Integrative multi-omics analysis to gain new insights into COVID-19 by Setegn Eshetie, Karmel W. Choi, Elina Hyppönen, Beben Benyamin, S. Hong Lee

“…While the virology of the disease is well studied, investigating host-related factors, including genome, transcriptome, metabolome, and exposome, can provide valuable insights into the underlying pathophysiology. …”
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Development and characterization of a novel immortalized human vaginal fibroblast cell line for advanced applications in reproductive health by Leong Chi Cheng, Shuoming You, Tingting Ren, Junjun Qiu, Keqin Hua

“…Conclusions The novel ihVF cell line retains key phenotypic, functional, and genetic characteristics of primary vaginal fibroblasts, providing a stable, reproducible, and physiologically relevant model for reproductive health research. …”
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Adipose-derived stem cell exosomes attenuates myofibroblast transformation via inhibiting autophagy through TGF-β/Smad2 axis in oral submucosal fibrosis by Jinhao Xu, Yujing Wang, Zifei Shao, Yuxi Zhou, Xin Bin, Lian Liu, Weiman Huang, Xidi Wang, Yanjia Hu, Kun Li

“…We suggested that ADSCs-EXO could inhibit myofibroblast transformation via inhibiting autophagy through TGF-β/Smad2 axis in OSF, providing new insights for autophagy-based intervention strategies.…”
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Single-cell protein-DNA interactomics and multiomics tools for deciphering genome regulation by Xiong Haiqing, Wang Runyu, He Aibin

“…The emergence of single-cell genomic and transcriptomic sequencing accelerates the development of single-cell epigenomic technologies, providing an unprecedented opportunity for decoding cell fate decisions largely encoded in the epigenome. …”
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Pathogen Recognition and Activation of the Innate Immune Response in Zebrafish by Michiel van der Vaart, Herman P. Spaink, Annemarie H. Meijer

“…In addition, its suitability for genetic approaches is providing new insights on the mechanisms underlying the innate immune response. …”
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Genome-wide identification of the Hsp70 gene family in Penaeus chinensis and their response to environmental stress by Xinran Li, Miao Zhu

“…To the best of our knowledge, this is the first study to systematically analyze the Hsp70 gene family in shrimp. The results provide important information on shrimp Hsp70s, contributing to a better understanding of the role of these genes in environmental stress and providing a basis for further functional studies.…”
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Preliminary Analysis of the Salt-Tolerance Mechanisms of Different Varieties of Dandelion (<i>Taraxacum mongolicum</i> Hand.-Mazz.) Under Salt Stress by Wei Feng, Ran Meng, Yue Chen, Zhaojia Li, Xuelin Lu, Xiuping Wang, Zhe Wu

“…Here, we compared the transcriptome and metabolome responses of 0.7% NaCl-stressed dandelion ‘BINPU2’ (variety A) and ‘TANGHAI’ (variety B). …”
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HDAC9-Mediated Pyroptosis Promotes Orthodontically Induced Inflammatory Root Resorption by Lin Chen, Limin Liu, Tianwei Lin, Zhihui Mai, Hongfei Lu, Bingxue Hu, Junhao Huang, Hong Ai

“…Clinical relevance: This study reveals the regulatory mechanism of pyroptosis in OIIRR from the perspective of epigenetic modifications, providing new insights into the pathogenesis of OIIRR.…”
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Genome of the invasive North American Haemaphysalis longicornis tick as a template for bovine anti-tick vaccine discovery by Mohamed Abdallah Mohamed Moustafa, Miranda M. Barnes, Nicole E. Wagner, Deanna Bodine, Kylie Bendele, Pete D. Teel, Perot Saelao, Dana C. Price

“…To further such research, here we sequence and assemble a high-quality H. longicornis genome and robust gene catalog from invasive North American ticks while also providing an organ-specific transcriptomic expression catalog and in-depth informatic screening of the tick proteome for potential bovine antigenic molecules with potential utility as vaccine candidates. …”
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LRRFIP1 enhances the Wnt/β-catenin pathway by binding to DVLs in myelodysplastic syndrome by Xiaoli Zhao, Yutian Lei, Han Zhu, Wenyi Shen, Sixuan Qian, Jianyong Li, Yu Zhu

“…Methods In MDS cell lines, mRNA transcriptome sequencing and Dual luciferase reporter gene assays were employed to assess Wnt/β-catenin signaling pathway activity. …”
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Deciphering gene regulatory programs in mouse embryonic skin through single-cell multiomics analysis by Qiuting Deng, Pengfei Cai, Yingjie Luo, Zhongjin Zhang, Wen Ma, Zijie Huang, Xiaoya Chen, Shijie Hao, Weiguang Ma, Jiangshan Xu, Chunqing Wang, Mengnan Cheng, Xiumei Lin, Ru Zhou, Shanshan Duan, Junjie Chen, Ronghai Li, Xuyang Shi, Chang Liu, Liang Wu, Peng Gao, Jianting Li, Xiao Yang, Xiangdong Wang, Jun Xie, Longqi Liu, Yue Yuan, Chuanyu Liu

