CircRNA-miRNA-mRNA regulatory network in high-altitude hypobaric hypoxia-induced hearing impairment and hearing acclimatization by Danzeng Awang, Kanzi Danzeng, Tianheng Wang, Quzong Deji, Mengting Huang, Hailong Ren, Xinzhu Liu, Binghan Zhao, Lanzi Gongga

“…The DEmRNAs in this network were functionally annotated using Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analyses based on Metascape. Results: The ABR assay indicated that hearing impairment happened on day 30 and hearing acclimatization occurred on day 60. …”
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SHP2 promotes the epithelial-mesenchymal transition in triple negative breast cancer cells by regulating β-catenin by Shihan Qian, Jingjing Zhu, Qing Han, Huang Cheng, Huaibin Zhou

“…Methods In this study, we conducted bioinformatics analysis of the Gene Expression Omnibus (GEO) and The Cancer Genome Atlas (TCGA) databases to examine PTPN11 (encoding SHP2) expression levels and perform survival analysis in TNBC. …”
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The role of the KIBRA and APOE genes in developing spatial abilities in humans by A. V. Kazantseva, R. F. Enikeeva, Yu. D. Davydova, R. N. Mustafin, Z. R. Takhirova, S. B. Malykh, M. M. Lobaskova, T. N. Tikhomirova, E. K. Khusnutdinova

“…According to neurobiological hypotheses, individual differences in cognitive abilities may be attributed to the functioning of genes involved in the regulation of neurogenesis and synaptic plasticity. In addition, genome-wide association studies identified rs17070145 located in the KIBRA gene, which was associated with individual differences in episodic memory. …”
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Re-annotation of SARS-CoV-2 proteins using an HHpred-based approach opens new opportunities for a better understanding of this virus by Brézellec, Pierre

“…Since the publication of the genome of SARS-CoV-2 – the causative agent of COVID-19 – in January 2020, many bioinformatic tools have been applied to annotate its proteins. …”
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Minerals, Toxic Heavy Metals, and Antioxidant Properties of Honeys from Bangladesh by Sudip Paul, Md. Sakib Hossen, E. M. Tanvir, Rizwana Afroz, Delwar Hossen, Sagarika Das, Nikhil Chandra Bhoumik, Nurul Karim, Farha Matin Juliana, Siew Hua Gan, Md. Ibrahim Khalil

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UBE2J1 is identified as a novel plasma cell-related gene involved in the prognosis of high-grade serous ovarian cancer by Yunjie Tian, Ruoyu Dong, Yingxia Guan, Ying Wang, Wei Zhao, Jun Zhang, Shan Kang

“…The effects of immune cell markers on prognosis were analyzed via univariate Cox regression, least absolute shrinkage and selection operator (LASSO) and gene set variation analysis (GSVA) of bulk sequencing data from The Cancer Genome Atlas (TCGA)-HGSOC cohort. Finally, the effects of key markers on HGSOC cells were evaluated via Cell Counting Kit-8 (CCK-8), Transwell, colony formation, wound healing, immunofluorescence and in vivo tumor growth assays. …”
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Identification and verification of autophagy-related gene signatures and their association with immune infiltration and drug responsiveness in epilepsy by Han-han He, Xiao-ge Zhang, Fen-fang Chen

“…Additionally, the functional enrichment analysis of Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) were applied. The hub ARDEGs were identified through CytoHubba, followed by the LASSO analysis. …”
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Analysing DNA methylation and transcriptomic signatures to predict prostate cancer recurrence risk by Fahad M. Aldakheel, Hadeel Alnajran, Shatha A. Alduraywish, Ayesha Mateen, Mohammed S. Alqahtani, Rabbani Syed

“…This study employs a machine learning approach to identify DNA methylation and RNA expression biomarkers predictive of PCa recurrence using datasets from The Cancer Genome Atlas (TCGA). We analyzed 49,133 genes, identifying 684 differentially methylated genes (DMGs) and 691 differentially expressed genes (DEGs) between recurrence and non-recurrence groups. …”
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Causal Association Between Obstructive Sleep Apnea and Migraine: A Bidirectional Mendelian Randomization Study by Wang YP, Wei HX, Hu YY, Zhang C, Niu YM

