Temporal dynamics of the multi-omic response reveals the modulation of macrophage subsets post-myocardial infarction by Yuan Wu, Panting Wei, Bin Li, Jiaqi He, Ting Zhou, Qingbin Hou, Yunhao Yu, Jingjin Hou, Chenghui Yan, Yaling Han

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Therapeutic effects and mechanism analysis of Paeonia lactiflora extract (PLE) in menopausal rats with hot flashes by Weilin Cui, Tingting Song, Dongmei Gao, Xiaoyu Wang, Ya Sun, Liyu Fu, Yichao Han, Jieqiong Wang

“…However, its pharmacologic mechanism is unclear.Aim of the studyThis study aims to comprehensively evaluate the effect of PLE on menopausal hot flashes, and to analyze the mechanism of action of PLE in the treatment of menopausal hot flashes from the perspective of neural pathways, to provide a research strategy and experimental basis for the study of similar new drugs and the pathogenesis of MPS.Materials and methodsFirst, we screened menopausal rats through the natural aging model. …”
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Direct and Indirect Methods for Studying Human Gut Microbiota by V. T. Ivashkin, O. S. Medvedev, E. A. Poluektova, A. V. Kudryavtseva, I. R. Bakhtogarimov, A. E. Karchevskaya

“…Measurement of short chain fatty acids (SCFA) concentrations in plasma provides the data, which can serve as an indirect biomarker of the colonic microbiota composition. …”
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The Study of <i>Metschnikowia pulcherrima</i> E1 in the Induction of Improved Gray Spot Disease Resistance in Loquat Fruit by Xiaoya Li, Kunkun Wu, Xin Li, Yuhao Zhao, Weihong Sun

“…The Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis highlighted enrichment in plant–pathogen interactions, glutathione metabolism, and phenylpropanoid biosynthesis. These findings provided molecular insights into yeast-induced resistance, bridging biocontrol applications with mechanistic studies.…”
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Identification of cell-type-specific, transcriptionally active transposable elements using long-read RNA-sequencing data-based comprehensive annotation by Chaemin Lim, Hyunsu An, Jihwan Park

“…Researchers can use our TE reference annotation to analyze active TE transcripts and their splicing isoforms in specific transcriptome datasets and to detect de novo TE transcripts. …”
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Biodegradation of high-molecular-weight polycyclic aromatic hydrocarbons by a novel species of the genus Devosia isolated from the deep-sea region of the Kermadec Trench by Zefei Wang, Shanshan Zhao, Shanshan Zhao, Gen Chen, Shiwei Sun, Yue Liu, Haixin Chen, Liang Meng, Zhuang Han, Daoqiong Zheng

“…These findings not only provide novel insights into the ecological roles of the genus Devosia, but also highlight the potential of this new species for PAH bioremediation applications.…”
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Gene Expression Comparison Between the Injured Tubercule Skin of Turbot (<i>Scophthalmus maximus</i>) and the Scale Skin of Brill (<i>Scophthalmus rhombus</i>) by João Estêvão, Andrés Blanco-Hortas, Juan A. Rubiolo, Óscar Aramburu, Carlos Fernández, Antonio Gómez-Tato, Deborah M. Power, Paulino Martínez

“…RNA-seq was also performed on the brill samples to improve transcriptome characterization and validate the microarray results. …”
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The molecular mechanism and utilization of ZmMs7-mediated dominant nuclear sterility in Oryza sativa L by Yusheng Xu, Yusheng Xu, Dingyang Yuan, Meijuan Duan

“…This article aims to utilize dominant nuclear male sterile lines, which were created through the ectopic expression of ZmMs7 in the genetic background of rice, for the purpose of heterosis utilization.MethodsAt the same time, we conducted a study on the spatiotemporal expression characteristics of ZmMs7, performed transcriptome analysis, and implemented yeast two-hybrid experiments to elucidate its molecular regulatory mechanisms in mediating dominant nuclear male sterility in rice.ResultsThe results confirm the successful construction of a dominant nuclear male-sterile (NMS) vector system (p5126-ZmMs7-DsRed) using the exogenous male-sterile gene ZmMs7. …”
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consHLA: a next generation sequencing consensus-based HLA typing workflow by Rachel Bowen-James, Weilin Wu, Marie Wong-Erasmus, Julian M. W. Quinn, Chelsea Mayoh, Mark J. Cowley

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Weighted Gene Correlation Network Analysis Reveals Key Regulatory Genes Influencing Selenium Enrichment and Yield with Exogenous Selenite in Tartary Buckwheat by Xueling Ye, Linsen Mei, Zhen Gan, Zhiqiang Wang, Wenjun Sun, Yu Fan, Changying Liu, Qi Wu, Yan Wan, Xiaoyong Wu, Dabing Xiang

“…It also revealed the regulatory genes responding to selenite absorption, transport, and metabolism and the regulatory pathways promoting yield in Tartary buckwheat. These results provide technical guidance and theoretical support for producing high-yielding and Se-enriched Tartary buckwheat.…”
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Genomic Features of <i>Taiwanofungus gaoligongensis</i> and the Transcriptional Regulation of Secondary Metabolite Biosynthesis by Yadong Zhang, Yi Wang, Xiaolong Yuan, Hongling Zhang, Yuan Zheng

