupuncture on Methadone Reduction by Yiming Chen, Baochao Fan, Jingchun Zeng, Yutian Zou, Chenyang Tao, Chen Chen, Peiming Zhang, Jian Liang, Fangfang Qi, Hailin Tang, Liming Lu

“…The results showed that bile acid exposure suppressed galectin-9 and IFN-γ expression, while low-dose bile acid (simulating acupuncture effects) partially reversed this effect. …”
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Transcriptomic miRNA and mRNA signatures in primary prostate cancer that are associated with lymph‐node invasion by Matias A. Bustos, Kelly K. Chong, Yoko Koh, SooMin Kim, Eleanor Ziarnik, Romela I. Ramos, Gianna Jimenez, David L. Krasne, Warren M. Allen, Timothy G. Wilson, Dave S. B. Hoon

“…Abstract Background Nomograms or comparable techniques can be used to determine which patients with prostate cancer (PCa) will benefit from extended pelvic lymph node dissection (ePLND). While nomograms help guide clinical decisions, ∼80% of the patients undergo unnecessary ePLND. …”
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Comparative transcriptome analysis reveals molecular mechanisms of resistance in Chinese cabbage to Plasmodiophora brassicae pathotype 11 by Yue Qiu, Yue Qiu, Yue Qiu, Jinhao Zhang, Jinhao Zhang, Chunju Deng, Chunju Deng, Jiasheng Yuan, Jiasheng Yuan, Bowen Wang, Bowen Wang, Han Meng, Han Meng, Mohamed Mohany, Liting Zeng, Liting Zeng, Lanfang Wei, Lanfang Wei, Waqar Ahmed, Guanghai Ji, Guanghai Ji

“…Microscopic analysis at 21 dai revealed that the resistant cultivar (JP) root structure remained largely unaffected, while the roots of the susceptible cultivar (83-1) exhibited significant tissue distortion and gall formation, underscoring the effectiveness of the resistance mechanisms. …”
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Transcriptomic comparison analysis across seven developmental stages of the Triatoma rubrofasciata, a vector of Chagas disease by Lei Duan, Yunjia Tian, Ziyi Wang, Limin Yang, Yunhai Guo, Yuanyuan Li, Zhengbin Zhou, Yong Shen, Yi Zhang, Qin Liu

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Ultrasmall epibiont Nanosynbacter lyticus strain TM7x and host bacteria transcriptional activity after initial host parasitism by Erik L Hendrickson, Batbileg Bor, Kristopher A. Kerns, Lujia Cen, Wenyuan Shi, Xuesong He, Jeffrey S McLean

“…XH001 showed increased expression for rhamnose cell wall components and for the precursor to peptidoglycan while TM7× showed increases in the peptidoglycan pathway. …”
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RNA-seq analysis of small intestine transcriptional changes induced by starvation stress in piglets by Yijia Ma, Tong Guo, Jianqin Ding, Zhiling Dong, Yifei Ren, Chang Lu, Yan Zhao, Xiaohong Guo, Guoqing Cao, Bugao Li, Pengfei Gao

“…Interestingly, the immune capacity (CHUK, TLR3) of MS piglets increased significantly after short-term starvation stress, while energy metabolism (NAGS, PLA2G12B, AGCG8) was predominant in LW piglets. …”
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Integrated Analyses Reveal the Physiological and Molecular Mechanisms of Brassinolide in Modulating Salt Tolerance in Rice by Jia-Shuang Wu, De-Wei Mu, Nai-Jie Feng, Dian-Feng Zheng, Zhi-Yuan Sun, Aaqil Khan, Hang Zhou, Yi-Wen Song, Jia-Xin Liu, Jia-Qi Luo

“…In this study, the Chaoyouqianhao and Huanghuazhan rice varieties were employed to investigate the effects of BR seed soaking on the seedling phenotype, physiology, transcriptome, and metabolome under salt stress. The results demonstrated that BR treatment significantly enhanced rice plant height, root length, biomass, and antioxidant enzyme activities, while reducing leaf membrane damage, promoting ion homeostasis, and improving the photosynthetic capacity and salt tolerance. …”
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Comparative Transcriptomic Analysis Between High- and Low-Growth-Rate Meat-Type Rabbits Reveals Key Pathways Associated with Muscle Development by Chao Yang, Lingxi Zhu, Li Tang, Xiangyu Zhang, Min Lei, Xiaohong Xie, Cuixia Zhang, Dingsheng Yuan, Congyan Li, Ming Zhang

“…The results showed the body weight of Ju rabbit was significantly higher than that of Ma rabbit beyond 3 weeks post-natal (<i>p</i> < 0.05), while Ma rabbit exhibited larger muscle fiber areas in both tissues at 56 days (<i>p</i> < 0.05). …”
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Two-Sample Mendelian Randomization Study Identifies Tissue-Dependent Risk Genes in Autoimmune Diseases by Ryan Chiu, Li Ma

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Transcriptional patterns of cancer-related genes in primary and metastatic tumours revealed by machine learning by Faeze Keshavarz-Rahaghi, Erin Pleasance, Steven J. M. Jones

“…Exploring the interactions between genomic aberrations and the expressed transcriptome can not only improve our understanding of the disease but also identify potential therapeutic approaches. …”
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Bacillus velezensis 20507 promotes symbiosis between Bradyrhizobium japonicum USDA110 and soybean by secreting flavonoids by Yunqing Cheng, Xingtong Jiang, Xinyi He, Zhaoyang Wu, Qiang Lv, Shuang Zhao, Xinyue Zhang, Shuai Wang, Hongli He, Jianfeng Liu

“…IntroductionWhile co-inoculation with rhizobia and plant growth-promoting rhizobacteria (PGPR) can enhance soybean growth and nodulation, the interaction mechanisms between Bacillus velezensis 20507 and Bradyrhizobium japonicum USDA110 under varying nitrogen (N) supply levels (0–10 mmol/L) remain unclear. …”
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Effect of consuming blood-substitute feed on the transcriptome of the medicinal leech, Hirudo orientalis Utevsky and Trontelj, 2005 (Clitellata: Hirudinida) by Abbas Torabian, Majidreza Khoshkholgh, Sajad Nazari

“…While leeches in the genus Hirudo have long been models for neurobiology, the molecular underpinnings of nervous system structure and function in this group remain largely unknown. …”
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A deep insight into the sialome of the house fly, Musca domestica, infected with the salivary gland hypertrophy virus (MdSGHV) by Stephen Lu, Noa Miller, Adrian Wilson, Christopher J. Geden, John G. Stoffolano, Jose M. C. Ribeiro

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CD20, CTLA4, CXCL9, IL18RAP, IL-6, SOCS2, and TNF as potential biomarkers for rheumatoid arthritis disease progression: Systematic review of RNA-seq studies by Jairo Javier Jattin Balcázar, Daniel Felipe Galeano Sánchez, Gerardo Quintana López

“…Most biomarkers described were related to disease progression (61 %), while the most common analysis and tissue studied were principal component analysis (52 %) and blood (39 %), respectively. …”
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