Bioinformatics Analysis of Transcriptomic Data Reveals Refined Functional Networks for the Self-Renewal of Mouse Spermatogonial Stem Cells by Min Wang, Wene Zhao, Fuqiang Wang, Xiufeng Ling, Daozhen Chen, Tao Zhou, Ying Wang

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A bioinformatic approach to characterize the vitellogenin receptor and the low density lipoprotein receptor superfamily in the newt Cynops orientalis by Chiara Spinsante, Federica Carducci, Elisa Carotti, Adriana Canapa, Davide Bizzaro, Maria Assunta Biscotti, Marco Barucca

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Bioinformatic identification of important roles of COL1A1 and TNFRSF12A in cartilage injury and osteoporosis by Muzi Liu, Shiguo Gong, Xin Sheng, Zihong Zhang, Xichun Wang

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COSMC-Regulated O-Glycosylation: A Bioinformatics-Driven Biomarker Identification for Stratifying Glioblastoma Stem Cell Subtypes by Sara Sadat Aghamiri, Rada Amin

“…We utilized the TCGA dataset of GBM and presented the reproducible bioinformatics analysis for our results. Our profiling showed enriched O-glycosylation signatures in CD44-expressing GBM cells over CD133, with Cosmc, the chaperone for core mucin-type O-glycosylation, significantly upregulated in the CD44-positive group. …”
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Identification and validation of immune and diagnostic biomarkers for interstitial cystitis/painful bladder syndrome by integrating bioinformatics and machine-learning by Tao Zhou, Can Zhu, Wei Zhang, Qiongfang Wu, Mingqiang Deng, Zhiwei Jiang, Longfei Peng, Hao Geng, Zhouting Tuo, Zhouting Tuo, Ci Zou

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THE SNP-MED SYSTEM FOR ANALYSIS OF THE EFFECT OF SINGLE-NUCLEOTIDE POLYMORPHISMS ON THE FUNCTION OF GENES ASSOCIATED WITH SOCIALLY SIGNIFICANT DISEASES by N. L. Podkolodnyy, D. A. Afonnikov, Yu. Yu. Vaskin, L. O. Bryzgalov, V. A. Ivanisenko, P. S. Demenkov, M. P. Ponomarenko, D. A. Rasskazov, K. V. Gunbin, I. V. Protsyuk, I. Yu. Shutov, P. N. Leontyev, M. Yu. Fursov, N. P. Bondar, E. V. Antontseva, T. I. Merkulova, N. A. Kolchanov

Subjects: “…bioinformatics…”
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Comprehensive guide for epigenetics and transcriptomics data quality control by Arianna Comendul, Frederique Ruf-Zamojski, Colby T. Ford, Pankaj Agarwal, Elena Zaslavsky, German Nudelman, Manoj Hariharan, Aliza Rubenstein, Hanna Pincas, Venugopalan D. Nair, Adam M. Michaleas, Philip D. Fremont-Smith, Darrell O. Ricke, Stuart C. Sealfon, Christopher W. Woods, Kajal T. Claypool, Rafael Jaimes, III

Subjects: “…Bioinformatics…”
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Enabling a fast annotation process with the Table2Annotation tool by Pierre Larmande, Kazim Muhammed Jibril

Subjects: “…bioinformatics…”
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MeStanG—Resource for High-Throughput Sequencing Standard Data Sets Generation for Bioinformatic Methods Evaluation and Validation by Daniel Ramos Lopez, Francisco J. Flores, Andres S. Espindola

Subjects: “…bioinformatics…”
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Retraction: Mechanism of action of Asparagus officinalis extract against multiple myeloma using bioinformatics tools, in silico and in vitro study by Frontiers Editorial Office

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Identifying Safeguards Disabled by Epstein-Barr Virus Infections in Genomes From Patients With Breast Cancer: Chromosomal Bioinformatics Analysis by Bernard Friedenson

