Restoring mitophagy in prostate cancer cells: the role of miR-141 rescue in counteracting MAPK1/ERK2-dependent autophagy suppression by Radostina Tsvetankova, Ilka Tsvetkova, Soren Hayrabedyan, Krassimira Todorova

“…Utilising nanopore transcriptome sequencing, differential gene expression was analysed post miR-141 mimic/inhibitor modulation. …”
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Integrative analysis of different low-light-tolerant watermelon lines in response to low-light stress by Xiaojing Ma, Yong Wang, Xiaohui Li, Yongpeng Liu, Hengbin Luo, Wenkai Shang, Yancui Di, Ningning Gao, Liyun Kang, Fengzhi Piao, Zhixin Guo, Han Dong, Weixing Zhao, Tao Zhang

“…These findings clarify key physiological traits and gene regulatory mechanisms associated with low-light tolerance in watermelon and provide valuable insights for developing stress-resistant cultivars.…”
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Differential Expressions of circRNAs and Regulatory Mechanisms of ceRNA Network in Liver of Wilson’s Disease TX Mice by Chen H, Wang X, Peng N, Pu Y, Ye H, Gui Y, Zhang R, Zhang J

“…CircRNAs exhibit high stability and play crucial roles in numerous biological processes.Methods: RNA-seq technology was employed to conduct transcriptome sequencing of the liver from 12 homozygous (TX) mice in the model group (NL group) and 12 wild-type (WT) mice in the control group (N group). …”
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Role of molecular breeding in understanding salinity tolerance in cotton: limitations and perspectives by Shicong WANG, Meiling HOU, Hadiqa HASSAN, Fatima M. ABBAS, Zehbah A. AL AHMAD, Sameer H. QARI, Nurul A.B. HANIFAH

“…It is the most critical contributor to the textile industry and provides income to millions of farmers. Salt stress is abiotic stress, decreasing the cotton yield on a large area. …”
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Evidence from a Comprehensive Bioinformatics Analysis Point to Possible Therapeutic Targets for Vitiligo by Wang Y, Yao T, Lin Y, Wu J

“…Finally, pathway enrichment analysis and transcriptome-proteome correlation analysis provided further biological insight into the target proteins.Results: Following a series of comprehensive analyses, we identified three potential drug targets for the treatment of vitiligo: GZMB, FCRL3, and ULK3, each of which is associated with an increased risk of the disease. …”
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Dual RNA-Seq Unveils Candidate Key Virulence Genes of <i>Vibrio harveyi</i> at the Early Stage of Infection in Hybrid Grouper (♀ <i>Epinephelus polyphekadion</i> × ♂ <i>E. fuscogut... by Yan-Hua Zeng, Wen Li, He Xu, Xiao-Xiao Gong, Yu-Mei Zhang, Hao Long, Zhen-Yu Xie

“…To further explore the key virulence factors of <i>V. harveyi</i> at the early stage of infection, the liver of the hybrid grouper infected with strain GDH11385 was analyzed here by dual RNA-seq. The transcriptome data were compared with that of in vitro cultured bacteria. …”
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Mapping and identification of QTLs for low light tolerance traits in grapevine by Xiaohao Ji, Meng Shi, Fengzhi Liu, Xiaodi Wang, Zhiqiang Wang, Haibo Wang

“…Conclusions This study provides insights into the genetic mechanisms underlying low light tolerance in grapevines and identifies candidate genes for further functional validation. …”
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Exploring WNT pathway dysregulation in serrated colorectal cancer for improved diagnostic and therapeutic strategies by Fengzhi Zhu, Fengzhi Zhu, Helen Hoi Ning Yan, Helen Hoi Ning Yan, Yin Tong, Yin Tong, Yueliang Zhao

“…This study aims to explore the WNT pathway alterations in the CRC and to develop a WNT-derived subtyping model to identify SCC patients by using multi-OMICs data.MethodsWe included multi-omics data of 1751 colorectal cancer patients from the TCGA and GEO databases, and single-cell transcriptome data of 33 normal and cancer tissues from the SMC study cohort. …”
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Genome‐wide screening of abberant methylated drivers combined with relative risk loci in bladder cancer by Chuanjie Zhang, Kangjie Shen, Yuxiao Zheng, Feng Qi, Jun Luo

“…Conclusion Our study indicated several hub‐MDGs, calculated novel risk score and explored the prognostic value in BCa, which provided a promising approach to BCA prognosis assessment.…”
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APMAT analysis reveals the association between CD8 T cell receptors, cognate antigen, and T cell phenotype and persistence by Jingyi Xie, Daniel G. Chen, William Chour, Rachel H. Ng, Rongyu Zhang, Dan Yuan, Jongchan Choi, Michaela McKasson, Pamela Troisch, Brett Smith, Lesley Jones, Andrew Webster, Yusuf Rasheed, Sarah Li, Rick Edmark, Sunga Hong, Kim M. Murray, Jennifer K. Logue, Nicholas M. Franko, Christopher G. Lausted, Brian Piening, Heather Algren, Julie Wallick, Andrew T. Magis, Kino Watanabe, Phil Mease, Philip D. Greenberg, Helen Chu, Jason D. Goldman, Yapeng Su, James R. Heath

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Identification and expression analysis of ACBPs family members of Hippophae rhamnoides subsp. sinensis Rousi in response to lead stress by CHEN Ke, LI Xinjuan, ZHANG Tian, REN Qiandan, SUN Jing, ZHOU Wu

