Association between clinical-biological characteristics of Klebsiella pneumoniae and 28-day mortality in patients with bloodstream infection by Xiaofeng Yu, Yi Zhao, Xiao Sun, Jiahui Luan, Haiyan Wang, Tianyu Sun, Tongtong Lin, Xia Zhou, Wei Yang, Ziguang Deng, Bo Liu, Hongyun Cao

“…Additionally, relevant bioinformatics analyses, such as phylogenetic analysis and assessment of resistance and virulence genes, were carried out. …”
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Workplace violence against healthcare professionals in a multiethnic area: a cross-sectional study in southwest China by Ying Wang, Qunhong Wu, Mingli Jiao, Kexin Jiang, Huiying Fang, Yameng Wang, Haonan Jia, Ruohui Chen, Lifeng Wei, Gangyu Zhang, Yuanheng Li, Jingqun Li, Xiaowen Jia, Omar Yacouba Ismael, Jingfu Mao

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UBE2T/CDC42/CD276 signaling axis mediates brain metastasis of triple-negative breast cancer via lysosomal autophagy by Lin Li, Rong Fu, Yan Chen, Jin Yao, Xiaobing Jiang, Tao Liang, Jun jun Li, Qian zhi Chen, Liang Liang Shi, Ming Xing Xie, Xin Wei Qiao, Qi Hong Cheng, Min Jie Wang

“…Here, we used public databases and bioinformatics analysis as well as clinical samples from different cohorts to investigate the interrelationship between UBE2T/CDC42/CD276. …”
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Protocol for a randomised ‘screen-and-treat’ Helicobacter pylori eradication trial in 14–18-years-old adolescents residing in three regions of Chile: effectiveness and microbiologi... by Ximena Aguilera, Camila Cabrera, Sergio George, Yalda Lucero, Beatriz Zabala Torres, Lilian Fernández, Nora Mamani, Anne Lagomarcino, Miguel O'Ryan

“…The gut microbiome will be characterised by amplifying and sequencing the 16S rRNA gene from stool samples, followed by bioinformatics analysis.Ethics and dissemination Approved by the Human Research Ethics Committee at the Faculty of Medicine, University of Chile (073–2022). …”
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Mathematical modeling in autoimmune diseases: from theory to clinical application by Yaroslav Ugolkov, Yaroslav Ugolkov, Yaroslav Ugolkov, Antonina Nikitich, Antonina Nikitich, Cristina Leon, Gabriel Helmlinger, Kirill Peskov, Kirill Peskov, Kirill Peskov, Kirill Peskov, Victor Sokolov, Victor Sokolov, Alina Volkova, Alina Volkova

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Multiomic characterization, immunological and prognostic potential of SMAD3 in pan-cancer and validation in LIHC by Tao Zhou, Dan Dan Zhang, Jiejing jin, Jinyang Xie, Jianhua Yu, Chao Zhu, Rong Wan

“…Nevertheless, an extensive examination of the comprehensive pan-cancer impact on SMAD3’s diagnostic, prognostic, and immunological predictive utility has yet to be undertaken. Bioinformatics methods were employed to systematically investigate the potential carcinogenic impact of SMAD3. …”
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Overcoming beta-lactam resistance in Pseudomonas aeruginosa by targeting metallo-beta-lactamase VIM-1: a one-microsecond molecular dynamics simulation study by Mohammed Salleh M. Ardawi, Samar A. Badreddine, Muhammad Yasir, Muhammad Yasir, Aiah M. Khateb, Aiah M. Khateb, Safaa A. Turkistani, Ahmed Afandi, Samah O. Noor, Adhari Alselmi, Adhari Alselmi, Vivek Dhar Dwivedi, Vivek Dhar Dwivedi, Esam I. Azhar, Esam I. Azhar

