Cytochrome P450 2E1 aggravates DXR-induced myocardial injury through imbalanced mitochondrial OPA1 by Jiaxin Ma, Yaheng Wang, Huijiao Lv, Yu Lei, Feifei Guan, Wei Dong, He Wang, Lianfeng Zhang, Dan Lu

“…Mechanistic insights were derived from transcriptome analysis, mass spectrometry, co-immunoprecipitation, signal transduction analysis, and molecular biology techniques. …”
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Abnormal eye movement, brain regional homogeneity in schizophrenia and clinical high-risk individuals and their associated gene expression profiles by Zhaobin Chen, Yangpan Ou, Yudan Ding, Ying Wang, Huabing Li, Feng Liu, Ping Li, Dongsheng Lv, Yong Liu, Bing Lang, Jingping Zhao, Wenbin Guo

“…In combination with the Allen Human Brain Atlas (AHBA), transcriptome-neuroimaging analysis was applied to identify ReHo-related gene expression profiles. …”
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Preoperative short-term fasting in paediatric cancer care is safe, feasible and activates protective responses by D.S.J. Komninos, C.A.J. Oudmaijer, R.A. Ozinga, K. Smit, J.N.M. Ijzermans, J.H.J. Hoeijmakers, R.C. Minnee, M.M. van den Heuvel-Eibrink, W.P. Vermeij

“…This study aims to explore the safety and feasibility of incorporating STF into the treatment regimen for children with renal cancer, while simultaneously showing a protective transcriptomic signature. …”
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Mitigating microplastic toxicity: How particle size and degrading bacteria influence Cucumis sativus L. seedlings by Shuyi Chen, Peng Wu, Hao Ren, Guohua Shen, Zhuang Xiong, Wenlin Zhao, Xiang Guo, Peng Xiang, Junqiang Xu, Qiang Li

“…Transcriptome analysis further revealed that the PS-MPs treatment affected the biosynthesis process of cucumber seedlings, while treatment with degrading bacteria significantly increased root synthesis and metabolism in the plant. …”
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The Molecular Mechanism by Which miR-211-5p Regulates the Proliferation and Differentiation of Preadipocytes in Meat Rabbits by Targeting TPK1 by Xiaoxiao Zhang, Meigui Wang, Tao Tang, Jing Zhou, Wenqiang Sun, Xianbo Jia, Jie Wang, Hengwei Yu, Songjia Lai

“…Previous studies have demonstrated that miR-211 negatively regulates ELOVL6, suggesting its involvement in lipid metabolism and lipogenesis within bovine adipose tissue. Our prior transcriptomic analysis revealed upregulated miR-211-5p expression in rabbits fed a high-fat diet, indicating its potential role in lipid metabolism regulation. …”
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Lnc MSTRG 4701.7 targets miR-1786/RORa to competitively regulate proliferation and apoptosis in chicken follicular granulosa cells by Chang Ma, Chang Ma, Hengsong Wu, Hengsong Wu, Chunchi Yan, Chunchi Yan, Simushi Liswaniso, Simushi Liswaniso, Xue Sun, Xue Sun, Ning Qin, Ning Qin, Rifu Xu, Rifu Xu

“…BackgroundFollicular development in chickens is a highly coordinated and complex process. While the hypothalamic–pituitary-gonadal axis plays a central regulatory role in this process, the role of long noncoding RNAs (LncRNAs) remains unclear. …”
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MARCKSL1 interacted with F‐actin to promote esophageal squamous cell carcinoma mobility by modulating the formation of invadopodia by Yue Zhao, Xiufeng Xie, Lusong Tian, Fang Liu, Yulin Sun, Haizhen Lu, Xiaohang Zhao, Yousheng Mao

“…Transcriptomic analysis showed that MARCKSL1 mediated the mobility and migration of ESCC cells. …”
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Highly efficient generation of mature megakaryocytes and functional platelets from human embryonic stem cells by Chuxin Chen, Ning Wang, Xueyan Zhang, Yingjie Fu, Zhiyong Zhong, Haibin Wu, Yaming Wei, Yuyou Duan

