Bacillus vallismortis acts against ginseng root rot by modifying the composition and microecological functions of ginseng root endophytes by Yang Hu, Liu-yang Yang, Meng-yuan Lei, Yi-xin Yang, Zhuo Sun, Wan Wang, Zhong-ming Han, Lin Cheng, Ze-liang Lv, Mei Han, Li-min Yang

“…We employed high-throughput sequencing to examine the microbial community structure of ginseng roots at different disease levels, explore beneficial endophytic bacteria, and evaluate the efficacy of strain SZ-4 in mitigating root rot through synergistic interactions with ginseng endophytic flora.ResultsThe application of the PGPR B. vallismortis SZ-4 biocontrol fungicide has been found to help ginseng resist Fusarium solani by modulating the richness and structure of endophytic microbial populations. …”
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Optimizing extraction of microbial DNA from urine: Advancing urinary microbiome research in bladder cancer by Chuang-Ming Zheng, Ho Won Kang, Seongmin Moon, Young Joon Byun, Won Tae Kim, Yung Hyun Choi, Sung-Kwon Moon, Xuan-Mei Piao, Seok Joong Yun

“…Microbial analysis was conducted on 138 samples (108 cancerous and 30 benign) using 16S rRNA sequencing. Prior to sequencing on the Illumina MiSeq platform, Victor 3 fluorometry was used for validation. …”
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Transcription factor ZNF266 suppresses cancer progression by modulating CA9-mediated intracellular pH alteration in lung adenocarcinoma by Shencheng Ren, Junkan Zhu, Guangyao Shan, Jiaqi Liang, Yunyi Bian, Han Lin, Haochun Shi, Binyang Pan, Guangyin Zhao, Huiqin Yang, Xiaolong Huang, Cheng Zhan, Di Ge, Guoshu Bi

“…Methods Using high-throughput sequencing data, we observed a significant downregulation of ZNF266 expression in LUAD tissues. …”
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Extracellular vesicles from microglial cells activated by abnormal heparan sulfate oligosaccharides from Sanfilippo patients impair neuronal dendritic arborization by Chloé Dias, Nissrine Ballout, Guillaume Morla, Katia Alileche, Christophe Santiago, Ida Chiara Guerrera, Adeline Chaubet, Jerome Ausseil, Stephanie Trudel

“…This work provides a framework for further studies of biomarkers to evaluate efficiency of emerging therapies. Graphical Abstract…”
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Identification of genetic mechanisms of non-isolated auditory neuropathy with various phenotypes in Chinese families by Yang Cao, Xiaolong Zhang, Lan Lan, Danyang Li, Jin Li, Linyi Xie, Fen Xiong, Lan Yu, Xiaonan Wu, Hongyang Wang, Qiuju Wang

“…Diagnostic assessments included auditory brainstem response and distortion product otoacoustic emissions, supplemented by other examinations. Whole exome sequencing and Sanger sequencing validated genetic findings. …”
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Enhanced membrane protein production in HEK293T cells via ATF4 gene knockout: A CRISPR-Cas9 mediated approach by Byung-Jo Choi, Ba Reum Kim, Ho Joong Choi, Ok-Hee Kim, Say-June Kim

“…Genome sequencing and membrane protein productivity of ATF4-KO cells were compared to wild-type cells using next-generation sequencing (NGS) and a membrane protein isolation kit, respectively. …”
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Non-coding repeat analyses in patients with Parkinson’s disease by Makito Hirano, Makoto Samukawa, Satoko Miyatake, Satoko Miyatake, Yuko Yamagishi, Chiharu Isono, Rino Yoshikawa, Kazumasa Saigoh, Atsushi Terayama, Yuji Higashimoto, Eriko Koshimizu, Takeshi Mizuguchi, Kanako Fujii, Yoshiyuki Mitsui, Naomichi Matsumoto, Naomichi Matsumoto, Naomichi Matsumoto, Yoshitaka Nagai