“…Here, we present high-throughput single-cell chromatin accessibility and transcriptome sequencing (HT-scCAT-seq), a method that simultaneously profiles transcriptome and chromatin accessibility. …”
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The Effects of FTO on the Proliferation and Differentiation of Rabbit Preadipocytes by Jiaxue Wang, Wenqiang Sun, Xianbo Jia, Jie Wang, Hengwei Yu, Songjia Lai

“…Therefore, we employed transcriptome sequencing to identify 422 differentially expressed genes (DEGs) between the FTO overexpression group and the FTO-negative control group. …”
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Distinct immune responses associated with vaccination status and protection outcomes after malaria challenge. by Damian A Oyong, Fergal J Duffy, Maxwell L Neal, Ying Du, Jason Carnes, Katharine V Schwedhelm, Nina Hertoghs, Seong-Hwan Jun, Helen Miller, John D Aitchison, Stephen C De Rosa, Evan W Newell, M Juliana McElrath, Suzanne M McDermott, Kenneth D Stuart

“…In-depth single-cell profiling of cell subsets that respond to CHMI in mock-vaccinated individuals showed a predominantly inflammatory transcriptome response. Whole blood transcriptome analysis revealed that gene sets associated with type I and II interferon and NK cell responses were increased in prior to CHMI while T and B cell signatures were decreased as early as one day following CHMI in protected vaccinees. …”
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Genome assembly and annotation of the parasitoid jewel wasp Nasonia oneida by Anjali Rana, Paras Verma, Shashi Bhushan Pandit, John H. Werren, Xu Wang, Rhitoban Raychoudhury

“…Comparative genomics of N. oneida with 15 other hymenopteran species validated the presence of 5,939 gene families shared among them, including 3643 single-copy and 2296 multicopy gene families. This study provides the first de novo assembly of N. oneida, providing a significant addition to the growing repertoire of molecular tools for comparative genomics and functional studies to understand the evolution of closely related species as well as the evolution of parasitic wasps.…”
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Preliminary investigation of the effect of ferulic acid on miRNAs and LncRNAs in Mongolian horse skeletal muscle satellite cells by Wendian Gong, Wenqi Ding, Tugeqin Bou, Lin Shi, Yanan Lin, Xiaoyuan Shi, Zheng Li, Huize Wu, Manglai Dugarjaviin, Dongyi Bai

“…Dual luciferase reporter assays confirmed that LncRNA MSTRG.7632.14 competitively binds to eca-miR-6529, thereby relieving its inhibitory effect on PDK1 and forming a biologically functional regulatory axis.ConclusionThis study reveals that ferulic acid can regulate muscle fiber proliferation and type transformation through the interaction network of non-coding RNAs and target genes, providing potential targets for optimizing the athletic performance and muscle function of equids.…”
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Multi-level regulation of hindgut homeostasis by volatile fatty acid administration in dairy goats: linking microbial metabolism to epithelial inflammation and barrier function by Yongkang Zhen, Ali Rahmat, Chong Zhang, Jiaqi Lin, Jianjun Ma, Yuhong Zhong, Mengzhi Wang

“…ABSTRACT This study provided a comprehensive exploration of the nutritional regulation of volatile fatty acids (VFAs) on hindgut microbial metabolism and epithelial homeostasis in dairy goats. …”
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Dynamics of transcriptional programs and chromatin accessibility in mouse spermatogonial cells from early postnatal to adult life by Irina Lazar-Contes, Rodrigo G Arzate-Mejia, Deepak K Tanwar, Leonard C Steg, Kerem Uzel, Olivier Ulrich Feudjio, Marion Crespo, Pierre-Luc Germain, Isabelle M Mansuy

“…We examined if such dynamics involves changes in chromatin organization by profiling the transcriptome and chromatin accessibility of SPGs from early postnatal stages to adulthood in mice using deep RNA-seq, ATAC-seq and computational deconvolution analyses. …”
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Injectable and Assembled Calcium Sulfate/Magnesium Silicate 3D Scaffold Promotes Bone Repair by In Situ Osteoinduction by Wei Zhu, Tianhao Zhao, Han Wang, Guangli Liu, Yixin Bian, Qi Wang, Wei Xia, Siyi Cai, Xisheng Weng

“…In vivo results confirmed enhanced trabecular density and bone volume compared to controls, indicating effective bone repair and regeneration. (4) Conclusions: The Mg@Ca scaffold offers a promising therapeutic approach for ONFH, providing a minimally invasive solution for bone defect repair while stimulating natural bone regeneration. …”
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Mechanisms of adipocyte regulation: Insights from HADHB gene modulation. by Chaoyun Yang, Shuzhe Wang, Yunxia Qi, Yadong Jin, Ran Guan, Zengwen Huang

“…Subsequently, the transcriptome data were analyzed using bioinformatics. …”
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Exploring the antimicrobial peptidome of nematodes through phylum-spanning in silico analyses highlights novel opportunities for pathogen control. by Allister Irvine, Sharon A Huws, Louise E Atkinson, Angela Mousley

“…Antimicrobial Peptides (AMPs) are key constituents of the invertebrate innate immune system and provide critical protection against microbial threat. …”
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