“…Subsequently, mature MKs and functional platelets were further comprehensively investigated and characterized using a variety of methodologies, including flow cytometry analysis, RT-qPCR validation, Giemsa-Wright’s staining, immunofluorescent staining, RNA transcriptome analysis, and DNA ploidy analysis. …”
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Single-nucleus RNA sequencing reveals the specific molecular signatures of myeloid cells responding to brain injury after microglial replacement by Xiao-Yi Xiong, Xiao-Yi Xiong, Xiao-Yi Xiong, Haicheng Yuan, Ying Mu, Yi He, Fang Xie, Xiao-Shuang Feng, Jia-Xin Xie, Xin-Ru Pan, Yu-Fei Wang, Jian Gong, Xiaoming Zheng, Peng-Fei Wang

“…Then, a single-nucleus transcriptomic analysis of acutely injured brains in aged mice with microglial replacement was performed.ResultsWe observed similarities but strong divergence in the composition and molecular change features of myeloid cells between the replacement (Rep) and control (Con) groups, indicating retention of the core transcriptome and development of differential genes in myeloid cells after microglial replacement in response to brain injury. …”
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Insights into the role of MSLN-positive circulating tumor cell as an auxiliary diagnostic biomarker in epithelial ovarian cancer by Hang Xu, Min Wang, Shuting Wu, Qinke Li, Jinlong Wang, Siying Zhang, Qiongming Liu, Mengting Wang, Ruifang Li, Zhiyuan Hu, Zhiyuan Hu, Yi Liu, Zhu Yang

“…This study aimed to identify and validate novel auxiliary diagnostic markers for EOC.MethodsThrough integrated analysis of transcriptome sequencing data and single-cell RNA sequencing from public databases, we identified mesothelin (MSLN) as an EOC-specific target. …”
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Identification of signaling networks associated with lactate modulation of macrophages and dendritic cells by Rapeepat Sangsuwan, Bhasirie Thuamsang, Noah Pacifici, Phum Tachachartvanich, Devan Murphy, Abhineet Ram, John Albeck, Jamal S. Lewis

“…In the present study, we identified the key signaling pathways in bone marrow-derived DCs and MΦs that were changed by cancer-relevant concentrations of lactate. First, transcriptome analysis was used to guide notable signaling pathways mediated by lactate. …”
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Runx3, Brn3a and Isl1 interplay orchestrates the transcriptional program in the early stages of proprioceptive neuron development. by Kira Orlovsky, Elena Appel, Shay Hantisteanu, Tsviya Olender, Joseph Lotem, Ditsa Levanon, Yoram Groner

“…<h4>Methods</h4>Runx3 expression is driven by the gene proximal P2 promoter. Transcriptome analysis was conducted by RNA-seq on RNA isolated from heterozygous (P2+/-) vs. homozygous (P2-/-) TrkC neurons and differentially expressed genes (DEGs) were determined. …”
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RETRACTED ARTICLE: NR3C2 affects the proliferation and invasiveness of colon cancer cells through the Wnt/β-Catenin signaling pathway by Ke Nie, Zhong-Jiang He, Ling-Jun Kong

“…Method mRNA (messenger RNA) data and clinical records pertaining to colon cancer were retrieved from The Cancer Genome Atlas (TCGA) database. The analysis of NR3C2 expression discrepancies between normal colon and tumor tissues was conducted using R software. …”
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SSR42 is a novel regulator of cytolytic activity in Staphylococcus aureus by Mary-Elizabeth Jobson, Brooke R. Tomlinson, Emilee M. Mustor, Emily A. Felton, Andy Weiss, Clayton C. Caswell, Lindsey N. Shaw

“…Herein, we used transcriptomic and proteomic approaches to probe the role of SSR42, revealing that it is a powerful, novel activator of the primary leukocidin LukAB. …”
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VdPAT1 encoding a pantothenate transporter protein is required for fungal growth, mycelial penetration and pathogenicity of Verticillium dahliae by Stephen Mwangi Kamau, Yongtai Li, Tiange Sun, Feng Liu, Qian-Hao Zhu, Xinyu Zhang, Jie Sun, Yanjun Li

