Molecular signatures of preeclampsia subtypes determined through integrated weighted gene co-expression network analysis and differential gene expression analysis of placental tran... by Luhao Han, Fabricio da Silva Costa, Fabricio da Silva Costa, Anthony Perkins, Anthony Perkins, Olivia Holland, Olivia Holland

“…BackgroundPreeclampsia (PE) is a multisystemic pregnancy syndrome that presents in different clinical subtypes. While placental dysfunction is a critical feature of PE, its contribution to different PE subtypes remains unclear. …”
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Comparative transcriptomic analysis and genome-wide identification provide insights into the potential role of fungal-responsive MAPK cascade genes in tanshinone accumulation in Sa... by Ann Abozeid, Ann Abozeid, Xinru Du, Lan Zhang, Furui Yang, Jianxiong Wu, Lin Zhang, Qi Cui, Zongqi Yang, Dongfeng Yang, Dongfeng Yang

“…HPLC analysis demonstrated that both elicitors significantly promoted the accumulation of tanshinones, particularly cryptotanshinone and dihydrotanshinone. Comprehensive transcriptomic analysis, followed by Pearson correlation coefficient analysis, revealed a strong positive correlation between tanshinone content and SmMPK4 and SmMPKK5, while negative correlations were observed with SmMPKKK6, SmMPKKK11, and SmMPKKK20. …”
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Deciphering low-dose radiation-induced cytotoxic effects:The application of integrative transcriptomics and metabolomics analysis in lung organoid-based 3D in vitro model by Lihui Xuan, Jinhua Luo, Huiji Pan, Dafei Xie, Xin Huang, Yang Han, Chenjun Bai, Hua Guan, Ruixue Huang, Ping-Kun Zhou

“…Furthermore, these altered lipid metabolites, such as triglycerides and sterols, were enriched in pathways related to cell signaling and affected cell proliferation, differentiation, and death after bioinformatics analysis. Through transcriptomic analysis, compared with the 0 Gy group, the expression of 19 genes in the 0.01 Gy group was up-regulated, while the expression of 6 genes was down-regulated. …”
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FGSE02, a Novel Secreted Protein in <i>Fusarium graminearum</i> FG-12, Leads to Cell Death in Plant Tissues and Modulates Fungal Virulence by Zhigang Hao, Lei Pan, Jiaqing Xu, Chengxuan Yu, Jianqiang Li, Laixin Luo

“…The transient expression of FGSE02 in <i>Nicotiana benthamiana</i> induced rapid cell death, while gene knockout stains reduced fungal virulence without affecting growth. …”
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Effects of different shade treatments on the biosynthesis of main phytohormones in the leaves of tea plants by JIN Jing, LÜ Yiqing, HE Weizhong, SHU Zaifa, YE Jianhui, LIANG Yuerong

“…The results showed that blue shade net treatment significantly increased the contents of abscisic acid, gibberellins, auxins, cytokinins, jasmonic acid, and salicylic acid in the tea leaves compared with CK, followed by yellow, black, and red shade net treatments. The transcriptome sequencing results showed that the most abundant number of differentially expressed genes (DEGs) was observed under the black shade net treatment (3 422 up-regulation, and 4 074 down-regulation) compared with CK, subsequently followed by blue shade net treatment (476 up-regulation, and 1 271 down-regulation), and yellow shade net treatment (663 up-regulation, and 994 down-regulation), while the lowest DEGs number was observed under the red shade net treatment (723 up-regulation, and 810 down-regulation). …”
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Involvement of dysregulated RNA binding protein and alternative splicing regulatory networks in diabetic nephropathy from type 2 albuminuric cohorts by Yu Wang, Jingjing Zhang, Qian Tang

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Identification and analysis of diverse programmed cell death patterns in idiopathic pulmonary fibrosis using microarray-based transcriptome profiling and single-nucleus RNA sequenc... by Jiazheng Sun, Yulan Zeng

“…BackgroundIdiopathic pulmonary fibrosis (IPF) is a chronic, progressive pulmonary disorder marked by the gradual substitution of lung tissue with fibrotic tissue, resulting in respiratory failure. While the precise etiology of IPF remains unclear, an increasing number of studies have indicated that programmed cell death (PCD) significantly contributes to the onset and advancement of IPF. …”
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Transcriptomic analysis of human primary T cells after short-term leucine-deprivation and evaluation of kinase GCN2's role in regulating differential gene expression. by Aurore Dougé, Gwendal Cueff, Céline Keime, Valérie Carraro, Céline Jousse, Paul Rouzaire, Alain Bruhat

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Integrative Mendelian randomization and multi-omics analysis identifies anti-allergic drug targets associated with cardiovascular disease risk by Huilin Lian, Dai Li, Youjie Zeng, Yi Meng, Ruifang Chen, Ren Guo

