Transcriptomic analysis of non-leukemic cell subsets in azacytidine-responsive AML highlights pathways associated with adhesion, platelet aggregation, and angiogenesis in mice and... by Nancy D. Ebelt, Suvithanandhini Loganathan, Lara C. Avsharian, Edwin R. Manuel

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Physiological and transcriptome analysis of changes in endogenous hormone contents and related synthesis and signaling genes during the heat stress in garlic (Allium sativum L.) by Qing-qing Yang, Ji-De Fan, Can-yu Liu, Yong-qiang Zhao, Zhi-sheng Xu, Xin-juan Lu, Jie Ge, Bi-wei Zhang, Meng-qian Li, Yan Yang, Feng Yang

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Elucidating prognostic significance of purine metabolism in colorectal cancer through integrating data from transcriptomic, immunohistochemical, and single‐cell RNA sequencing anal... by Sungyeon Kim, Myunghee Kang, Soyeon Jeong, Jisup Kim, Kyoung Oh Kim, Won‐Suk Lee, Jeong‐Heum Baek, Jung Ho Kim, Seungyoon Nam

“…In this study, we utilized a combination of bulk transcriptome analysis, immunohistochemistry (IHC), and single‐cell RNA sequencing (scRNA‐seq) to assess the clinical relevance of purine metabolism in CRC. …”
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Transcriptomic and Metabolomic Analyses Reveal the Attenuating Role of Cordycepin and <i>Cordyceps militaris</i> Extract on Acute Liver Injury Induced by LPS in Piglets by Ding Tan, Endian Li, Shijie Xiong, Yue Sun, Wenbo Cheng, Yong Su, Yang Lu

“…Compared with LPS, the transcriptomic analysis indicated that CPN supplementation significantly downregulated cell adhesion molecules, while CME supplementation significantly downregulated inflammatory mediator regulation of TRP channels, complement and coagulation cascades and cytokine-cytokine receptor interaction. …”
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Multi-omics characterization of diabetic nephropathy in the db/db mouse model of type 2 diabetes by Liping Wang, Ran Zhou, Guanghui Li, Xiaodan Zhang, Yan Li, Yinchen Shen, Junwei Fang

“…Methods: Renal tissues from db/db mice underwent integrative multi-omics analysis, encompassing transcriptomics, metabolomics, and lipidomics. Orthogonal projection to latent structures-discriminant analysis (OPLS-DA) was applied to identify significant metabolic perturbations, while bidirectional O2PLS integration elucidated metabolic-transcriptomic correlations. …”
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Transcriptome and Metabolome Analyses of <i>Taxus chinensis</i> var. <i>mairei</i> Tissues Provide New Insights into the Regulation of Paclitaxel Biosynthesis by Luyuan Jiang, Yanyan Li, Xiaoyang Jiang, Fenjuan Shao, Wenli Wu, Fan Xu, Iain Wilson, Angela Hoffman, Yanfang Yang, Deyou Qiu

“…In this study, we conducted integrated transcriptomic and metabolomic analyses of the root, leaf, shoot, bark, and wood of <i>Taxus chinensis</i> var. …”
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Genetic Analyses, BSA-Seq, and Transcriptome Analyses Reveal Candidate Genes Controlling Leaf Plastochron in Rapeseed (<i>Brassica napus</i> L.) by Mengfan Qin, Xiang Liu, Jia Song, Feixue Zhao, Yiji Shi, Yu Xu, Zhiting Guo, Tianye Zhang, Jiapeng Wu, Jinxiong Wang, Wu Li, Keqi Li, Shimeng Li, Zhen Huang, Aixia Xu

“…The leaf plastochron serves as an indicator of the rate of leaf appearance, biomass accumulation, and branch number, while also impacting plant architecture and seed yield. …”
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Transcriptomic characterization of GMP-compliant regulatory macrophages (TRI-001) under inflammatory and hypoxic conditions: a comparative analysis across macrophage subtypes by Karina Zitta, Rouven Berndt, Katharina Hess, Fred Fändrich, Olga Gurvich, Katja Sirviö, Tuija Kekarainen, Lars Hummitzsch, Yuk Lung Wong, Ole Sattler, Steven Braem, Mark Krebs, Axel Fudickar, Sibille Engels, Nicole Flack, Markus Steinfath, Martin Albrecht

“…Hypoxia was induced via an enzymatic model, while LPS treatment of TRI-001 was employed as inflammatory stimulus. …”
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Identification and validation of synergistic drug strategies targeting macrophage polarization in triple-negative breast cancer via single-cell transcriptomics and deep learning by Qi Qi, Wenhao Yang, Liang Li, Yuheng Tang, Yongzhi Chen, Hui Wang, Sun Yingjie, Jialin Shi, Samina Gul, Wenru Tang, Jianyu Pang, Xiaoli Xie

“…Finasteride significantly enhanced doxorubicin efficacy ex vivo and in vivo by reprogramming the TME, reducing M2 macrophage infiltration while promoting an M1 phenotype. Mechanistically, finasteride upregulated ZBTB20, counteracting TNBC-mediated suppression of this M1-associated transcription factor. …”
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Integrative lipidomic and transcriptomic analysis unraveled polystyrene nanoplastics-induced liver injury via oral and inhalation exposure: All roads lead to Rome? by Yiling Ge, Sheng Yang, Tianyi Zhang, Jie Li, Saisai Gong, Yifei Fang, Yuting Liang, Lihong Yin, Yuepu Pu, Zaozao Chen, Geyu Liang