“…Additionally, <i>T. gaoligongensis</i> exhibits a high degree of similarity to <i>Laetiporus sulphureus</i>, despite belonging to a different genus within the same family. Transcriptome analysis reveals significant variation in the expression levels of PKS and TPS genes across different cultivation conditions. …”
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Investigating the Role of Osteopontin (OPN) in the Progression of Breast, Prostate, Renal and Skin Cancers by Gautam Kundu, Selvakumar Elangovan

“…Successful development of tumorous cells proceeds through the activation of pathways promoting cell development and functionality, as well as the suppression of immune signaling pathways; thereby providing these cells with proliferative advantages, which subsequently metastasize into surrounding tissues. …”
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Advances in omics technologies for traditional Chinese medicine in the prevention and treatment of metabolic bone diseases by Wenjun Cai, Wenjun Cai, Lili Jiang, Changwei Zhao, Changwei Zhao, Xiaoling Zhou, Xiaoling Zhou

“…The advancement of omics technologies, including metabolomics, proteomics, and transcriptomics, has greatly facilitated research on MBD. …”
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Temporal dynamics of chicken host’s molecular response against Fowl adenovirus serotype 8b infection via RNA-sequencing by Bahiyah Azli, Nur Farhana Salim, Mohd Hair-Bejo, Abdul Rahman Omar, Norfitriah Mohamed Sohaimi, Ugwu Chidozie Clifford, Nor Asilah Wati Abdul Hamid, Nurulfiza Mat Isa

“…Results The harvested chicken livers were subjected to biological pooling and transcriptomic profiling via RNA-sequencing, according to the days of post-infections (dpi). …”
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Unraveling metabolic signatures in SARS-CoV-2 variant infections using multiomics analysis by Sunho Lee, Sunho Lee, Jueun Lee, Kwang-Soo Lyoo, Yourim Shin, Yourim Shin, Dong-Min Shin, Jun-Won Kim, Jeong-Sun Yang, Kyung-Chang Kim, Joo-Yeon Lee, Geum-Sook Hwang, Geum-Sook Hwang

“…DiscussionThe study suggests that multi-omics is a valuable approach for understanding immunometabolic responses to infectious diseases, and providing insights for effective treatment strategies.…”
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Transcriptional profiles of Microcystis reveal gene expression shifts that promote bloom persistence in in situ mesocosms by Lauren E. Krausfeldt, Paisley S. Samuel, Robert P. Smith, Hidetoshi Urakawa, Barry H. Rosen, Rita R. Colwell, Jose V. Lopez

“…Overall, our results show the stepwise transcriptional response of a Microcystis bloom to the introduction of nutrients, specifically urea, as it is sustained in a natural setting. The transcriptomic shifts observed herein may serve as markers of the longevity of blooms while providing insight into why Microcystis blooms over other cyanobacteria.IMPORTANCEHarmful algal blooms represent a threat to human health and ecosystems. …”
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Integrative genomic and single-cell framework identifies druggable targets for colorectal cancer precision therapy by Yanggang Hong, Yanggang Hong, Jiajun Li, Jiajun Li, Nuo Xu, Wanyi Shu, Feng Chen, Yuze Mi, Haigang Geng, Haigang Geng, Qian Li

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Biochemical Defense Arsenal, Genes/QTLs and Transcripts for Imparting Anthracnose Resistance in Common bean (Phaseolus vulgaris L.) by Safoora Shafi, Mohd Tahir, Vanya Bawa, Farkhandah Jan, Neeraj Choudhary, Mohd Anwar Khan, Yogita Singh, Upendra Kumar, Bilal Ahmad Bhat, Waseem Ahmad Dar, Parvaze Ahmad Sofi, Mohd. Ashraf Bhat, Bilal Ahmad Padder, Asif Bashir Shikari, Rajneesh Paliwal, Rajeev Kumar Varshney, Reyazul Rouf Mir

“…Therefore, the results offer a holistic perspective on ANT resistance in common bean, providing a foundation for targeted breeding efforts. …”
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Study on the physiological mechanism and molecular regulatory network of Blumea balsamifera in response to drought stress by Changmao Guo, Zejun Mo, Su Chen, Kailang Mu, Shi Yao, Qiumei Luo, Zhengwei Zhang, Tianjian Wang, Gang Liu, Yuchen Liu, Yuxin Pang

“…In summary, B. balsamifera formed a comprehensive drought resistance mechanism through photosynthesis, physiology and DEGs - DEPs network. This study provides theoretical support for the breeding and resource development of B. balsamifera, and also provides reference for the study of stress resistance of other medicinal plants.…”
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Mechanisms of host-bacterial interactions during Escherichia coli or Staphylococcus aureus infection of mammary epithelial cells by Zhengge Zhao, Zhiming Hou, Jianmin Chai, Chunfang Li, Tingyu Liu, Jianming Li, Shuyi Zhang, Lei Zhang, Yabin Ma

“…These findings provide new insights into the pathogenesis of mastitis and provide a theoretical basis for developing targeted prevention and control strategies.…”
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