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Neurological history both twinned and queried by generative artificial intelligence by Jung-Hyun Lee, Jung-Hyun Lee, Jung-Hyun Lee, Eunhee Choi, Sergio L. Angulo, Sergio L. Angulo, Robert A. McDougal, Robert A. McDougal, Robert A. McDougal, Robert A. McDougal, William W. Lytton, William W. Lytton, William W. Lytton

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Circular RNA circBNC2 inhibits tumorigenesis by modulating ferroptosis and acts as a nanotherapeutic target in prostate cancer by Xiang Pan, Kailai Chen, Wei Gao, Meiqi Xu, Fanlong Meng, Mengyuan Wu, Zi Qi Wang, Yun Qi Li, Wanhai Xu, Manjie Zhang, Yakun Luo

“…Results We identified a novel tumor-suppressive circRNA, circBNC2, in human PCa, CRPC and NEPC samples via bioinformatic analysis. CircBNC2 expression was significantly downregulated in PCa tissues and PCa cell lines. …”
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Genomic epidemiology of third-generation cephalosporin-resistant Escherichia coli from companion animals and human infections in Europe by Adrien Biguenet, Benoit Valot, Farid El Garch, Xavier Bertrand, Didier Hocquet

“…The aim of this study was to compare the genomes of third-generation cephalosporin-resistant (3GC-R) Escherichia coli responsible for human and pet infections in Europe.Whole-genome sequencing data from 3GC-R E. coli isolated from clinical samples of humans, dogs and cats, and published in eight European studies were re-analyzed using bioinformatics tools. The acquired genes responsible for 3GC-R were identified. …”
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Sugarcane: an unexpected habitat for black yeasts in Chaetothyriales by Flávia de F. Costa, Rafael S. C. de Souza, Morgana F. Voidaleski, Renata R. Gomes, Guilherme F. Reis, Bruna J. F. de S. Lima, Giovanna Z. Candido, Marlon R. Geraldo, Jade M. B. Soares, Gabriela X. Schneider, Edvaldo da S. Trindade, Israel H. Bini, Leandro F. Moreno, Amanda Bombassaro, Flávio Queiroz-Telles, Roberto T. Raittz, Yu Quan, Paulo Arruda, Derlene Attili-Angelis, Sybren de Hoog, Vania A. Vicente

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Integrative analysis of miRNA expression data reveals a minimal signature for tumour cells classification by Sabrina Napoletano, David Dannhauser, Paolo Antonio Netti, Filippo Causa

“…In this study, we present a comprehensive integrative approach that utilizes transcriptomic data from lung, breast, and melanoma cancer cell lines to identify specific expression patterns. By combining bioinformatics, dimensionality reduction techniques, machine learning, and experimental validation, we pinpoint miRNAs linked to critical biological pathways. …”
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Hypoxic BMSC-derived exosomal miR-210-3p promotes progression of triple-negative breast cancer cells via NFIX-Wnt/β-catenin signaling axis by Meng Wang, Yi Zheng, Qian Hao, Guochao Mao, Zhijun Dai, Zhen Zhai, Shuai Lin, Baobao Liang, Huafeng Kang, Xiaobin Ma

“…Methods Exosomes were isolated via ultracentrifugation and identified using scanning electron microscopy (SEM), nanoparticle tracking analysis (NTA) and western blot. A range of bioinformatics approaches were used to screen exosomal miRNAs and the target mRNAs of miRNAs and predict the possible signaling pathways. …”
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Erroneous Classification and Coding as a Limitation for Big Data Analyses: Causes and Impacts Illustrated by the Diagnosis of Clavicle Injuries by Robert Raché, Lara-Sophie Claudé, Marcus Vollmer, Lyubomir Haralambiev, Denis Gümbel, Axel Ekkernkamp, Martin Jordan, Stefan Schulz-Drost, Mustafa Sinan Bakir

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Modulating tumor-associated macrophages through CSF1R inhibition: a potential therapeutic strategy for HNSCC by Kaiting Chen, Xiaochen Li, Shuyi Dong, Yu Guo, Ziyin Luo, Shi-Min Zhuang, Jie Liu, Tianrun Liu, Jing Liao, Weiping Wen