“…Further integrated multi-omics approaches revealed route-dependent metabolic reprogramming: oral exposure decreased Diacylglycerols (DG) and Phosphatidic acids (PA) through enhanced lipid hydrolysis and suppressed PA biosynthesis, while inhalation exposure remarkably elevated these lipid species. …”
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Gill transcriptome profiling reveals adaptation to brackish water in a selectively bred hybrid tilapia (Oreochromis niloticus x O. aureus) strain by Xiaofei Yu, July B. Ariñez, Priadi Setyawan, Zhitian Wu, Muhammad Hunaina Fariduddin Aththar, Mark Camara, Yang Fang, Martien A.M. Groenen, Hans Komen, John W.M. Bastiaansen, Hendrik-Jan Megens

“…Our results showed that brackish water reared fish had higher Na+ and Cl- concentrations in blood plasma while haematocrit levels were not affected by salinity across all genetic groups. …”
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Characterizing tumor nicroenvironment features and identifying potential therapeutic targets in patients with diabetes mellitus and pancreatic cancer based on single-cell transcrip... by PENG Han, PAN Yuwei, WANG Xuesong

“…Objective‍　‍To investigate the changes in the tumor microenvironment of pancreatic cancer (PDAC) complicated with diabetes mellitus (DM) in a mouse model of hyperglycemia and orthotopic pancreatic cancer by analyzing transcriptome and single-cell transcriptome data in order to identify potential therapeutic targets. …”
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Comparative transcriptomic analysis reveals a differential acid response mechanism between estuarine oyster (Crassostrea ariakensis) and Pacific oyster (Crassostrea gigas) by Shen-Tong Wang, Qi Yang, Ming-Kun Liu, Li Li, Wei Wang, Shou-Du Zhang, Guo-Fan Zhang

“…C. gigas activated genes associated with glycolipid metabolism while inhibiting cell division during acid stress. …”
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Divergent molecular responsive mechanism of female and male spotted scat (Scatophagus argus) liver to 17β-estradiol revealed by the comparative transcriptome analysis by Xinyi Li, Shuhui Pan, Yun Zheng, Mingzhu Chen, Gang Shi, Guangli Li, Chunhua Zhu, Huapu Chen, Shangli Shi, Dongneng Jiang, Yucong Hong, Kaihui Sun, Hongjuan Shi

“…The amino sugar and nucleotide sugar metabolism pathway was significantly influenced in females by E2. While fatty acid metabolism, arginine and proline metabolism were significantly enriched in males. …”
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Transcriptomic analysis of transformed small-cell lung cancer from EGFR-mutated lung adenocarcinoma reveals distinct subgroups and precision therapy opportunities by Hao Sun, Chan-Yuan Zhang, Xiu-Hao Zhang, Zai-Xian Tai, Jun-Wei Su, Xiao-Cheng Lin, Shi-Ling Zhang, Yu-Fa Li, Chao Zhang, Miao Cai, Xu-Chao Zhang, Hua-Jun Chen, Qing Zhou, Yi-Long Wu, Wei-Neng Feng, Jin-Ji Yang

“…By conducting Hierarchical clustering analysis on RNA-seq data, the entire population can be categorized into two distinct groups. While certain T-SCLC showed similarities and differences compared to SCLC, with subtypes: LUAD-like and Non-LUAD-like. …”
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Transcriptome Analysis and Functional Characterization of the <i>HvLRR_8-1</i> Gene Involved in Barley Resistance to <i>Pyrenophora graminea</i> by Wenjuan Yang, Ming Guo, Yan Li, Qinglan Yang, Huaizhi Zhang, Chengdao Li, Juncheng Wang, Yaxiong Meng, Xiaole Ma, Baochun Li, Lirong Yao, Hong Zhang, Ke Yang, Xunwu Shang, Erjing Si, Huajun Wang

“…The number of differentially expressed genes (DEGs) in Alexis was 1350, 1898, and 2055 at 7, 14, and 18 days, respectively, while Ganpi2 exhibited 1195, 1682, and 2225 DEGs at the same time points. …”
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OmpR Indirectly Regulates Biosynthesis of Xenocoumacin 1 in <i>Xenorhabdus nematophila</i> by Yunfei Han, Xintong Zhao, Mengru He, Shujing Zhang, Gaijuan Tang, Yonghong Wang

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Integration of Green and Far-Red Light with Red-Blue Light Enhances Shoot Multiplication in Micropropagated Strawberry by Yali Li, Ping Huang, Xia Qiu, Feiyu Zhu, Hongwen Chen, Si Wang, Jiaxian He, Yadan Pang, Hui Ma, Fang Wang

“…RGB elevated chlorophyll a and b by 1.8- and 1.6-fold, respectively, while RBFR increased soluble protein content by 16%. …”
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Selenium Alleviates Low-Temperature Stress in Rice by Regulating Metabolic Networks and Functional Genes by Naixin Liu, Qingtao Yu, Baicui Chen, Chengxin Li, Fanshan Bu, Jingrui Li, Xianlong Peng, Yuncai Lu

“…In this study, low concentrations of selenium (ColdSe1) alleviated the adverse effects of cold stress on rice seedlings, improving fresh weight, plant height, and chlorophyll content by 36.9%, 24.3%, and 8.4%, respectively, while reducing malondialdehyde (MDA) content by 29.1%. …”
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Subclinical ketosis in postpartum dairy cows alters the adipose tissue immunological profile in a depot-specific manner by Tainara C. Michelotti, Bruno C. Menarim, Alexandra P. Tegeler, Jean F. Fiallo Diez, Vinicius S. Machado, Yava Jones-Hall, Oscar J. Benitez, Oscar J. Benitez, Shavahn C. Loux, Clarissa Strieder-Barboza, Clarissa Strieder-Barboza

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