Mechanisms of miRNA-Mediated Gene Regulation from Common Downregulation to mRNA-Specific Upregulation by Ayla Valinezhad Orang, Reza Safaralizadeh, Mina Kazemzadeh-Bavili

“…We also review up-to-date knowledge of miRNA-mediated gene upregulation through highlighting some notable examples and discuss the emerging concepts of their associations with other posttranscriptional gene regulation processes.…”
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Accurate Spatial Heterogeneity Dissection and Gene Regulation Interpretation for Spatial Transcriptomics using Dual Graph Contrastive Learning by Zhuohan Yu, Yuning Yang, Xingjian Chen, Ka‐Chun Wong, Zhaolei Zhang, Yuming Zhao, Xiangtao Li

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Hairpin in a haystack: In silico identification and characterization of plant-conserved microRNA in Rafflesiaceae by Wicaksono Adhityo, Meitha Karlia, Wan Kiew-Lian, Mat Isa Mohd Noor, Parikesit Arli Aditya, Molina Jeanmaire

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Copy Number Variations in Short Tandem Repeats Modulate Growth Traits in Penaeid Shrimp Through Neighboring Gene Regulation by Hao Zhou, Guangfeng Qiang, Yan Xia, Jian Tan, Qiang Fu, Kun Luo, Xianhong Meng, Baolong Chen, Meijia Chen, Juan Sui, Ping Dai, Xupeng Li, Mianyu Liu, Qun Xing, Jie Kong, Sheng Luan

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Characterization and functional analysis of conserved non-coding sequences among poaceae: insights into gene regulation and phenotypic variation in maize by Yi Luo, Hang Zhai, Xiu Zhong, Bo Yang, Yang Xu, Tianhong Liu, Qi Wang, Yang Zhou, Yan Mao, Yaxi Liu, Qi Tang, Yanli Lu, Yao Wang, Jie Xu

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CoTF-reg reveals cooperative transcription factors in oligodendrocyte gene regulation using single-cell multi-omics by Jerome J. Choi, John Svaren, Daifeng Wang

“…Abstract Oligodendrocytes are the myelinating cells within the central nervous system, but the mechanisms by which transcription factors (TFs) cooperate for gene regulation in oligodendrocytes remain unclear. We introduce coTF-reg, an analytical framework that integrates scRNA-seq and scATAC-seq data to identify cooperative TFs co-regulating the target gene (TG). …”
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Genome-wide DNA methylation and mRNA transcription analysis revealed aberrant gene regulation pathways in patients with dermatomyositis and polymyositis by Hui Luo, Honglin Zhu, Ding Bao, Yizhi Xiao, Bin Zhou, Gong Xiao, Lihua Zhang, Siming Gao, Liya Li, Yangtengyu Liu, Di Liu, Junjiao Wu, Qiming Meng, Meng Meng, Tao Chen, Xiaoxia Zuo, Quanzhen Li, Huali Zhang, Xiangxiang Pan

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Abnormal methylation of Mill1 gene regulates osteogenic differentiation involved in various phenotypes of skeletal fluorosis in rats and methionine intervention by Niannian Chen, Jing Zhang, Congyu Yin, Yudan Liao, Lei Song, Ting Hu, Xueli Pan

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Mutation yellow in agouti loci prevents age-related increase of skeletal muscle genes regulating free fatty acids oxidation by Y. V. Piskunova, A. Y. Kazantceva, A. V. Baklanov, N. M. Bazhan

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Enhancers and genome conformation provide complex transcriptional control of a herpesviral gene by David W Morgens, Leah Gulyas, Xiaowen Mao, Alejandro Rivera-Madera, Annabelle S Souza, Britt A Glaunsinger

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Alternative splicing of EZH2 regulated by SNRPB mediates hepatocellular carcinoma progression via BMP2 signaling pathway by Xingyu Wang, Weiyi Liu, Chunai Zhan, Yuanyuan Zhang, Xinyu Li, Yaoyun Wang, Mengfei Sheng, Madiha Maqsood, Hang Shen, Anmin Liang, Wei Shao

Subjects: “…Molecular mechanism of gene regulation…”
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Pan-cancer drivers of metastasis by Ryan Lusby, Engin Demirdizen, Mohammed Inayatullah, Paramita Kundu, Oscar Maiques, Ziyi Zhang, Mikkel Green Terp, Victoria Sanz-Moreno, Vijay K. Tiwari

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Identification of proteins that can participate in the recruitment of Ttk69 to genomic sites of Drosophila melanogaster by I. S. Osadchiy, T. N. Fedorova, P. G. Georgiev, O. G. Maksimenko

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Decoding the general role of tRNA queuosine modification in eukaryotes by Jorge Díaz-Rullo, Luis González-Moreno, Araceli Del Arco, José Eduardo González-Pastor

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Evolutionary and functional divergence of Sfx, a plasmid-encoded H-NS homolog, underlies the regulation of IncX plasmid conjugation by Avril Wang, Martha Cordova, William Wiley Navarre

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Collaborative Effects of Caloric Restriction and Quercetin on Age-related Oxidative Stress Reduction through NQO1/Sirt1 Gene Regulation by Fereshte Ghorbani, Arezou Biyabani, Darya Ghadimi, Keivan Nedaei, Hadi Khodabandehloo, Mina Hemmati

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Polymorphism of <i>Sdr</i> genes regulating seed dormancy in <i>Triticum persicum</i> Vav. and <i>Triticum aethiopicum</i> Jakubz. by M. S. Bazhenov, E. D. Guseva, V. S. Rubets

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Adaptation for Staphylococcus aureus to hosts via insertion mutation in the accessory gene regulator agrC gene: decreased virulence and enhanced persistence capacity by Jiawei Chen, Yun Wu, Ying Zhu, Li Zhang, Yingchun Xu, Yali Liu

“…This study identified an insertion mutation in the accessory gene regulator, agrC gene, carried by a Staphylococcus aureus strain isolated from the blood of a febrile patient, leading to the functional loss of AgrC. …”
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Molecular Characterization of the Tumor Suppressor Candidate 5 Gene: Regulation by PPARγ and Identification of TUSC5 Coding Variants in Lean and Obese Humans by Trina A. Knotts, Hyun Woo Lee, Jae Bum Kim, Pieter J. Oort, Ruth McPherson, Robert Dent, Keisuke Tachibana, Takefumi Doi, Songtao Yu, Janardan K. Reddy, Kenji Uno, Hideki Katagiri, Magdalena Pasarica, Steven R. Smith, Dorothy D. Sears, Michel Grino, Sean H. Adams

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Thyroid hormone receptor- and stage-dependent transcriptome changes affect the initial period of Xenopus tropicalis tail regeneration by Shouhong Wang, Liezhen Fu, Bin Wang, Yanmei Cai, Jianping Jiang, Yun-Bo Shi

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