“…Investigating the causation will assist in understanding the etiology of OSA and migraine.Methods: Bidirectional two-sample Mendelian randomization (MR) and multivariable MR (MVMR) approaches were carried out to investigate the causal link between OSA and migraine. The public genome-wide association study (GWAS) data for OSA, migraine, and subtypes were obtained from the IUE open GWAS project and the FinnGen consortium. …”
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Epigallocatechin gallate (EGCG) modulates senescent endothelial cell-monocyte communication in age-related vascular inflammation by Sarvatit Patel, Kai Ellis, Kai Ellis, Corey A. Scipione, Jason E. Fish, Jason E. Fish, Jason E. Fish, Jason E. Fish, Kathryn L. Howe, Kathryn L. Howe, Kathryn L. Howe, Kathryn L. Howe, Kathryn L. Howe

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Effect of trace elements and nutrients on 21 autoimmune diseases: a Mendelian randomization study by Ming-Jie Jia, Hua-Fang Yin, Ying-Chao Liang, Feng Jiang, Hui-Lin Li, Hui-Lin Li

“…However, whether there is a genetic causal effect between serum trace elements, nutrients, and autoimmune diseases remains unclear.ObjectiveThis study aims to investigate the causal effects of serum trace elements and nutrients on 21 autoimmune diseases using Mendelian randomization (MR).MethodsSingle nucleotide polymorphisms for the exposure factors (serum trace elements and vitamins) were obtained from the published UK Biobank database and genome-wide association study (GWAS) public databases. …”
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Nerve Enlargement in Patients with INF2 Variants Causing Peripheral Neuropathy and Focal Segmental Glomerulosclerosis by Quynh Tran Thuy Huong, Linh Tran Nguyen Truc, Hiroko Ueda, Kenji Fukui, Koichiro Higasa, Yoshinori Sato, Shinichi Takeda, Motoshi Hattori, Hiroyasu Tsukaguchi

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GnIH secreted by green light exposure, regulates bone mass through the activation of Gpr147 by Yu You, Konglin Huo, Liang He, Tongyue Wang, Lei Zhao, Rong Li, Xiaoqing Cheng, Xuebin Ma, Zhiying Yue, Stefan Siwko, Ning Wang, Lujian Liao, Mingyao Liu, Jian Luo

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Biomass and Yield in Solanum lycopersicum Expressing a Synthetic Photorespiration Pathway by Laura Dougherty, Bret Cooper, James Bunce, Bryan Vinyard, John Stommel

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In-depth study of the nutritional composition, phytochemicals, antioxidant activity, molecular docking interactions, and toxicological evaluation of Abies marocana Trab. woody biom... by Malak Zirari, Marouane Aouji, Wissal Baghdad, Mohammed Er-rajy, Hamada Imtara, Feras Abujaber, Otmane Elharrati, Omar M. Noman, Mahmoud Tarayrah, Driss Hmouni, Nouredine El Mejdoub

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Exploring the inhibitory effect and mechanism of isorhamnetin therapy on oral squamous cell carcinoma based on network pharmacology and molecular docking by YU Fangfang, ZHOU Jingjing, YANG Jie, QU Huijuan, HUI Guangyan

“…At the same time, gene ontology (GO) and Kyoto encyclopedia of genes and genomes (KEGG) were used to analyze the related signaling pathways of the intersection targets. …”
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A meta-analysis of MHC diversity in Pan troglodytes verus by Christelle Vangenot, Alicia Sanchez‑Mazas

“…In humans, this system, also called HLA, is one of the most polymorphic regions of the genome and is consequently very informative to study peopling history. …”
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RETRACTED ARTICLE: NR3C2 affects the proliferation and invasiveness of colon cancer cells through the Wnt/β-Catenin signaling pathway by Ke Nie, Zhong-Jiang He, Ling-Jun Kong

“…Method mRNA (messenger RNA) data and clinical records pertaining to colon cancer were retrieved from The Cancer Genome Atlas (TCGA) database. The analysis of NR3C2 expression discrepancies between normal colon and tumor tissues was conducted using R software. …”
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Genetic variation reveals the therapeutic potential of BRSK2 in idiopathic pulmonary fibrosis by Zhe Chen, Mingyang Tang, Nan Wang, Jiangjiang Liu, Xiaoyan Tan, Haitao Ma, Jing Luo, Kai Xie

“…Methods We employed Mendelian randomization (MR) with three genome-wide association studies and four quantitative trait loci datasets to identify key driver genes for IPF. …”
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Potential Value of Circular RNA circTBC1D4 in Gastrointestinal Stromal Tumors by null Chunyan-Zou, null Yanpeng-He, null Changshun-Xie, null Fulai-Gao, null Xiaoli-Xie, null Xiukun-Chai, null Chenxi-He, null Dongqiang-Zhao

“…Gene Ontology (GO) analysis and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment were used to reveal the correlation between the functions of signaling pathways and target genes. …”
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