scRNA‐seq data analysis method to improve analysis performance by Junru Lu, Yuqi Sheng, Weiheng Qian, Min Pan, Xiangwei Zhao, Qinyu Ge

Subjects: “…bioinformatics…”
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Molecular simulations reveal intricate coupling between agonist-bound β-adrenergic receptors and G protein by Yanxiao Han, John R.D. Dawson, Kevin R. DeMarco, Kyle C. Rouen, Khoa Ngo, Slava Bekker, Vladimir Yarov-Yarovoy, Colleen E. Clancy, Yang K. Xiang, Surl-Hee Ahn, Igor Vorobyov

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dataFishing: An efficient Python tool and user-friendly web-form for mining mitochondrial and chloroplast sequences, taxonomic, and biodiversity data by Luan Rabelo, Davidson Sodré, Oscar David Albito Balcázar, Murilo Furtado do Rosário, Aurycéia Jaquelyne Guimarães-Costa, Grazielle Gomes, Iracilda Sampaio, Marcelo Vallinoto

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dotears: Scalable and consistent directed acyclic graph estimation using observational and interventional data by Albert Xue, Jingyou Rao, Sriram Sankararaman, Harold Pimentel

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CCDC88A could serve as a prognostic biomarker for SARC patients by Yunpeng Qiu, Qiao Zhang, Xing Liu

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Enhancing unsupervised learning in medical image registration through scale-aware context aggregation by Yuchen Liu, Ling Wang, Xiaolin Ning, Yang Gao, Defeng Wang

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Overexpression of metalloproteinase PAPPA accelerates cancer progression and correlates with immune cell infiltration in gastric cancer: insights from bioinformatics and in vitro investigations by Shiya Yu, Shiyao Zheng, Jinwei Qiu, Hongming Lin, Xiaojuan Yu, Huiyan Chen, Junhong Wu, Weihang Wu, Jiong Chen, Yongyuan Chen, Jianwei Chen, Hu Zhao, Yu Wang

“…Pregnancy-associated plasma protein-A(PAPPA) is thought to play an important role in the occurrence and progression of cancer, yet its significance in the development of GC has not been reported. Methods Bioinformatics analysis elucidated PAPPA's expression in GC and its prognostic significance. …”
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GlucoGenes^®, a database of genes and proteins associated with glucose metabolism disorders, its description and applications in bioinformatics research by V. V. Klimontov, K. S. Shishin, R. A. Ivanov, M. P. Ponomarenko, K. A. Zolotareva, S. A. Lashin

“…The data were collected using text mining of the publications indexed in PubMed and PubMed Central and analysis of gene networks associated with hyperglycemia, hypoglycemia and glucose variability performed with ANDSystems, a bioinformatics tool. GlucoGenes® is freely available at: https://glucogenes.sysbio.ru/genes/main. …”
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Bioinformatics combining machine learning and single-cell sequencing analysis to identify common mechanisms and biomarkers of rheumatoid arthritis and ischemic heart failure by Ziyi Sun, Jianguo Lin, Xiaoning Sun, Zhangjun Yun, Xiaoxiao Zhang, Siyu Xu, Jinlong Duan, Kuiwu Yao

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New Insights into the Role of Inflammatory Pathways and Immune Cell Infiltration in Sleep Deprivation-Induced Atrial Fibrillation: An Integrated Bioinformatics and Experimental Study by Liang J, Tang B, Shen J, Rejiepu M, Guo Y, Wang X, Shao S, Guo F, Wang Q, Zhang L

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Mechanism of Radix Bupleuri and Hedysarum Multijugum Maxim drug pairs on liver fibrosis based on network pharmacology, bioinformatics and molecular dynamics simulation. by Lefei Yu, Pan Yu, Yongchang Cao, Weiya Cao

“…This study aims to explore the mechanism of RB-HMM drug pairs in treating liver fibrosis by using network pharmacology, bioinformatics, molecular docking, molecular dynamics simulation technology and in vitro experiments. …”
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Retraction Note: Screening and identification of susceptibility genes for cervical cancer via bioinformatics analysis and the construction of an mitophagy-related genes diagnostic model by Zhang Zhang, Fangfang Chen, Xiaoxiao Deng

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Understanding the Molecular Mechanisms of Incomptine A in Treating Non-Hodgkin Lymphoma Associated with U-937 Cells: Bioinformatics Approaches, Part I by Fernando Calzada, Normand García-Hernández, Elihú Bautista, José Manuel Sánchez-López, Miguel Valdes, Claudia Velázquez, Elizabeth Barbosa

“…<b>Conclusions</b>: The results obtained using the five bioinformatic approaches provide information and show that <b>IA</b> could be used to treat non-Hodgkin lymphoma induced with the U-937 cell line. …”
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RETRACTED ARTICLE: Screening and identification of susceptibility genes for cervical cancer via bioinformatics analysis and the construction of an mitophagy-related genes diagnostic model by Zhang Zhang, Fangfang Chen, Xiaoxiao Deng

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Compound identification of Shuangxinfang and its potential mechanisms in the treatment of myocardial infarction with depression: insights from LC-MS/MS and bioinformatic prediction by Yize Sun, Yize Sun, Haibin Zhao, Zheyi Wang

“…The stability of Neocryptotanshinone possessed the lowest binding energy to MAPK3.ConclusionWe identified PCF’s bioactive compounds and predicted its therapeutic mechanism for MI with depression using LC-MS/MS and bioinformatics. Key targets SRC, MAPK3, and seed protein P2RY12 were crucial for PCF’s cardio-neuroprotective effects. …”
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IL1RN and PRRX1 as a Prognostic Biomarker Correlated with Immune Infiltrates in Colorectal Cancer: Evidence from Bioinformatic Analysis by Qi Wang, Xufeng Huang, Shujing Zhou, Yuntao Ding, Huizhi Wang, Weiye Jiang, Min Xu

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Cancer stem cells and tumor-associated macrophages as mates in tumor progression: mechanisms of crosstalk and advanced bioinformatic tools to dissect their phenotypes and interaction by Francesco Verona, Sebastiano Di Bella, Roberto Schirano, Camilla Manfredi, Francesca Angeloro, Giulia Bozzari, Matilde Todaro, Matilde Todaro, Giuseppe Giannini, Giuseppe Giannini, Giorgio Stassi, Veronica Veschi

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Peer Review of “Identifying Safeguards Disabled by Epstein-Barr Virus Infections in Genomes From Patients With Breast Cancer: Chromosomal Bioinformatics Analysis”

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Astaxanthin mitigates doxorubicin-induced cardiotoxicity via inhibiting ferroptosis and autophagy: a study based on bioinformatic analysis and in vivo/vitro experiments by Bowen Yin, Jingyi Ren, Xuanyi Liu, Yadong Zhang, Jinshi Zuo, Rui Wen, Huanting Pei, Miaomiao Lu, Siqi Zhu, Zhenao Zhang, Ziyi Wang, Yanyi Zhai, Yuxia Ma

“…This has substantial practical significance for the clinical application of DOX.MethodsBioinformatic analyses were conducted using transcriptomic data from the gene expression omnibus (GEO) database to identify key mechanisms underlying DIC. …”
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Peer Review of “Identifying Safeguards Disabled by Epstein-Barr Virus Infections in Genomes From Patients With Breast Cancer: Chromosomal Bioinformatics Analysis”

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