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Investigating DNA Methylation of Solute Carrier Genes in Colorectal Cancer: A Comprehensive Analysis Using Microarray and Bioinformatics Tools by Nur Alia Natasya Zabidi, Rashidah Baharudin, Nurul Qistina Rus Bakarurraini, Nur Alyaa Afifah Md Shahri, Francis Tieng Yew Fu, Imilia Ismail, Muhammad Redha Abdullah Zawawi, Jodi Woan-Fei Law, Learn-Han Lee, Nurul-Syakima Ab Mutalib

“…This proposal aims to investigate the DNA methylation status of SLC genes in CRC, utilizing microarray technology and a suite of bioinformatics tools. Methods: Microarray methylation data from CRC and adjacent normal tissues underwent preprocessing, differential methylation analysis, functional enrichment exploration, and correlation analysis for a detailed study of methylation patterns. …”
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Identification of biomarkers associated with coronary artery disease and non-alcoholic fatty liver disease by bioinformatics analysis and machine learning by Chuan Lu, Mei Han, Qiqi Ma, Li Ying, Yue Zhang

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Dissecting the role of single nucleotide polymorphism of lymphotoxin beta gene during pig domestication using bioinformatic and experimental approaches by R. B. Aitnazarov, E. V. Ignatieva, N. E. Bazarova, V. G. Levitsky, S. P. Knyazev, Y. Gon, N. S. Yudin

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CTSK and PLAU as Prognostic Biomarker and Related to Immune Infiltration in Pancreatic Cancer: Evidence from Bioinformatics Analysis and qPCR by Yuntao Ding, Zhangzuo Li, Huizhi Wang, Qi Wang, Han Jiang, Zhengyue Yu, Min Xu

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Construction of a circRNA-miRNA-mRNA Regulatory Network for Coronary Artery Disease by Bioinformatics Analysis by Zebo Zhang, Haiyan Qian, Li Wang, Zhenbo Tao, Keai Cheng, Kaiyue Wang, Yanqing Xie, Lina Zhang

“…The gene expression profiles of CAD were obtained from Gene Expression Omnibus datasets. Bioinformatics analysis was performed to construct a ceRNA regulatory network, from which the hub genes involved were identified through protein-protein interaction (PPI) networks leading to the identification of the circRNA-miRNA-hub gene subnetwork. …”
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Expression and prognostic value of ferritinophagy-related NCOA4 gene in low-grade glioma: integration of bioinformatics and experimental validation by Guangtang Chen, Xueping Shi, Rukai Jiao, Jiacai Qian, Xiaolin Du, Jian Liu, Xi Zeng

“…Methods This study comprehensively analyzed several mainstream bioinformatics databases to explore the expression, diagnostic efficacy, clinical pathological features, immune infiltration, prognostic value, and biological functions of NCOA4 in LGG. …”
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RETRACTED: Mechanism of action of Asparagus officinalis extract against multiple myeloma using bioinformatics tools, in silico and in vitro study by Yanju Li, Xu Yang, Feiqing Wang, Feiqing Wang, Jianing Zhao, Chike Zhang, Dan Wu, Bo Yang, Rui Gao, Peng Zhao, Yun Zan, Min Su, Zhixu He, Yang Liu, Yang Liu, Yang Liu, Jishi Wang, Dongxin Tang

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Integrated bioinformatics analysis identified cuproptosis-related hub gene Mpeg1 as potential biomarker in spinal cord injury by Dandan Mao, Qi Chen, Shuolan Tong, Zixia Xu, Guofeng Yu, Chuan Chang, Yao Lv

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Development and functional validation of a disulfidoptosis-related gene prognostic model for lung adenocarcinoma based on bioinformatics and experimental validation by Tao Shen, Tao Shen, Zhuming Lu, Sisi Yang, Dongxi Zhang, Yongwen Ke, Zhuowen Chen, Jinqiang Wu, Jinqiang Wu, Weidong Wu

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