Diagnostic potential of salivary microbiota in persistent pulmonary nodules: identifying biomarkers and functional pathways using 16S rRNA sequencing and machine learning by Xiao Zeng, Qiong Ma, Chun-Xia Huang, Jun-Jie Xiao, Xi Fu, Yi-Feng Ren, Yu-Li Qu, Hong-Xia Xiang, Mao Lei, Ru-Yi Zheng, Yang Zhong, Ping Xiao, Xiang Zhuang, Feng-Ming You, Jia-Wei He

“…Saliva samples were subjected to sequencing of the V3–V4 region of the 16S rRNA gene to assess microbial diversity and differential abundance. …”
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Potential protective role of Bifidobacteria in myopia prevention: evidence from full-length 16S rRNA sequencing and bidirectional Mendelian randomization analysis by Guodong Tang, Yibo Han, Xiaoqi Gong, Xuejing Wang, Jing Li, Jun Zhang, Junru Wang, Jike Song, Jike Song, Hongsheng Bi, Hongsheng Bi

“…Subsequently, MR estimates were calculated using the inverse variance weighted, MR-Egger regression, and weighted median approaches, along with supplementary sensitivity evaluations. Concurrently, FDM was experimentally induced in guinea pigs, and fecal samples were subjected to comprehensive full-length 16S rRNA gene sequencing analysis.ResultsMR analysis identified five bacterial taxa linked to the risk of myopia. …”
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Improved Predictability of Diagnosis and Prognosis Using Serum‐ and Tissue‐Derived Extracellular Vesicles From Bulk mRNA Sequencing in Pancreatic Ductal Adenocarcinoma by Qian Zhu, Zhang Chen, Ming Tian, Xin Yan, Xiangdong Gongye, Zhicheng Liu, Anbang Zhao, Zhiyong Yang, Yufeng Yuan

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Transcriptome sequencing revealed that lymph node metastasis of papillary thyroid microcarcinoma is associated with high THBS4 expression and PDGFRA+ cancer-associated fibroblasts by LeYin Hu, Yi Lin, JingYu Zheng, Li Wan, Rui Zhao, Yi Ma, JianMin Li

“…The study defined two groups of PTMC patients: LNM(n=50) and NLNM(n=50). 10 samples from each group were used for transcriptome sequencing. The expression of THBS4 was evaluated in both groups. …”
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Next-generation diagnostics of bloodstream infections enabled by rapid whole-genome sequencing of bacterial cells purified from blood culturesResearch in context by Vincenzo Di Pilato, Chiara Bonaiuto, Fabio Morecchiato, Alberto Antonelli, Tommaso Giani, Gian Maria Rossolini

“…We developed a analytical workflow named LC-WGS (Whole-Genome Sequencing of Liquid Colony) for rapid whole-genome sequencing-based diagnosis of BSI, evaluating its accuracy performance over standard of care (SoC) diagnostic procedures. …”
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Sequence and protein three-dimensional structure analysis of a novel inter-allelic recombination allele B*35∶186 of HLA-B locus by ZHANG Xu, LIN Fengqiu, LI Xiaofeng, LI Jianping

“…Sequence-based typing (SBT) and gene clone were used to analyze exons 1-4 sequences of HLA-B allele. …”
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ANALYSIS OF DIFFERENTIAL ExPRESSION OF MATRIx METALLOPROTEASES IN STABLE AND UNSTABLE ATHEROSCLEROTIC LESIONS BY A METHOD OF FULL GENOME SEQUENCING OF RNA: PILOT STUDY by D. Е. Ivanoschuk, Yu. I. Ragino, E. V. Shakhtshneider, S. V. Mikhailova, V. S. Fishman, Ya. V. Polonskaya, E. V. Kashtanova, A. M. Chernyavsky, I. S. Murashov, М. I. Voevoda

“…To analyze differential expression of metalloproteases genes, involved into the processes of stabilization/destabilization of atherosclerotic plaque, with the method of full genome sequencing of RNA, and to evaluate the level of metalloproteases in homogenates of plaques of various types by immune enzyme assay method (IEA).Material  and  methods.  …”
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Dynamic relationship between gut microbiota and post-necrotizing pancreatitis: insights from a multi-stage 16S rRNA sequencing study by Jiongdi Lu, Jiongdi Lu, Zhe Wang, Zhe Wang, Feng Cao, Feng Cao, Jia Li, Guofeng Ji, Guofeng Ji, Fei Li, Fei Li

“…Clinical data were correlated with GM profiles to evaluate associations.Results29.5% and 19.1% of NP patients progressed to pancreatic endocrine and exocrine insufficiency, respectively. …”
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Phosphate transporter gene families in rye (Secale cereale L.) – genome-wide identification, characterization and sequence diversity assessment via DArTreseq by David Chan-Rodriguez, Brian Wakimwayi Koboyi, Sirine Werghi, Bradley J. Till, Julia Maksymiuk, Fatemeh Shoormij, Abuya Hilderlith, Anna Hawliczek, Maksymilian Królik, Hanna Bolibok-Brągoszewska

“…The aim of this study was to: (i) identify and characterize putative members of different phosphate transporter families in rye, (ii) assess their sequence diversity in a collection of 94 diverse rye accessions via low-coverage resequencing (DArTreseq), and (iii) evaluate the expression of putative rye Pht genes under phosphate-deficient conditions. …”
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Integrating single-cell sequencing and transcriptome analysis to unravel the mechanistic role of sialylation-related genes in sepsis-induced acute respiratory distress syndrome by Xiaobing Liu, Yake Huang, Hao Zhang, Xia Yang, Quanxing Liu, Jigang Dai