“…Low-temperature stress response elements were also identified in HrLACBPs1, suggesting its role in enhancing plant cold tolerance. Transcriptome analysis and qRT-PCR validation showed that most ACBPs genes in H. rhamnoides were significantly downregulated at 1000 mg·kg-1 lead, with up-regulation occurring at 5000 mg·kg-1. …”
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Expression characteristics and functional identification of PpD2 gene in peach (Prunus persica) by XIE Hefang, ZHANG Yajia, ZHANG Junjie, LIAN Xiaodong, ZHANG Haipeng, CHENG Jun, WANG Wei, HOU Nan, WANG Lei, ZHENG Xianbo, FENG Jiancan, WANG Xiaobei, TAN Bin

“…The identification of PpD2 as a key regulator of branch angle provides a theoretical foundation for the genetic improvement of peach tree architecture.…”
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Systematic identification of post-transcriptional regulatory modules by Matvei Khoroshkin, Andrey Buyan, Martin Dodel, Albertas Navickas, Johnny Yu, Fathima Trejo, Anthony Doty, Rithvik Baratam, Shaopu Zhou, Sean B. Lee, Tanvi Joshi, Kristle Garcia, Benedict Choi, Sohit Miglani, Vishvak Subramanyam, Hailey Modi, Christopher Carpenter, Daniel Markett, M. Ryan Corces, Faraz K. Mardakheh, Ivan V. Kulakovskiy, Hani Goodarzi

“…Abstract In our cells, a limited number of RNA binding proteins (RBPs) are responsible for all aspects of RNA metabolism across the entire transcriptome. To accomplish this, RBPs form regulatory units that act on specific target regulons. …”
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Chromosome-level genome assembly of Eimeria tenella at the single-oocyst level by Kaihui Zhang, Yudong Cai, Yuancai Chen, Yin Fu, Ziqi Zhu, Jianying Huang, Huikai Qin, Qimeng Yang, Xinmei Li, Yayun Wu, Xun Suo, Yu Jiang, Longxian Zhang

“…Additionally, our study also provides a valuable resource for exploring the roles of AP2 and Myb transcription factor genes in regulating the development of Eimeria parasites.…”
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<i>Thaldh3</i>-Dependent GABA Metabolism Modulates Response of <i>Trichoderma</i> to Fusaric Acid-Induced Oxidative Stress by Linhua Cao, Xiaoteng Shi, Tuo Li, Yang Liu, Tuokai Wang, Bozheng Lin, Dongyang Liu, Qirong Shen

“…In conclusion, these observations provide new insight into the role of beneficial microbes in promoting plant health.…”
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A Mucin2-Like Gene, NlMuc2, is Required for Early Embryonic Development in Nilaparvata lugens by Weixia Wang, Tingheng Zhu, Qi Wei, Pinjun Wan, Jiachun He, Fengxiang Lai, Qiang Fu

“…Thus, NlMuc2 is involved in embryonic development mainly by regulating the Wnt and MAPK signaling pathways. These findings may provide new targets for pesticide design and RNAi-based control of N. lugens, and will also provide new insights into insect embryonic development and the function of insect mucins.…”
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Assessment of Genetic Diversity by Morphological, Biochemical, and Molecular Markers in <i>Gloriosa superba</i> Ecotypes Collected from Different Agro-Climatic Zones in India by Moumita Majumdar, Rakesh Arya, Soumya Prakash Sahu, Archana Tiwari, Jong-Joo Kim

“…Methods: This study utilized a previously reported de novo transcriptome assembly of <i>G. superba</i>, identifying 14,672 EST-SSRs as genomic markers to assess genetic variations across different accessions. …”
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Integrative pigGTEx resource with GWAS reveals genetic mechanism underlying semen quality in boars by Xuehua Li, Qing Lin, Zhanwei Zhuang, Kai Rao, Zhili Li, Xiuguo Shang, Panjie Xia, Lin Zhu, Zhe Zhang, Yunxiang Zhao

“…This study employs advanced multi-omics approaches, such as transcriptome-wide association studies (TWAS) and colocalization between genome-wide association studies (GWAS) and expression quantitative trait loci (eQTLs), to provide a comprehensive understanding of the genetic mechanisms governing semen quality traits in boars. …”
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Diversity and evolution analysis of RNA viruses in three wheat aphid species by Ke-Hui Feng, Yu-Hua Qi, Zhuang-Xin Ye, Ting Li, Gao-Yang Jiao, Chuan-Xi Zhang, Jian-Ping Chen, Gang Lu, Jun-Min Li

“…Conclusions This study expands the understanding of RNA virus diversity in aphids and provides valuable insights into the potential functions of EVEs in virus-host coevolution.…”
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Mongolian medicine Eerdun-Wurile promotes myocardial regeneration by regulating MVDA in zebrafish by Xianghui Chen, Xiaoting Li, Jiajun Sun, Yufeng Lin, Yuanhao Li, Xuehao Lv, Rui Zhao, Xinyue Gu, Wenxuan Wang, Yabin Xie, Wei Xie, Rengui Bade, Shuyuan Jiang, Xiaolei Liu, Bo Zou, Yannan Bi, Guo Shao, Haihua Bai, Wei Zhu, Xiaoe Jia

“…Our data partially revealed the molecular mechanism by which EW promotes myocardial regeneration and repair, and provides experimental data and novel insights for advancing MI treatment.…”
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