“…Recent analyses of non-coding repeat regions revealed that many neurodegenerative diseases are associated with pathological expansions. We evaluated the genetic background of non-coding repeat expansions in Japanese patients with PD.MethodsWe collected blood samples from 203 Japanese patients with PD and analyzed various non-coding repeat genes, including ATXN8OS, RFC1, C9ORF72, NOTCH2NLC, BEAN1/TK2, and NOP56, using PCR-Sanger sequencing, repeat-primed PCR assay, and long-read sequencing.ResultsThree patients with PD (1.5%) were found to have heterozygous repeat expansions in ATXN8OS, the gene causative of spinocerebellar ataxia type 8 and is associated with long non-coding RNA. …”
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Contributions of Germline and Somatic Mosaic Genetics to Thoracic Aortic Aneurysms in Nonsyndromic Individuals by Ming Hui Chen, Ellen S. Deng, Jessica M. Yamada, Sangita Choudhury, Julia Scotellaro, Lily Kelley, Eric Isselbacher, Mark E. Lindsay, Christopher A. Walsh, Ryan N. Doan

“…Methods and Results One hundred eighty‐one consecutive patients <60 years who presented with nonsyndromic TAA at the Massachusetts General Hospital underwent deep (>500×) targeted sequencing across 114 candidate genes associated with TAA and its related functional pathways. …”
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Characterization of a novel cell line established from mice gastrointestinal stromal model by chemical induction by Zhan Zhao, Shenghui Qiu, Xiangwei Zhang, Shijin Liu, Lu Wang, Hanyang Guan, Jiashuai He, Yangzhi Hu, Xiaobo Li, Simin Luo, Zuyang Chen, Tianmu Mo, Yiran Zhang, Xiaoxu Zhao, Yunlong Pan, Hui Ding, Jie Cao, Jinghua Pan

“…RNA sequencing indicated genes associated with cell adhesion and focal adhesion were enriched in mGSTc01 cells. …”
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Role of Compensatory miRNA Networks in Cognitive Recovery from Heart Failure by Verena Gisa, Md Rezaul Islam, Dawid Lbik, Raoul Maximilian Hofmann, Tonatiuh Pena, Dennis Manfred Krüger, Susanne Burkhardt, Anna-Lena Schütz, Farahnaz Sananbenesi, Karl Toischer, Andre Fischer

“…Memory performance was evaluated using hippocampus-dependent behavioral tasks. …”
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Arsenic trioxide regulates DYNAP through hsa-mir-573 and inhibits the proliferation of laryngeal cancer by Yanru Ren, Xiao Yang, Yang Hui, Weiyao Chen, Yi Cheng, Ning Zhang, Tao Liu, Xinxin Yang, Xiaoyu Li

“…LSCC cell lines (TU212, TU686, and AMC-HN-8) were treated with varying concentrations of ATO, and cell proliferation was evaluated using CCK-8, colony formation, and EdU assays. miRNA-sequencing identified differentially expressed miRNAs after ATO treatment, and bioinformatics tools predicted hsa-miR-573 target genes. …”
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Anti-CCR4 treatment depletes regulatory T cells and leads to clinical activity in a canine model of advanced prostate cancer by Tomoki Motegi, Takayuki Nakagawa, Shingo Maeda, Aki Iio, Kenjiro Kaji, Yuko Goto-Koshino, Shotaro Eto, Namiko Ikeda, Ryohei Nishimura, Tomohiro Yonezawa, Yasuyuki Momoi

“…Tumor-infiltrating Tregs was evaluated by immunohistochemistry, and the association with prognosis was examined in dogs with spontaneous prostate cancer. …”
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Microbiota composition-based donor selection affects FMT efficacy in a murine colitis model by Zhongming Dai, Wen Cheng, Huan Peng, Xiaokui Qiu, Jiawen Sun, Xiaoqiang Liu, Xianjiu Sun, Jinwei Cai, Jincui Wang, Guolong Li, Yongling Lv, Shaobo Chen, Zhongying Zhong