“…This study explores whether targeting TAMs can suppress the progression of head and neck squamous cell carcinoma (HNSCC) and improve the efficacy of chemotherapy. Methods Bioinformatics analyses were performed to evaluate TAMs infiltration levels in HNSCC tumor tissues and examine their associations with patients’ clinicopathological characteristics and prognosis. …”
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YAP-driven malignant reprogramming of oral epithelial stem cells at single cell resolution by Farhoud Faraji, Sydney I. Ramirez, Lauren M. Clubb, Kuniaki Sato, Valeria Burghi, Thomas S. Hoang, Adam Officer, Paola Y. Anguiano Quiroz, William M. G. Galloway, Zbigniew Mikulski, Kate Medetgul-Ernar, Pauline Marangoni, Kyle B. Jones, Yuwei Cao, Alfredo A. Molinolo, Kenneth Kim, Kanako Sakaguchi, Joseph A. Califano, Quinton Smith, Alon Goren, Ophir D. Klein, Pablo Tamayo, J. Silvio Gutkind

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Activated CD27+PD-1+ CD8 T Cells and CD4 T Regulatory Cells Dominate the Tumor Microenvironment in Refractory Celiac Disease Type II by Tessa Dieckman, Mette Schreurs, Ciska Lindelauf, Ahmed Mahfouz, Caroline R. Meijer, Louise Pigeaud, Vincent van Unen, Gerd Bouma, Frits Koning

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CYFIP2: potential pancreatic cancer biomarker and immunotherapeutic target by Cong Xiao, Xiaojuan Zhang, Bobo Hou, Ping Wan, Zhenjun Cao, Xuefeng Rao

“…Pancreatic cancer cell lines were constructed with the specific expression of CYFIP2 mRNA, and their invasive and metastatic abilities were analysed using scratch and transwell assays. Results Bioinformatics analysis and in vitro experiments confirmed that CYFIP2 was differentially expressed in a variety of tumors and correlated with clinical stage, and could be used as a potential marker for evaluating the prognosis and immunotherapy of a variety of tumors, including KIRC (Kidney renal clear cell carcinoma), PAAD (Pancreatic adenocarcinoma), PAAD (Pancreatic adenocarcinoma), SKCM (Skin Cutaneous Melanoma), and UCEC (Uterine Corpus Endometrial Carcinoma).Mutations in the CYFIP2 gene and methylation indices can affect the prognosis of tumor patients. …”
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Adenomas from individuals with pathogenic biallelic variants in the MUTYH and NTHL1 genes demonstrate base excision repair tumour mutational signature profiles similar to colorecta... by Romy Walker, Jihoon E. Joo, Khalid Mahmood, Mark Clendenning, Julia Como, Susan G. Preston, Sharelle Joseland, Bernard J. Pope, Ana B.D. Medeiros, Brenely V. Murillo, Nicholas Pachter, Kevin Sweet, Allan D. Spigelman, Alexandra Groves, Margaret Gleeson, Krzysztof Bernatowicz, Nicola Poplawski, Lesley Andrews, Emma Healey, Steven Gallinger, Robert C. Grant, Aung K. Win, John L. Hopper, Mark A. Jenkins, Giovana T. Torrezan, Christophe Rosty, Finlay A. Macrae, Ingrid M. Winship, Daniel D. Buchanan, Peter Georgeson

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Artisanal and farmer bread making practices differently shape fungal species community composition in French sourdoughs by Michel, Elisa, Masson, Estelle, Bubbendorf, Sandrine, Lapicque, Léocadie, Nidelet, Thibault, Segond, Diego, Guézenec, Stéphane, Marlin, Thérèse, Devillers, Hugo, Rué, Olivier, Onno, Bernard, Legrand, Judith, Sicard, Delphine

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