“…Furthermore, single-cell RNA sequencing (scRNA-seq) data analysis was conducted to obtain key cells. …”
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Comparison of pathogen detection performance between metagenomic next-generation sequencing and conventional culture in organ preservation fluids and recipient wound drainage fluid... by Jiyuan Li, Wenjia Yuan, Chen Gao, Lei Liu, Lei Song, Wei Cao, Xuejing Zhu, Yachun Han, Ruobing Liang, Gongbin Lan, Shaojie Yu, Yu Wang, Liang Tan, Helong Dai, Xubiao Xie, Longkai Peng, Fenghua Peng

“…This study aims to assess the effectiveness of metagenomic next-generation sequencing (mNGS) in detecting pathogens within donor organ preservation fluids and recipient wound drainage fluids, with a comparison made against conventional culture methods.MethodsThis study involved 141 kidney transplant patients (May 1st, 2020 to Jan 31st, 2024). …”
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Highly multiplexed molecular inversion probe panel in Plasmodium falciparum targeting common SNPs approximates whole-genome sequencing assessments for selection and relatedness by Karamoko Niaré, Karamoko Niaré, Rebecca Crudale, Abebe A. Fola, Abebe A. Fola, Neeva Wernsman Young, Victor Asua, Victor Asua, Melissa D. Conrad, Pierre Gashema, Anita Ghansah, Stan Hangi, Deus S. Ishengoma, Deus S. Ishengoma, Jean-Baptiste Mazarati, Ayalew Jejaw Zeleke, Philip J. Rosenthal, Abdoulaye A. Djimdé, Abdoulaye A. Djimdé, Jonathan J. Juliano, Jonathan J. Juliano, Jonathan J. Juliano, Jeffrey A. Bailey, Jeffrey A. Bailey

“…We optimized the panel alone and in combination with antimalarial drug resistance MIPs in laboratory P. falciparum strains at different parasitemias and validated it by sequencing field isolates from the Democratic Republic of Congo, Ethiopia, Ghana, Mali, Rwanda, Tanzania, and Uganda and evaluating the population structure, identity-by-descent (IBD), signals of selection, and complexity of infection (COI).ResultsThe new panel IBC2FULL consisted of 2,128 MIPs (containing 4,264 common SNPs) spaced by 5.1–18.4 kb across the entire genome. …”
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Optimisation and clinical validation of a metagenomic third-generation sequencing approach for aetiological diagnosis in bronchoalveolar lavage fluid of patients with pneumoniaRese... by Shanshan Zhang, Xi Li, Xia Li, Ying Fu, Long Chen, Wei Wang, Qinqing Lin, Hui Lou, Yake Yao, Wenyu Chen, Cheng Zhong, Jian Ye, Yinan Yao, Huimin Guo, Yunsong Yu, Hua Zhou

“…Summary: Background: Metagenomic Third Generation Sequencing (mTGS), based on nanopore technology, has emerged as a promising tool for the rapid diagnosis of pneumonia pathogens. …”
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Genetic Diversity of Peach (<i>Prunus persica</i>) Accessions Collected in Northern Vietnam Using ISSR Markers by Dinh Ha Tran, Thanh Huyen Dao, Xuan Binh Ngo, Van Hong Nguyen, Thanh Van Dao, Tien Dung Nguyen

“…This study investigated the genetic diversity of 59 peach accessions collected from northern mountainous provinces in Vietnam using ISSR (inter-simple sequence repeat) markers. The obtained results enabled the evaluation of genetic variation and relationships among peach varieties, which supports breeding programs and germplasm conservation. …”
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A Spatial Decision Support Model for Fire Station Construction Prioritization Under Resource Constraints by Yuan Zeng, Dingli Liu, Diping Yuan, Weijun Liu, Guohua Wu, Xiao Lei

“…The construction urgency of the proposed fire stations was assessed using the construction sequence scoring equation. To validate the model, a case study of Shaoyang City, China, was conducted. …”
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Optimal modes of side-section flow in heat-pump-assisted extractive distillation systems for separating allyl alcohol–allyl acetate mixtures with butyl propionate by P. S. Klauzner, D. G. Rudakov, E. A. Anokhina, A. V. Timoshenko

“…For the economical evaluation, Aspen Process Economic Analyzer V10.1 tools were used.Results. …”
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Rare urogenital malformation with prune belly syndrome in a newborn female: A case report by Melanie Elhafid, Kristopher Milbrandt

“…Urorectal septum malformation sequence (URSMS) is an even more rare congenital anomaly defined by the presence of ambiguous genitalia, absent perineal openings, and lumbosacral abnormalities. …”
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Identification and Evaluation of the Urinary Microbiota Associated With Bladder Cancer by Nannan Li, Lei Wang, Qin Yang, Fuqiang Li, Zhun Shi, Xiujie Feng, Liwei Zhang, Xiaojian Li, Xin Jin, Shida Zhu, Kui Wu, Ningchen Li

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Evaluating extraction methods to study canine urine microbiota. by Ryan Mrofchak, Christopher Madden, Morgan V Evans, Vanessa L Hale

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A novel evaluation of genetic polymorphism in BCG adenitis by Maryam Hassanzad, Poupak Farnia, Sepideh Darougar, Ali Akbar Velayati

“…Then genotyping for known mutations was performed using restriction fragments length polymorphism (PCR-RFLP) assays. Sequencing was performed for IL-12 Rβ1, IFN-ϒ receptor 1, IL-10, TNF-α and P2X7. …”
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