“…Notably, prednisone (targeting ITGB2, TG) and loratadine (targeting TSHR) elevated CVD risk, while zafirlukast (targeting KAT2A, POLB, BAZ2B) reduced it. …”
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Individual variation in preference behavior in sailfin fish refines the neurotranscriptomic pathway for mate preference by Rebecca L. Young, Sarah M. Price, Molly Schumer, Silu Wang, Molly E. Cummings

“…We hypothesize that the association between mate preference and transcriptomic immune function is driven by the less well‐known role of these genes in neural plasticity which is likely involved in higher‐order learning and processing during mate choice decisions.…”
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Parent‐Specific Transgenerational Immune Priming Enhances Offspring Defense—Unless Heat Stress Negates It All by Ralf F. Schneider, Arseny Dubin, Silke‐Mareike Marten, Olivia Roth

“…It is predicted to be adaptive when parent–offspring environmental conditions match, while mismatches negate those advantages, rendering TGIP potentially costly. …”
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Dysregulated metabolism of the late herpes simplex virus 1 transcriptome through the vhs-VP22 axis uncouples virus cytopathic effect and virus production. by Kathleen Pheasant, Dana Perry, Emma L Wise, Vivian Cheng, Gillian Elliott

“…We have previously shown that vhs is also involved in regulating the nuclear-cytoplasmic compartmentalisation of the virus transcriptome, and in the absence of VP22 a number of virus transcripts are sequestered in the nucleus late in infection. …”
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Integrated transcriptomics and metabolomics analysis reveal the regulatory mechanisms underlying the combined effects of heat and glucose starvation on carotenoid biosynthesis in R... by Xingyu Huang, Caina Guo, Xiaolan Huang, Meixia He, Jingdie Fan, Yuan Chen, Jingwen Qiu, Qi Zhang

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Comparative Study on the Effects of Silicon Nanoparticles and Cellulose Nanocrystals on Drought Tolerance in Tall Fescue (<i>Festuca arundinacea</i> Schreb.) by Meng Li, Sile Hu, Xulong Bai, Jie Ren, Kanliang Tian, Huili Zhang, Zhilong Zhang, Vanquy Nguyen

“…Specifically, Si NP treatment increased biomass by 48.71% compared to drought-stressed control plants, while CNCs resulted in a 33.41% increase. Transcriptome sequencing further revealed that both nanomaterials enhanced drought tolerance by upregulating genes associated with photosynthesis and antioxidant defense. …”
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A comprehensive RNA virome identified in the oyster Magallana gigas reveals the intricate network of virus sharing between seawater and mollusks by Shuang Wu, Yimin Ni, Shuling Yan, Yongxin Yu, Yongjie Wang

“…M. hongkongensis has been found to harbor the most diverse viruses found in M. gigas, while 37 and 25 newly identified RNA viruses in oysters were discovered in an octopus meta-transcriptome and seawater virome, respectively. …”
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Comparative energy metabolism in red and white muscles of juvenile yellowfin tuna, Thunnus albacore by Zhiyuan Lu, Zhiyuan Lu, Qian Li, Edwine Yongo, Juan Xiao, Zhiqiang Guo, Zhiqiang Guo

“…Functional enrichment analysis demonstrated significant association of red muscle DEGs with oxidative phosphorylation, tricarboxylic acid cycle, and fatty acid β-oxidation, while white muscle preferentially enriched glycolysis/gluconeogenesis pathways. …”
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Integrated metabolomics, transcriptomic, and phytohormonal analyses to study the effects of water stress and foliar abscisic acid application in Thymus species using LC-MS/MS by Maryam Alipour, Maryam Alipour, Maryam Haghighi, Mehdi Rahimmalek, Michael Reichelt, Laure Martinelli, Karin Groten, Axel Mithöfer

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Network Pharmacology and Transcriptomics Reveal the Mechanism of GuaLouQuMaiWan in Treatment of Type 2 Diabetes and Its Active Small Molecular Compound by Jiahao Feng, Yuheng Zhou, Li Liao, Liping Yu, Ping Yuan, Jun Zhang

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Genomic, Transcriptomic and Suspect/Non‐Target Screening Analyses Reveal the Role of CYP450s in the Degradation of Imazalil and Delineate Its Transformation Pathway by Cladosporium... by Christina V. Papazlatani, Sotirios Vasileiadis, Eleni I. Panagopoulou, Dimitrios E. Damalas, Panagiotis A. Karas, Evdoxia Gerovasileiou, Nikolaos S. Thomaidis, Dimitrios G. Karpouzas

“…IMZ biotransformation mainly proceeded through O‐dealkylation, while other less important paths, most probably controlled by upregulated oxidases, were operative involving successive hydroxylation reactions. …”
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Integrative analysis of semaphorins family genes in colorectal cancer: implications for prognosis and immunotherapy by Jiahao Zhu, Benjie Xu, Zhixing Wu, Zhixing Wu, Zhiwei Yu, Shengjun Ji, Jie Lian, Haibo Lu

“…Multi-omics analysis was performed, including single-cell RNA sequencing (scRNA-seq), and spatial transcriptome (ST) to gain a more comprehensive understanding of the SRS. …”
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