“…Dextran sulfate sodium (DSS)-induced colitis mice received donor microbiota transplants; disease activity and microbiota dynamics were evaluated through longitudinal sequencing.ResultsIBD patients showed reduced microbial diversity and increased Proteobacteria phylum versus healthy donors, as well as the genera Escherichia-Shigella, Megamonas, and Klebsiella. …”
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Bayesian-Optimized Convolutional Neural Networks for Classifying Primary Tumor Origin of Brain Metastases from MRI by Jawed Nawabi, Semil Eminovic, Alexander Hartenstein, Georg Lukas Baumgaertner, Nils Schnurbusch, Madhuri Rudolph, David Wasilewski, Julia Onken, Eberhard Siebert, Edzard Wiener, Georg Bohner, Andrea Dell'Orco, Mike P. Wattjes, Bernd Hamm, Uli Fehrenbach, Tobias Penzkofer

“…<b>Background/Objectives</b>: This study evaluates whether convolutional neural networks (CNNs) can be trained to determine the primary tumor origin from MRI images alone in patients with metastatic brain lesions. …”
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Multi-omics exploration of the factors influencing feather coverage in laying hens by Xin Li, Xiaohui Shen, Xiaoliang Wang, Yao Yan, Wei Liu, Kai Zhan, Daqian He, Changsuo Yang, Huaxiang Yan, Junfeng Yao

“…Transcriptomic profiling of cecal tissue was performed via RNA sequencing, while gut microbiota composition was analyzed using 16S rRNA amplicon sequencing. …”
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Integrative DNA methylome and transcriptome analysis identify potential genes on the influence of dilated cardiomyopathy-associated heart failure by Zhenglong Guo, Yunfei Liu, Zhiming Zhou, Jianchao Chen, Lin Guo, Keke Liang, Yibin Hao, Bingtao Hao, Bin Yang, Shixiu Liao

“…Methods Atrial tissues were collected from five healthy donors and five heart transplant recipients suffering from heart failure due to DCM. We conducted RNA-sequencing (RNA-seq) to analyze mRNA expression profiles and performed whole-genome bisulfite sequencing (WGBS) to evaluate DNA methylation levels. …”
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Whole-Genome Resequencing Analysis of Athletic Traits in Grassland-Thoroughbred by Wenqi Ding, Wendian Gong, Tugeqin Bou, Lin Shi, Yanan Lin, Xiaoyuan Shi, Zheng Li, Huize Wu, Manglai Dugarjaviin, Dongyi Bai

“…Based on whole-genome sequencing data, the study achieved an average sequencing depth of 25.63×. …”
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Chromosomal Location and Identification of <i>TBX20</i> as a New Gene Responsible for Familial Bicuspid Aortic Valve by Yan-Jie Li, Su Zou, Yi-Zhe Bian, Xing-Yuan Liu, Chen-Xi Yang, Li Li, Xing-Biao Qiu, Ying-Jia Xu, Yi-Qing Yang, Ri-Tai Huang

“…Biochemical assays were performed to evaluate the functional effect of the identified mutation on TBX20. …”
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Genetic-environmental Risk Factors for Tooth Agenesis: A Familial Case-control Study in China by Xinyue Guo, Taoyun Xu, Xiaohong Duan

“…Clinical examinations, evaluations of 25 potential risk factors, heritability and genetic analyses, including whole-exome sequencing and Sanger sequencing were performed. …”
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Effects of solamargine in hepatic metastasis of colorectal cancer: induction of ferroptosis and elimination of cancer stem cells by Shenglan Liu, Junhong Wu, Hao Huang, Bin Hu, Dong Xie, Fuqiang Cao, Jingxuan Li, Caiyao Guo, WeiJie Peng, Yanli Jin, Wei Dai

“…The purpose of this study was to evaluate the inhibitory effect of SM on human hepatic metastatic CRC and investigate its underlying mechanism. …”
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