“…In previous study, we identified a pantothenate transporter gene (VdPAT1) in V. dahliae which can be induced by root exudates from a susceptible cotton variety.MethodsIn this study, we generated VdPAT1 deletion mutants and complementary strain via homologous recombination by a PEG-mediated transformation method and used for the gene functional characterization.Results and discussionThe VdPAT1 deletion mutants displayed reduced colony growth, melanin production, spore yield and germination rate, showed abnormal mycelial branching and decreased ability of mycelial penetration and utilization of nutrients (carbon, amino acids and vitamin), leading to a lower pathogenicity. Comparative transcriptome analysis of wild-type and mutant strain cultivated on sterilized carboxymethyl cellophane membranes found that the amino sugar and nucleotide sugar metabolism pathway, which was related to chitin synthesis and degradation as well as UDP-glucose synthesis, was the most significantly down-regulated pathway in VdPAT1 deletion mutant. …”
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Neuronal CDK5RAP3 deficiency leads to encephalo-dysplasia via upregulation of N-glycosylases and glycogen deposition by Fanghui Chen, Minghui Xiang, Zhipeng Wang, Fan Yang, Junzhi Zhou, Zihan Deng, Susu Wang, Ping Li, Jieqi Tew, Wei Zhang, Honglin Li, Yong Teng, Xiaobin Zhu, Yafei Cai

“…Morphological analysis demonstrated that neuronal CDK5RAP3 deficiency leads to increased SLC17A6 and N-glycosylase (RPN1 and ALG2) protein expression, and while causing endoplasmic reticulum (ER) stress. …”
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Genome-wide identification of invertase genes in sweetpotato and its response to nitrogen and planting densities by Zheng-yu Hu, Pei-xin He, Yu-jie Li, Hong-Juan Liu, Rafiq Ahmad, Izhar Ali, Cheng-cheng Si

“…Transcriptome data revealed that IbCIN2 and IbVIN3 were highly expressed in fibrous root (FR) and potential storage root (PSR), while IbVIN4 exhibited high expression levels in storage roots (SR), and IbCWIN2 was highly expressed in both FR and SR. …”
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SK4 potentially modulates the alternative splicing profile associated with papillary thyroid cancer development in BHT101 cells by Alimujiang Wupuer, Xuekelaiti Kuerban, Gong Ye

“…Cellular proliferation and invasion experiments were performed to assess the influences of SK4 on cell behaviors. Further, whole transcriptome sequencing (RNA-seq) analysis helped us systematically investigated the targets of SK4, including differentially expressed genes (DEGs) and regulated alternative splicing events (RASEs), and validated several related DEGs and RASEs by RT-qPCR experiment. …”
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QTL mapping provides new insights into emamectin benzoate resistance in salmon lice, Lepeophtheirus salmonis by Armin Sturm, Greta Carmona-Antoñanzas, Joseph L. Humble, Claudia Croton, Sally Boyd, Rapule Mphuti, John B. Taggart, David I. Bassett, Ross D. Houston, Karim Gharbi, James E. Bron, Michaël Bekaert

“…The avermectin emamectin benzoate (EMB) is widely used for salmon delousing. While resistance to EMB is widespread in Atlantic populations of L. salmonis, the molecular mechanisms of resistance remain to be elucidated. …”
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Functional characterization of COMT genes in Chinese white pear (Pyrus bretschneideri) and their role in lignin synthesis by Xiaofeng Feng, Xiaofeng Feng, Xianang Wu, Xianang Wu, Jiayi Hong, Jiayi Hong, Zihui Guo, Zihui Guo, Yasmin Khan, Yasmin Khan, Dongyi Wei, Dongyi Wei, Honghong Fan, Honghong Fan, Yongping Cai, Yongping Cai

“…These genes exhibit five conserved motifs, and promoter analysis indicates potential hormonal regulation. Transcriptome data showed that PbrCOMT1 is the predominant COMT gene in ‘Dangshan Su’ fruit and is likely crucial for lignin synthesis. …”
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